WO2016036794A1 - Conjugates comprising cell-binding agents and cytotoxic agents - Google Patents

Conjugates comprising cell-binding agents and cytotoxic agents Download PDF

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Publication number
WO2016036794A1
WO2016036794A1 PCT/US2015/048044 US2015048044W WO2016036794A1 WO 2016036794 A1 WO2016036794 A1 WO 2016036794A1 US 2015048044 W US2015048044 W US 2015048044W WO 2016036794 A1 WO2016036794 A1 WO 2016036794A1
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Prior art keywords
ala
antibody
conjugate
antigen
optionally substituted
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PCT/US2015/048044
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French (fr)
Inventor
Luke B. HARRIS
Daniel Tavares
Lingyun Rui
Nathan Elliott Fishkin
Manami Shizuka
Michael Louis Miller
Ravi V.J. Chari
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Immunogen, Inc.
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Publication date
Priority to EP15766288.3A priority Critical patent/EP3188733B1/en
Priority to CA2957964A priority patent/CA2957964A1/en
Priority to KR1020247005372A priority patent/KR20240027148A/en
Priority to JP2017512760A priority patent/JP2017529837A/en
Priority to KR1020237007792A priority patent/KR102638901B1/en
Priority to RU2017110068A priority patent/RU2017110068A/en
Application filed by Immunogen, Inc. filed Critical Immunogen, Inc.
Priority to KR1020177009020A priority patent/KR102508023B1/en
Priority to AU2015312075A priority patent/AU2015312075A1/en
Priority to SG11201701565PA priority patent/SG11201701565PA/en
Priority to CN201580059534.4A priority patent/CN107580604A/en
Publication of WO2016036794A1 publication Critical patent/WO2016036794A1/en
Priority to IL250711A priority patent/IL250711A0/en

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    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K16/00—Immunoglobulins [IGs], e.g. monoclonal or polyclonal antibodies
    • C07K16/18—Immunoglobulins [IGs], e.g. monoclonal or polyclonal antibodies against material from animals or humans
    • C07K16/28—Immunoglobulins [IGs], e.g. monoclonal or polyclonal antibodies against material from animals or humans against receptors, cell surface antigens or cell surface determinants
    • A—HUMAN NECESSITIES
    • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61K—PREPARATIONS FOR MEDICAL, DENTAL OR TOILETRY PURPOSES
    • A61K31/00—Medicinal preparations containing organic active ingredients
    • A61K31/33—Heterocyclic compounds
    • A61K31/395—Heterocyclic compounds having nitrogen as a ring hetero atom, e.g. guanethidine or rifamycins
    • A61K31/55—Heterocyclic compounds having nitrogen as a ring hetero atom, e.g. guanethidine or rifamycins having seven-membered rings, e.g. azelastine, pentylenetetrazole
    • A61K31/551—Heterocyclic compounds having nitrogen as a ring hetero atom, e.g. guanethidine or rifamycins having seven-membered rings, e.g. azelastine, pentylenetetrazole having two nitrogen atoms, e.g. dilazep
    • A61K31/5513—1,4-Benzodiazepines, e.g. diazepam or clozapine
    • A61K31/5517—1,4-Benzodiazepines, e.g. diazepam or clozapine condensed with five-membered rings having nitrogen as a ring hetero atom, e.g. imidazobenzodiazepines, triazolam
    • A—HUMAN NECESSITIES
    • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61K—PREPARATIONS FOR MEDICAL, DENTAL OR TOILETRY PURPOSES
    • A61K47/00—Medicinal preparations characterised by the non-active ingredients used, e.g. carriers or inert additives; Targeting or modifying agents chemically bound to the active ingredient
    • A61K47/50—Medicinal preparations characterised by the non-active ingredients used, e.g. carriers or inert additives; Targeting or modifying agents chemically bound to the active ingredient the non-active ingredient being chemically bound to the active ingredient, e.g. polymer-drug conjugates
    • A61K47/51—Medicinal preparations characterised by the non-active ingredients used, e.g. carriers or inert additives; Targeting or modifying agents chemically bound to the active ingredient the non-active ingredient being chemically bound to the active ingredient, e.g. polymer-drug conjugates the non-active ingredient being a modifying agent
    • A61K47/68—Medicinal preparations characterised by the non-active ingredients used, e.g. carriers or inert additives; Targeting or modifying agents chemically bound to the active ingredient the non-active ingredient being chemically bound to the active ingredient, e.g. polymer-drug conjugates the non-active ingredient being a modifying agent the modifying agent being an antibody, an immunoglobulin or a fragment thereof, e.g. an Fc-fragment
    • A61K47/6801—Drug-antibody or immunoglobulin conjugates defined by the pharmacologically or therapeutically active agent
    • A61K47/6803—Drugs conjugated to an antibody or immunoglobulin, e.g. cisplatin-antibody conjugates
    • A—HUMAN NECESSITIES
    • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61K—PREPARATIONS FOR MEDICAL, DENTAL OR TOILETRY PURPOSES
    • A61K47/00—Medicinal preparations characterised by the non-active ingredients used, e.g. carriers or inert additives; Targeting or modifying agents chemically bound to the active ingredient
    • A61K47/50—Medicinal preparations characterised by the non-active ingredients used, e.g. carriers or inert additives; Targeting or modifying agents chemically bound to the active ingredient the non-active ingredient being chemically bound to the active ingredient, e.g. polymer-drug conjugates
    • A61K47/51—Medicinal preparations characterised by the non-active ingredients used, e.g. carriers or inert additives; Targeting or modifying agents chemically bound to the active ingredient the non-active ingredient being chemically bound to the active ingredient, e.g. polymer-drug conjugates the non-active ingredient being a modifying agent
    • A61K47/68—Medicinal preparations characterised by the non-active ingredients used, e.g. carriers or inert additives; Targeting or modifying agents chemically bound to the active ingredient the non-active ingredient being chemically bound to the active ingredient, e.g. polymer-drug conjugates the non-active ingredient being a modifying agent the modifying agent being an antibody, an immunoglobulin or a fragment thereof, e.g. an Fc-fragment
    • A61K47/6835—Medicinal preparations characterised by the non-active ingredients used, e.g. carriers or inert additives; Targeting or modifying agents chemically bound to the active ingredient the non-active ingredient being chemically bound to the active ingredient, e.g. polymer-drug conjugates the non-active ingredient being a modifying agent the modifying agent being an antibody, an immunoglobulin or a fragment thereof, e.g. an Fc-fragment the modifying agent being an antibody or an immunoglobulin bearing at least one antigen-binding site
    • A61K47/6849—Medicinal preparations characterised by the non-active ingredients used, e.g. carriers or inert additives; Targeting or modifying agents chemically bound to the active ingredient the non-active ingredient being chemically bound to the active ingredient, e.g. polymer-drug conjugates the non-active ingredient being a modifying agent the modifying agent being an antibody, an immunoglobulin or a fragment thereof, e.g. an Fc-fragment the modifying agent being an antibody or an immunoglobulin bearing at least one antigen-binding site the antibody targeting a receptor, a cell surface antigen or a cell surface determinant
    • A—HUMAN NECESSITIES
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    • A61K—PREPARATIONS FOR MEDICAL, DENTAL OR TOILETRY PURPOSES
    • A61K47/00—Medicinal preparations characterised by the non-active ingredients used, e.g. carriers or inert additives; Targeting or modifying agents chemically bound to the active ingredient
    • A61K47/50—Medicinal preparations characterised by the non-active ingredients used, e.g. carriers or inert additives; Targeting or modifying agents chemically bound to the active ingredient the non-active ingredient being chemically bound to the active ingredient, e.g. polymer-drug conjugates
    • A61K47/51—Medicinal preparations characterised by the non-active ingredients used, e.g. carriers or inert additives; Targeting or modifying agents chemically bound to the active ingredient the non-active ingredient being chemically bound to the active ingredient, e.g. polymer-drug conjugates the non-active ingredient being a modifying agent
    • A61K47/68—Medicinal preparations characterised by the non-active ingredients used, e.g. carriers or inert additives; Targeting or modifying agents chemically bound to the active ingredient the non-active ingredient being chemically bound to the active ingredient, e.g. polymer-drug conjugates the non-active ingredient being a modifying agent the modifying agent being an antibody, an immunoglobulin or a fragment thereof, e.g. an Fc-fragment
    • A61K47/6835—Medicinal preparations characterised by the non-active ingredients used, e.g. carriers or inert additives; Targeting or modifying agents chemically bound to the active ingredient the non-active ingredient being chemically bound to the active ingredient, e.g. polymer-drug conjugates the non-active ingredient being a modifying agent the modifying agent being an antibody, an immunoglobulin or a fragment thereof, e.g. an Fc-fragment the modifying agent being an antibody or an immunoglobulin bearing at least one antigen-binding site
    • A61K47/6851—Medicinal preparations characterised by the non-active ingredients used, e.g. carriers or inert additives; Targeting or modifying agents chemically bound to the active ingredient the non-active ingredient being chemically bound to the active ingredient, e.g. polymer-drug conjugates the non-active ingredient being a modifying agent the modifying agent being an antibody, an immunoglobulin or a fragment thereof, e.g. an Fc-fragment the modifying agent being an antibody or an immunoglobulin bearing at least one antigen-binding site the antibody targeting a determinant of a tumour cell
    • A—HUMAN NECESSITIES
    • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61P—SPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
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    • A61P1/18—Drugs for disorders of the alimentary tract or the digestive system for pancreatic disorders, e.g. pancreatic enzymes
    • A—HUMAN NECESSITIES
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    • A61P13/12—Drugs for disorders of the urinary system of the kidneys
    • A—HUMAN NECESSITIES
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    • A61P17/00—Drugs for dermatological disorders
    • A61P17/02—Drugs for dermatological disorders for treating wounds, ulcers, burns, scars, keloids, or the like
    • A—HUMAN NECESSITIES
    • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61P—SPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
    • A61P19/00—Drugs for skeletal disorders
    • A61P19/02—Drugs for skeletal disorders for joint disorders, e.g. arthritis, arthrosis
    • A—HUMAN NECESSITIES
    • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61P—SPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
    • A61P19/00—Drugs for skeletal disorders
    • A61P19/08—Drugs for skeletal disorders for bone diseases, e.g. rachitism, Paget's disease
    • A—HUMAN NECESSITIES
    • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61P—SPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
    • A61P21/00—Drugs for disorders of the muscular or neuromuscular system
    • A—HUMAN NECESSITIES
    • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61P—SPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
    • A61P25/00—Drugs for disorders of the nervous system
    • A—HUMAN NECESSITIES
    • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61P—SPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
    • A61P29/00—Non-central analgesic, antipyretic or antiinflammatory agents, e.g. antirheumatic agents; Non-steroidal antiinflammatory drugs [NSAID]
    • A—HUMAN NECESSITIES
    • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61P—SPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
    • A61P31/00—Antiinfectives, i.e. antibiotics, antiseptics, chemotherapeutics
    • A—HUMAN NECESSITIES
    • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61P—SPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
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    • A61P31/12—Antivirals
    • A—HUMAN NECESSITIES
    • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
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    • A61P35/00—Antineoplastic agents
    • A—HUMAN NECESSITIES
    • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61P—SPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
    • A61P35/00—Antineoplastic agents
    • A61P35/02—Antineoplastic agents specific for leukemia
    • A—HUMAN NECESSITIES
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    • A61P—SPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
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    • A—HUMAN NECESSITIES
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    • A61P37/00—Drugs for immunological or allergic disorders
    • A61P37/02—Immunomodulators
    • A61P37/06—Immunosuppressants, e.g. drugs for graft rejection
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K16/00—Immunoglobulins [IGs], e.g. monoclonal or polyclonal antibodies
    • C07K16/18—Immunoglobulins [IGs], e.g. monoclonal or polyclonal antibodies against material from animals or humans
    • C07K16/28—Immunoglobulins [IGs], e.g. monoclonal or polyclonal antibodies against material from animals or humans against receptors, cell surface antigens or cell surface determinants
    • C07K16/2866—Immunoglobulins [IGs], e.g. monoclonal or polyclonal antibodies against material from animals or humans against receptors, cell surface antigens or cell surface determinants against receptors for cytokines, lymphokines, interferons
    • A—HUMAN NECESSITIES
    • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61K—PREPARATIONS FOR MEDICAL, DENTAL OR TOILETRY PURPOSES
    • A61K39/00—Medicinal preparations containing antigens or antibodies
    • A61K2039/505—Medicinal preparations containing antigens or antibodies comprising antibodies
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K2317/00—Immunoglobulins specific features
    • C07K2317/20—Immunoglobulins specific features characterized by taxonomic origin
    • C07K2317/21—Immunoglobulins specific features characterized by taxonomic origin from primates, e.g. man
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K2317/00—Immunoglobulins specific features
    • C07K2317/20—Immunoglobulins specific features characterized by taxonomic origin
    • C07K2317/24—Immunoglobulins specific features characterized by taxonomic origin containing regions, domains or residues from different species, e.g. chimeric, humanized or veneered
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K2317/00—Immunoglobulins specific features
    • C07K2317/50—Immunoglobulins specific features characterized by immunoglobulin fragments
    • C07K2317/515—Complete light chain, i.e. VL + CL
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K2317/00—Immunoglobulins specific features
    • C07K2317/50—Immunoglobulins specific features characterized by immunoglobulin fragments
    • C07K2317/56—Immunoglobulins specific features characterized by immunoglobulin fragments variable (Fv) region, i.e. VH and/or VL
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K2317/00—Immunoglobulins specific features
    • C07K2317/70—Immunoglobulins specific features characterized by effect upon binding to a cell or to an antigen
    • C07K2317/73—Inducing cell death, e.g. apoptosis, necrosis or inhibition of cell proliferation

Definitions

  • ADC Antibody-drug conjugates
  • cell binding agent-drug conjugates are emerging as a powerful class of anti-tumor agents with efficacy across a range of cancers.
  • Cell binding agent-drug conjugates are commonly composed of three distinct elements: a cell-binding agent (e.g. , an antibody); a linker; and a cytotoxic moiety.
  • the cytotoxic drug moiety is covalently attached to lysines on the antibody, resulting in conjugates that are heterogeneous mixtures of ADCs bearing varying numbers of drugs attached at different positions on the antibody molecule.
  • the 2-hydroxyethylamine moiety of a N-terminal serine residue on a cell binding agent can be selectively oxidized to an aldehyde group without over-oxidation of the antibody.
  • the resulting antibody having an aldehyde group allows site- specific conjugation with a cytotoxic drug having an aldehyde reactive group or through a linker compound having an aldehyde reactive group.
  • the resulting antibody-drug conjugates surprisingly retain antigen binding affinity similar to the unconjugated antibody, despite the fact that the conjugation site is located at the N-terminus of the antibody.
  • the resulting conjugates unexpectedly exhibit high potency despite having a drug load of only two molecules linked per antibody and are better tolerated as compared to lysine-linked conjugates.
  • the cell binding agent such as an antibody
  • oxime linkage is highly stable in vivo.
  • the present invention provides a cell-binding agent-cytotoxic agent conjugate represented by the following structural formula: or a pharmaceutically acceptable salt thereof, wherein:
  • CBA is a cell-binding agent covalently linked to the JCB' group
  • JCB' is a moiety formed by reacting an aldehyde group on the CBA and an aldehyde reactive group connected to the group L, wherein the aldehyde group is derived from oxidation of a 2-hydroxyethylamine moiety represented by the following structural formula:
  • 2-hydroxyethylamine moiety being part of a serine, threonine, hydroxylysine, 4-hydroxyornithine or 2,4-diamino-5-hydroxy valeric acid residue;
  • L is a spacer or a bond
  • J D ' is a linking moiety connecting the cytotoxic agent D with the group L or absent when L is a bond;
  • D is a cytotoxic agent covalently linked to L through the linking moiety Jo'or to CBA through J C B' when L is a bond;
  • w 1, 2, 3 or 4.
  • the present invention also provides a recombinant antibody heavy chain (HC), light chain (LC), or an antigen-binding portion thereof, comprising a heterologous signal peptide having an amino acid sequence of SEQ ID NO: 1.
  • the present invention further provides a recombinant antibody heavy chain (HC), light chain (LC), or an antigen-binding portion thereof, comprising a Ser or Thr residue immediately C-terminal to the last residue of the signal peptide of the heavy chain (HC), light chain (LC), or antigen-binding portion thereof.
  • the present invention also includes a polynucleotide encoding the recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof described herein and a method of producing a recombinant antibody heavy chain (HC), light chain (LC), or an antigen-binding portion thereof described herein.
  • the present invention is directed to a method of preparing a cell- binding agent-cytotoxic agent conjugate, comprising the steps of:
  • cytotoxic agent (iii) a cytotoxic agent followed by the addition of a linker compound having an aldehyde reactive group and a reactive group that can form a covalent bond with the cytotoxic agent to form the cell-binding agent-cytotoxic agent conjugate.
  • linker compound having an aldehyde reactive group and a reactive group that can form a covalent bond with the cytotoxic agent to form the cell-binding agent-cytotoxic agent conjugate.
  • L D ', L D ", and L D ' " is represented by the following formula:
  • P is an amino acid residue or a peptide containing between 2 to 20 amino acid residues
  • R a and R b are independently -H, (Ci-C 3 )alkyl or a charged substituent or an ionizable group Q;
  • r and r' are independently an integer from 1 to 6;
  • the double line— between N and C represents a single bond or a double bond, provided that when it is a double bond X is absent and Y is -H, or a linear or branched alkyl having 1 to 4 carbon atoms, and when it is a single bond, X is -H or an amine protecting moiety;
  • Y is a leaving group selected from -OR, -OCOR', -OCOOR', -OCONR'R", -NR'R", -NR'COR", -NR'NR'R", an optionally substituted 5- or 6-membered nitrogen-containing heterocycle (e.g., piperidine, tetrahydropyrrole, pyrazole, morpholine, etc.
  • an optionally substituted 5- or 6-membered nitrogen-containing heterocycle e.g., piperidine, tetrahydropyrrole, pyrazole, morpholine, etc.
  • R for each occurrence, is independently selected from the group consisting of -H, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, a polyethylene glycol unit -(CH 2 CH 2 0) n -R c , an optionally substituted aryl having 6 to 18 carbon atoms, an optionally substituted 5- to 18-membered heteroaryl ring containing one or more heteroatoms independently selected from nitrogen, oxygen, and sulfur, or an optionally substituted 3- to 18-membered heterocyclic ring containing 1 to 6 heteroatoms independently selected from O, S, N and P;
  • R' and R" are each independently selected from -H, -OH, -OR, -NHR, -NR 2 , -COR, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, a polyethylene glycol unit -(CH 2 CH 2 0) n -R c , and an optionally substituted 3- to 18-membered heterocyclic ring having 1 to 6 heteroatoms independently selected from O, S, N and P;
  • R c is -H or an optionally substituted linear or branched alkyl having 1 to 4 carbon atoms;
  • n is an integer from 1 to 24;
  • X' is selected from -H, an amine-protecting group, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, a polyethylene glycol unit -(CH 2 CH 2 0) n -R c , an optionally substituted aryl having 6 to 18 carbon atoms, an optionally substituted 5- to 18-membered heteroaryl ring containing one or more heteroatoms independently selected from nitrogen, oxygen, and sulfur, and an optionally substituted 3- to 18-membered heterocyclic ring containing 1 to 6 heteroatoms independently selected from O, S, N and P;
  • Y' is selected from -H, an oxo group, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, an optionally substituted 6- to 18-membered aryl, an optionally substituted 5- to 18-membered heteroaryl ring containing one or more heteroatoms independently selected from nitrogen, oxygen, and sulfur, an optionally substituted 3- to 18-membered heterocyclic ring having 1 to 6 heteroatoms;
  • R 6 is -H, -R, -OR, -SR, -NR'R" , -N0 2 , or halogen;
  • R5 and R 9 are each independently -H or an optionally substituted linear or branched alkyl having 1 to 10 carbon atoms;
  • JCB is an aldehyde reactive group.
  • composition comprising a conjugate of formula (I) or a cytotoxic compound of formulas (D18')-(D23') or a
  • the pharmaceutical composition can further include a second therapeutic (e.g. , chemotherapeutic) agent.
  • a second therapeutic e.g. , chemotherapeutic
  • the present invention also includes a method of inhibiting abnormal cell growth or treating a proliferative disorder, a destructive bone disorder, an autoimmune disorder, a graft versus host disease, a transplant rejection, an immune deficiency, an inflammatory diseases, an infectious disease, a viral disease, a fibrotic disease, a neurodegenerative disorder, pancreatitis, or a kidney disease in a mammal (e.g. , human), comprising administering to said mammal a therapeutically effective amount of a conjugate formula (I) or, a cytotoxic compound represented of formulas (D18')-(D23') or a pharmaceutically acceptable salt thereof.
  • a conjugate formula (I) or, a cytotoxic compound represented of formulas (D18')-(D23') or a pharmaceutically acceptable salt thereof comprising administering to said mammal a therapeutically effective amount of a conjugate formula (I) or, a cytotoxic compound represented of formulas (D18')-(D23'
  • the method described above further comprises administering to said mammal sequentially or consecutively a second therapeutic (e.g., chemotherapeutic) agent.
  • a second therapeutic e.g., chemotherapeutic
  • Figure 1 shows Scheme 1 for synthesizing the huMOV19-NTS#2-Linkerl -Compound A ADC using engineered N-terminal Ser-containing humanized monoclonal antibody huMOV19-NTS#2.
  • Figure 2 is Q-ToF Mass Spectrometry (MS) data of intact huMOV19-NTS#2- Linkerl -Compound A. It is apparent that the reaction product is a homogeneous ADC with two incorporated Compound A molecules per antibody.
  • Figure 3 shows Scheme 2 for synthesizing the huMOV19-NTS#2-aminooxy-acetyl- MayNMA ADC using engineered N-terminal Ser-containing humanized monoclonal antibody huMOV19-NTS#2.
  • Figure 4 is Q-ToF Mass Spectrometry (MS) data of intact huMOV19-NTS#2- aminooxy-acetyl- MayNMA. It is apparent that the reaction product is a homogeneous ADC with two incorporated MayNMA molecules per antibody.
  • Figure 5 shows Scheme 3 for synthesizing the Antibody (such as huMOV19-NTS#l)- Linkerl -Compound A ADC using engineered N-terminal Ser-containing humanized monoclonal antibody (e.g. , huMOV19-NTS#l).
  • Figure 6 shows Q-ToF Mass Spectrometry (MS) data of intact huMOV19-NTS#l- Linkerl -Compound A.
  • Figure 7A demonstrates that N-terminal Ser-specific conjugation does not noticeably affect antibody binding to antigen.
  • huMOV19-NTS#2- MayNMA or SeriMab- May
  • huMOV19-NTS#2-Compound A or SeriMab-sDGN462
  • ADCs comprising the humanized IgG monoclonal antibody huMOV19, linked through an engineered N-terminal Ser residue to Maytansinoid and cytotoxic Compound A (or sulfonated DGN462
  • T47D i.e. , the FRa antigen on the surface
  • ADCs or the control antibody or the FACS buffer control
  • FACS detection of FITC-conjugated Goat Anti-Human-IgG-Fcy secondary antibody bound to any ADC (or control Ab) on T47D surface was measured by FACS detection of FITC-conjugated Goat Anti-Human-IgG-Fcy secondary antibody bound to any ADC (or control Ab) on T47D surface.
  • Figure 7B shows FACS binding data for huMOV19-NTS#2-Linkerl-Comopund A to T47D cells expressing the FRa- antigen.
  • Both lysine-loaded huMOV19-sSPDB-Compound A and N-terminal modified huMOV19-NTS#2-Linkerl -Compound A have comparable cell binding, which is also similar to that of unconjugated native huMOV19 and engineered huMOV19-NTS#2 (see EC 50 values in the table).
  • FIG 8A shows that N-terminal Ser-specific modification or conjugation does not noticeably affect antibody binding to antigen.
  • wildtype anti-FRa antibody huMOV19 its N-terminal Ser modified version huMOV19- NTS#2 ("SeriMab"), and their respective conjugates to maytansinoid -
  • Ab-SMCC-DMl wildtype huMOV19 linked through Lys residues to DM1 via SMCC linkers
  • SeriMab- May huMOV19-NTS#2 linked through the engineered N-terminal Ser to maytansinoid
  • FIG. 8B shows that N-terminal Ser-specific modification or conjugation does not noticeably affect antibody binding to antigen.
  • wildtype anti-FRa antibody huMOV19, its N-terminal Ser modified version huMOV19- NTS#2 (“SeriMab”) and its conjugate to the cytotoxic Compound A (SeriMab-sDGN462) all have essentially the same binding affinity to the FRa-bearing T47D cells, as measured by FACS.
  • Figure 9 A shows the result of cytotoxic evaluation of the ADC conjugate MOV 19- NTS#2-Linkerl -Compound A on the KB cervical cancer cell line.
  • the data shows that the subject site-specific N-terminal Ser linked SERIMab-Compound A conjugate is about 3-fold more potent than the lysine-conjugated sSPDB-Compound A on the basis of antibody concentration, and about 5-fold more potent based on Compound A concentration.
  • Both conjugates have identical antigen-independent activity, since potency for the two tested conjugates, in the presence of 1 ⁇ unconjugated huMOV19 to block antigen binding sites on the KB cells, are nearly identical.
  • FIG. 9B shows the result of cytotoxic evaluation of the ADC conjugate SeriMab- May on KB cervical cancer cell line.
  • the data shows that SeriMab- May conjugate has the same potency as the lysine-conjugate Ab-SMCC-DMl with higher DAR (cytotoxic compound to antibody ratio).
  • Figures 10 and 11 show exemplary cytotoxic compounds that can be used in preparing the conjugates of the present invention.
  • Figures 12A-12D show exemplary schemes for preparing the conjugates of the present invention.
  • Figure 13 shows the in vivo efficacy for huMOV19-NTS#2-Linkerl -Compound A conjugate in NCTH2110 bearing SCID mice.
  • Figure 14A shows the structure of SeriMab- sDGN462 conjugate with a disulfide linker. Dotted lines indicate the location of cleavage sites which lead to the observed target cell catabolites.
  • Figure 14B shows scheme for incubation, purification, and isolation of catabolites from SeriMab-sDGN462 conjugate formed in KB cervical cancer cells in vitro. The four catabolites identified by LC-MS are shown along with the calculated and observed m/z ratios.
  • Figure 15A shows the structure of SeriMab-May conjugate with a non-cleavable linker. Dotted lines indicate the location of cleavage sites which lead to the observed target cell catabolites.
  • Figure 15B shows scheme for incubation, purification, and isolation of catabolites from SeriMab- May conjugate formed in KB cervical cancer cells in vitro. The two catabolites identified by LC-MS are shown along with the calculated and observed m/z ratios.
  • Figure 16 shows the results of bystander killing assay for SeriMab-sDGN462 and the corresponding Lys-linked conjugated Ab-sSPDB-sDGN462.
  • Figure 17 shows an exemplary scheme for synthesizing the huCD123-sD8 conjugate using engineered N-terminal Ser-containing humanized monoclonal antibody.
  • Figure 18 shows an exemplary scheme for synthesizing the huCD123-6-SeriMab-sDl conjugate bearing a Linker 1 residue.
  • Figure 19 shows an exemplary scheme for synthesizing the huMOV19NTS2S3- SeriMab-DGN462 or -sDGN462 conjugate with 4 DAR (huMovl9NTS2S3-SeriMab- sDGN462), which bears a Linker 1 residue.
  • Figure 20 shows Q-ToF Mass Spectrometry (MS) data of huMOV19NTS2S3- SeriMab-sDGN462 conjugate with 4 DAR (huMovl9NTS2S3-SeriMab-sDGN462).
  • FIG. 21A shows an exemplary scheme for synthesizing the huMOV19NTS2S3- SeriMab- MayNMA conjugate with 4 DAR.
  • Figure 21B shows Q-ToF Mass Spectrometry (MS) data of the Ser-linked huMOV19-SeriMab- MayNMA conjugate with 4 DAR.
  • MS Mass Spectrometry
  • FIGS 22A-22C show that SeriMab of huCD123-6 (huCD123-6Rvl.lS2-SeriMab- D8, filled black circle) is at least as active as the lysine-linked conjugate (huCD123-6Rvl.l- D2, filled downward black triangle) of the same antibody in AML cell lines SHI-1 (FIG. 22A) and HNT-34 (FIG. 22B), as well as the CML cell line MOLM-1 (FIG. 22C).
  • the dotted curves connecting open data points in each figure represent activity of the respective conjugates (i.e., open circle for huCD123-6Rvl.lS2-SeriMab-D8, and open downward triangle for huCD123-6Rvl. l-D2) in the presence of blocking concentration (500 nM) of the unconjugated huCD 123-6 antibody.
  • the dotted curves connecting open data points in each figure represent activity of the respective conjugates (i.e., open circle for huCD123-6Rvl.lS2-SeriMab-D8, and open downward triangle for huCD123-6Rvl. l-D2) in the presence of blocking concentration (500 nM) of the unconjugated huCD 123-6 antibody.
  • blocking concentration 500 nM
  • FIG. 23 shows N-terminal Ser- specific modification or conjugation does not noticeably affect antibody binding to antigen.
  • Wild-type anti-FRa huMOV19 antibody, its N-terminal Ser modified version huMOV19-NTS2 ("huMOV19-SeriMab antibody”) and its conjugate to the cytotoxic compound D8 (huMOV19-SeriMab-D8) all have essentially the same binding affinity to the FRa-bearing T47D cells, as measured by FACS.
  • Figure 24 shows that huCD123-6Gv4.7S3-SeriMab-sDl conjugate (see Figure 18) shows similar potency as the huCD123-6Gv4.7S2(or S3)-SeriMab-D8 conjugate in EOL-1 cells. Results for the Lys-linked huCD123-6Gv4.7S3-sSPDB-Dl and huCD123-6Gv4.7S3- D2 conjugates are also shown.
  • Figure 25 shows Ser- linked DGN462 compound with huCD123 antibody has 3-fold higher antigen- specific potency against EOL-1 cells than lysine linked version with higher DAR.
  • FIGS 26A-26C show that SeriMab-D8 (huMOV19-NTS#2-SeriMab-D8) conjugate has comparable antigen- specific potency and target binding as the lysine conjugate
  • Figure 27 shows the results of bystander killing assay for huMOV19-SeriMab-D8 and the corresponding Lys-linked conjugated huMOV19-D2.
  • Figure 28 shows in vivo stability of the oxime linkage in huMOV19-NTS#2- aminooxy-acetyl- MayNMA conjugate.
  • Figure 29 shows individual body weight percent change of female CD-I mice treated with 100 ⁇ g/kg or 150 ⁇ g/kg of lysine-linked huMOV19-D2 conjugate or 200 ⁇ g/kg huMOV19-SeriMab-D8.
  • Figure 30 shows an exemplary scheme for synthesizing the conjugate of the present invention.
  • Figures 31A and 3 IB shown exemplary schemes for synthesizing the conjugate of the present invention.
  • Linear or branched alkyl refers to a saturated linear or branched- chain monovalent hydrocarbon radical of one to twenty carbon atoms.
  • alkyl include, but are not limited to, methyl, ethyl, 1 -propyl, 2-propyl, 1 -butyl, 2-methyl-l -propyl, - CH 2 CH(CH 3 ) 2 ), 2-butyl, 2-methyl-2-propyl, 1-pentyl, 2-pentyl 3-pentyl, 2-methyl-2-butyl, 3- methyl-2-butyl, 3-methyl-l -butyl, 2-methyl-l -butyl, 1-hexyl), 2-hexyl, 3-hexyl, 2-methyl-2- pentyl, 3-methyl-2-pentyl, 4-methyl-2-pentyl, 3-methyl-3-pentyl, 2-methyl-3-pentyl, 2,3- dimethyl-2-butyl, 3,3-di
  • the alkenyl has two to ten carbon atoms. More preferably, the alkyl has two to four carbon atoms.
  • Linear or branched alkynyl refers to a linear or branched monovalent
  • hydrocarbon radical of two to twenty carbon atoms with at least one site of unsaturation i.e., a carbon-carbon, triple bond.
  • examples include, but are not limited to, ethynyl, propynyl, 1- butynyl, 2-butynyl, 1-pentynyl, 2-pentynyl, 3-pentynyl, hexynyl, and the like.
  • the alkynyl has two to ten carbon atoms. More preferably, the alkynyl has two to four carbon atoms.
  • carrier refers to a monovalent non-aromatic, saturated or partially unsaturated ring having 3 to 12 carbon atoms as a monocyclic ring or 7 to 12 carbon atoms as a bicyclic ring.
  • Bicyclic carbocycles having 7 to 12 atoms can be arranged, for example, as a bicyclo [4,5], [5,5], [5,6], or [6,6] system, and bicyclic carbocycles having 9 or 10 ring atoms can be arranged as a bicyclo [5,6] or [6,6] system, or as bridged systems such as bicyclo[2.2.1]heptane, bicyclo[2.2.2]octane and bicyclo[3.2.2]nonane.
  • monocyclic carbocycles include, but are not limited to, cyclopropyl, cyclobutyl, cyclopentyl, 1-cyclopent-l-enyl, l-cyclopent-2-enyl, l-cyclopent-3- enyl, cyclohexyl, 1-cyclohex-l-enyl, l-cyclohex-2-enyl, l-cyclohex-3-enyl, cyclohexadienyl, cycloheptyl, cyclooctyl, cyclononyl, cyclodecyl, cycloundecyl, cyclododecyl, and the like.
  • cyclic alkyl and “cycloalkyl” can be used interchangeably. They refer to a monovalent saturated carbocyclic ring radical. Preferably, the cyclic alkyl is 3 to 7 membered monocyclic ring radical. More preferably, the cyclic alkyl is cyclohexyl.
  • cyclic alkenyl refers to a carbocyclic ring radical having at least one double bond in the ring structure.
  • cyclic alkynyl refers to a carbocyclic ring radical having at least one triple bond in the ring structure.
  • Aryl means a monovalent aromatic hydrocarbon radical of 6-18 carbon atoms derived by the removal of one hydrogen atom from a single carbon atom of a parent aromatic ring system. Some aryl groups are represented in the exemplary structures as "Ar.” Aryl includes bicyclic radicals comprising an aromatic ring fused to a saturated, partially unsaturated ring, or aromatic carbocyclic or heterocyclic ring.
  • Typical aryl groups include, but are not limited to, radicals derived from benzene (phenyl), substituted benzenes, naphthalene, anthracene, indenyl, indanyl, 1,2-dihydronapthalene, 1,2,3,4-tetrahydronapthyl, and the like.
  • aryl is phenyl group.
  • heterocycle refers to a saturated or a partially unsaturated (i.e., having one or more double and/or triple bonds within the ring) carbocyclic radical of 3 to 18 ring atoms in which at least one ring atom is a heteroatom selected from nitrogen, oxygen, phosphorus, and sulfur, the remaining ring atoms being C, where one or more ring atoms is optionally substituted independently with one or more substituents described below.
  • a heterocycle may be a monocycle having 3 to 7 ring members (2 to 6 carbon atoms and 1 to 4 heteroatoms selected from N, O, P, and S) or a bicycle having 7 to 10 ring members (4 to 9 carbon atoms and 1 to 6 heteroatoms selected from N, O, P, and S), for example: a bicyclo [4,5], [5,5], [5,6], or [6,6] system.
  • Heterocycles are described in Paquette, Leo A.; "Principles of Modern Heterocyclic Chemistry" (W. A.
  • Heterocyclyl also includes radicals where heterocycle radicals are fused with a saturated, partially unsaturated ring, or aromatic carbocyclic or heterocyclic ring.
  • heterocyclic rings include, but are not limited to, pyrrolidinyl, tetrahydrofuranyl, dihydrofuranyl, tetrahydrothienyl, tetrahydropyranyl, dihydropyranyl, tetrahydrothiopyranyl, piperidino, morpholino, thiomorpholino, thioxanyl, piperazinyl, homopiperazinyl, azetidinyl, oxetanyl, thietanyl, homopiperidinyl, oxepanyl, thiepanyl, oxazepinyl, diazepinyl, thiazepinyl, 2-pyrrolinyl, 3-pyrrolinyl, indolinyl, 2H-pyranyl, 4H- pyranyl, dioxanyl, 1,3-dioxolanyl, pyrazolinyl, dithianyl, dithiola
  • Spiro moieties are also included within the scope of this definition.
  • heteroaryl refers to a monovalent aromatic radical of 5- or 6-membered rings, and includes fused ring systems (at least one of which is aromatic) of 5- 18 atoms, containing one or more heteroatoms independently selected from nitrogen, oxygen, and sulfur.
  • heteroaryl groups are pyridinyl (including, for example, 2- hydroxypyridinyl), imidazolyl, imidazopyridinyl, pyrimidinyl (including, for example, 4- hydroxypyrimidinyl), pyrazolyl, triazolyl, pyrazinyl, tetrazolyl, furyl, thienyl, isoxazolyl, thiazolyl, oxazolyl, isothiazolyl, pyrrolyl, quinolinyl, isoquinolinyl, indolyl, benzimidazolyl, benzofuranyl, cinnolinyl, indazolyl, indolizinyl, phthalazinyl, pyridazinyl, triazinyl, isoindolyl, pteridinyl, purinyl, oxadiazolyl, triazolyl, thiadiazolyl, furazanyl
  • the heterocycle or heteroaryl groups may be carbon (carbon-linked) or nitrogen (nitrogen-linked) attached where such is possible.
  • carbon bonded heterocycles or heteroaryls are bonded at position 2, 3, 4, 5, or 6 of a pyridine, position 3, 4, 5, or 6 of a pyridazine, position 2, 4, 5, or 6 of a pyrimidine, position 2, 3, 5, or 6 of a pyrazine, position 2, 3, 4, or 5 of a furan, tetrahydrofuran, thiofuran, thiophene, pyrrole or tetrahydropyrrole, position 2, 4, or 5 of an oxazole, imidazole or thiazole, position 3, 4, or 5 of an isoxazole, pyrazole, or isothiazole, position 2 or 3 of an aziridine, position 2, 3, or 4 of an azetidine, position 2, 3, 4, 5, 6, 7, or 8 of a quinoline or position 1, 3, 4,
  • nitrogen bonded heterocycles or heteroaryls are bonded at position 1 of an aziridine, azetidine, pyrrole, pyrrolidine, 2-pyrroline, 3- pyrroline, imidazole, imidazolidine, 2-imidazoline, 3-imidazoline, pyrazole, pyrazoline, 2- pyrazoline, 3-pyrazoline, piperidine, piperazine, indole, indoline, IH-indazole, position 2 of a isoindole, or isoindoline, position 4 of a morpholine, and position 9 of a carbazole, or O- carboline.
  • heteroatoms present in heteroaryl or heterocyclcyl include the oxidized forms such as NO, SO, and S0 2 .
  • halo or halogen refers to F, CI, Br or I.
  • alkyl, alkenyl, alkynyl, cyclic alkyl, cyclic alkenyl, cyclic alkynyl, carbocyclyl, aryl, heterocyclyl and heteroaryl described above can be optionally substituted with one more (e.g. , 2, 3, 4, 5, 6 or more) substituents.
  • a substituent is described as being "substituted," a non-hydrogen substituent is in the place of a hydrogen substituent on a carbon, oxygen, sulfur or nitrogen of the substituent.
  • a substituted alkyl substituent is an alkyl substituent wherein at least one non-hydrogen substituent is in the place of a hydrogen substituent on the alkyl substituent.
  • monofluoroalkyl is alkyl substituted with a fluoro substituent
  • difluoroalkyl is alkyl substituted with two fluoro substituents. It should be recognized that if there is more than one substitution on a substituent, each non-hydrogen substituent may be identical or different (unless otherwise stated).
  • a substituent is described as being “optionally substituted,” the substituent may be either (1) not substituted, or (2) substituted. If a carbon of a substituent is described as being optionally substituted with one or more of a list of substituents, one or more of the hydrogens on the carbon (to the extent there are any) may separately and/or together be replaced with an independently selected optional substituent. If a nitrogen of a substituent is described as being optionally substituted with one or more of a list of substituents, one or more of the hydrogens on the nitrogen (to the extent there are any) may each be replaced with an independently selected optional substituent.
  • One exemplary substituent may be depicted as - NR'R", wherein R' and R" together with the nitrogen atom to which they are attached, may form a heterocyclic ring.
  • the heterocyclic ring formed from R' and R' ' together with the nitrogen atom to which they are attached may be partially or fully saturated.
  • the heterocyclic ring consists of 3 to 7 atoms.
  • the heterocyclic ring is selected from the group consisting of pyrrolyl, imidazolyl, pyrazolyl, triazolyl, tetrazolyl, isoxazolyl, pyridyl and thiazolyl.
  • a group of substituents are collectively described as being optionally substituted by one or more of a list of substituents, the group may include: (1) unsubstitutable substituents, (2) substitutable substituents that are not substituted by the optional substituents, and/or (3) substitutable substituents that are substituted by one or more of the optional substituents.
  • a substituent is described as being optionally substituted with up to a particular number of non-hydrogen substituents, that substituent may be either (1) not substituted; or (2) substituted by up to that particular number of non-hydrogen substituents or by up to the maximum number of substitutable positions on the substituent, whichever is less.
  • a substituent is described as a heteroaryl optionally substituted with up to 3 non- hydrogen substituents, then any heteroaryl with less than 3 substitutable positions would be optionally substituted by up to only as many non-hydrogen substituents as the heteroaryl has substitutable positions.
  • R are each independently selected from H, linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, a polyethylene glycol unit (-OCH 2 CH 2 ) n -R 104 , wherein n is an integer from 1 to 24, an aryl having from 6 to 10 carbon atoms, a heterocyclic ring having from 3 to 10 carbon atoms and a heteroaryl having 5 to 10 carbon atoms; and R 104 is H or a linear or branched alkyl having 1 to 4 carbon atoms, wherein the alkyl, alkenyl, alkynyl, aryl, heteroaryl and heterocyclcyl in the groups represented by R 100 , R 101 , R 102 , R 103 and R 104 are optionally substituted with one or more (e.g.
  • substituents independently selected from halogen, -OH, -CN, -N0 2 and unsubstituted linear or branched alkyl having 1 to 4 carbon atoms.
  • substituents for the optionally substituted alkyl, alkenyl, alkynyl, cyclic alkyl, cyclic alkenyl, cyclic alkynyl, carbocyclyl, aryl, heterocyclyl and heteroaryl described above include halogen, -CN, -NR 102 R 103 , -CF 3 , -OR 101 , aryl, heteroaryl, heterocycycl, -SR 101 , -SOR 101 , -S0 2 R 101 and -SO 3 M.
  • cytotoxic compound or "cytotoxic compound,” “cytotoxic dimer” and “cytotoxic dimer compound” are used interchangeably. They are intended to include compounds for which a structure or formula or any derivative thereof has been disclosed in the present invention or a structure or formula or any derivative thereof that has been incorporated by reference.
  • the term also includes, stereoisomers, geometric isomers, tautomers, solvates, metabolites, salts (e.g. , pharmaceutically acceptable salts) and prodrugs, and prodrug salts of a compound of all the formulae disclosed in the present invention.
  • the term also includes any solvates, hydrates, and polymorphs of any of the foregoing.
  • stereoisomers geometric isomers
  • tautomers solvates
  • metabolites e.g. , pharmaceutically acceptable salts
  • CBA cell binding agent
  • Immunoconjugates can also be defined by the generic formula in reverse order: C-L-A.
  • linkable to a cell binding agent refers to the compounds described herein or derivates thereof comprising at least one linking group or a precursor thereof suitable to bond these compounds or derivatives thereof to a cell binding agent.
  • precursor of a given group refers to any group which may lead to that group by any deprotection, a chemical modification, or a coupling reaction.
  • the term "linked to a cell binding agent” refers to a conjugate molecule comprising at least one of the cytotoxic agent compounds or cytotoxic agent-linker compounds described herein (e.g. , compounds of formulas (D1')-(D29') and cytotoxic agent-linker compounds of formula (II)), or derivative thereof bound to a cell binding agent via a suitable linking group or a precursor thereof.
  • stereoisomer refers to compounds which have identical chemical constitution and connectivity, but different orientations of their atoms in space that cannot be interconverted by rotation about single bonds.
  • Diastereomer refers to a stereoisomer with two or more centers of chirality and whose molecules are not mirror images of one another. Diastereomers have different physical properties, e.g. melting points, boiling points, spectral properties, and reactivities. Mixtures of diastereomers may separate under high resolution analytical procedures such as crystallization, electrophoresis and chromatography. [79] “Enantiomers” refer to two stereoisomers of a compound which are non- superimposable mirror images of one another.
  • optically active compounds i.e., they have the ability to rotate the plane of plane-polarized light.
  • the prefixes D and L, or R and S are used to denote the absolute configuration of the molecule about its chiral center(s).
  • the prefixes d and I or (+) and (-) are employed to designate the sign of rotation of plane-polarized light by the compound, with (-) or 1 meaning that the compound is levorotatory.
  • a compound prefixed with (+) or d is dextrorotatory. For a given chemical structure, these stereoisomers are identical except that they are mirror images of one another.
  • a specific stereoisomer may also be referred to as an enantiomer, and a mixture of such isomers is often called an enantiomeric mixture.
  • a 50:50 mixture of enantiomers is referred to as a racemic mixture or a racemate, which may occur where there has been no stereoselection or stereospecificity in a chemical reaction or process.
  • the terms “racemic mixture” and “racemate” refer to an equimolar mixture of two enantiomeric species, devoid of optical activity.
  • tautomer or "tautomeric form” refers to structural isomers of different energies which are interconvertible via a low energy barrier.
  • proton tautomers also known as prototropic tautomers
  • Valence tautomers include
  • prodrug refers to a precursor or derivative form of a compound of the invention that is capable of being enzymatically or hydrolytically activated or converted into the more active parent form. See, e.g., Wilman, "Prodrugs in Cancer Chemotherapy,” Biochemical Society Transactions, 14:375-382, 615th Meeting Harbor (1986); and Stella et al., "Prodrugs: A Chemical Approach to Targeted Drug
  • the prodrugs of this invention include, but are not limited to, ester-containing prodrugs, phosphate-containing prodrugs, thiophosphate-containing prodrugs, sulfate- containing prodrugs, peptide-containing prodrugs, D-amino acid-modified prodrugs, glycosylated prodrugs, ⁇ -lactam-containing prodrugs, optionally substituted
  • cytotoxic drugs that can be derivatized into a prodrug form for use in this invention include, but are not limited to, compounds of the invention and chemotherapeutic agents such as described above.
  • prodrug is also meant to include a derivative of a compound that can hydrolyze, oxidize, or otherwise react under biological conditions (in vitro or in vivo) to provide a compound of this invention. Prodrugs may only become active upon such reaction under biological conditions, or they may have activity in their unreacted forms.
  • prodrugs contemplated in this invention include, but are not limited to, analogs or derivatives of compounds of any one of the formulae disclosed herein that comprise biohydrolyzable moieties such as biohydrolyzable amides, biohydrolyzable esters, biohydrolyzable carbamates, biohydrolyzable carbonates, biohydrolyzable ureides, and biohydrolyzable phosphate analogues.
  • Other examples of prodrugs include derivatives of compounds of any one of the formulae disclosed herein that comprise -NO, -N0 2 , -ONO, or -ON0 2 moieties.
  • Prodrugs can typically be prepared using well-known methods, such as those described by Burger's Medicinal Chemistry and Drug Discovery (1995) 172-178, 949-982 (Manfred E. Wolff ed., 5th ed.); see also Goodman and Gilman's, The Pharmacological basis of
  • prodrug of the invention includes compounds (with or without any linker groups) and conjugates of the invention comprising an adduct formed between an imine bond of the compounds / conjugates and an imine reactive reagent.
  • a prodrug of the invention may contain one or both forms of prodrugs described herein (e.g., containing an adduct formed between an imine bond of the compounds / conjugates and an imine reactive reagent, and/or containing a Y leaving group when X is -H).
  • imine reactive reagent refers to a reagent that is capable of reacting with an imine group.
  • imine reactive reagent includes, but is not limited to, sulfites (H 2 S0 3 , H 2 S0 2 or a salt of HS0 3 " , S0 3 2" or HS0 2 " formed with a cation), metabisulfite (H 2 S 2 O 5 or a salt of S 2 O 5 " formed with a cation), mono, di, tri, and tetra- thiophosphates (PO3SH3, PO 2 S 2 H 3 , POS3H3, PS 4 H3 or a salt of P0 3 S 3" , P0 2 S 2 3" , POS 3 3” or PS 4 3 ⁇ formed with a cation), thio phosphate esters ((R i O) 2 PS(OR i ), R'SH, R'SOH, R'SC ⁇ H, R'SO S H), various amine
  • R k C( 0)NHOH or a salt formed with a cation
  • hydrazide R k CONHNH 2
  • formaldehyde sulfoxylate HOCH 2 S0 2 H or a salt of HOCH 2 S0 2 " formed with a cation, such as HOCH 2 S0 2 " Na +
  • glycated nucleotide such as GDP-mannose
  • fludarabine or a mixture thereof
  • R 1 and R 1 are each independently a linear or branched alkyl having 1 to 10 carbon atoms and are substituted with at least one substituent selected from -N(R J ) 2 , -CO 2 H, -SO 3 H, and -PO 3 H
  • R 1 and R 1 can be further optionally substituted with a substituent for an alkyl described herein
  • R j is a linear or branched alkyl having 1 to 6 carbon atoms
  • R k is a linear, branched or cyclic
  • the cation is a monovalent cation, such as Na + or K + .
  • the imine reactive reagent is selected from sulfites, hydroxyl amine, urea and hydrazine. More preferably, the imine reactive reagent is NaHS0 3 or KHSO 3 .
  • biohydrolyzable amide means an amide, ester, carbamate, carbonate, ureide, or phosphate analogue, respectively, that either: 1) does not destroy the biological activity of the compound and confers upon that compound advantageous properties in vivo, such as uptake, duration of action, or onset of action; or 2) is itself biologically inactive but is converted in vivo to a biologically active compound.
  • biohydrolyzable amides include, but are not limited to, lower alkyl amides, a- amino acid amides, alkoxyacyl amides, and alkylaminoalkylcarbonyl amides.
  • biohydrolyzable esters include, but are not limited to, lower alkyl esters, alkoxyacyloxy esters, alkyl acylamino alkyl esters, and choline esters.
  • biohydrolyzable carbamates include, but are not limited to, lower alkylamines, substituted ethylenediamines, amino acids, hydroxyalkylamines, heterocyclic and heteroaromatic amines, and polyether amines.
  • Particularly favored prodrugs and prodrug salts are those that increase the bioavailability of the compounds of this invention when such compounds are administered to a mammal.
  • Exemplary salts include, but are not limited, to sulfate, citrate, acetate, oxalate, chloride, bromide, iodide, nitrate, bisulfate, phosphate, acid phosphate, isonicotinate, lactate, salicylate, acid citrate, tartrate, oleate, tannate, pantothenate, bitartrate, ascorbate, succinate, maleate, gentisinate, fumarate, gluconate, glucuronate, saccharate, formate, benzoate, glutamate, methanesulfonate "mesylate,” ethanesulfonate, benzenesulfonate, p-toluenesulfonate, pamoate (i.e.
  • a pharmaceutically acceptable salt may involve the inclusion of another molecule such as an acetate ion, a succinate ion or other counter ion.
  • the counter ion may be any organic or inorganic moiety that stabilizes the charge on the parent compound.
  • a pharmaceutically acceptable salt may have more than one charged atom in its structure.
  • a pharmaceutically acceptable salt can have one or more charged atoms and/or one or more counter ion.
  • the desired pharmaceutically acceptable salt may be prepared by any suitable method available in the art, for example, treatment of the free base with an inorganic acid, such as hydrochloric acid, hydrobromic acid, sulfuric acid, nitric acid, methanesulfonic acid, phosphoric acid and the like, or with an organic acid, such as acetic acid, maleic acid, succinic acid, mandelic acid, fumaric acid, malonic acid, pyruvic acid, oxalic acid, glycolic acid, salicylic acid, a pyranosidyl acid, such as glucuronic acid or galacturonic acid, an alpha hydroxy acid, such as citric acid or tartaric acid, an amino acid, such as aspartic acid or glutamic acid, an aromatic acid, such as benzoic acid or cinnamic acid, a sulfonic acid, such as p-toluenesulfonic acid or ethanesul
  • an inorganic acid such as hydrochloric
  • the desired pharmaceutically acceptable salt may be prepared by any suitable method, for example, treatment of the free acid with an inorganic or organic base, such as an amine (primary, secondary or tertiary), an alkali metal hydroxide or alkaline earth metal hydroxide, or the like.
  • an inorganic or organic base such as an amine (primary, secondary or tertiary), an alkali metal hydroxide or alkaline earth metal hydroxide, or the like.
  • suitable salts include, but are not limited to, organic salts derived from amino acids, such as glycine and arginine, ammonia, primary, secondary, and tertiary amines, and cyclic amines, such as piperidine, morpholine and piperazine, and inorganic salts derived from sodium, calcium, potassium, magnesium, manganese, iron, copper, zinc, aluminum and lithium.
  • amino acids such as glycine and arginine
  • ammonia such as glycine and arginine
  • primary, secondary, and tertiary amines such as piperidine, morpholine and piperazine
  • inorganic salts derived from sodium, calcium, potassium, magnesium, manganese, iron, copper, zinc, aluminum and lithium.
  • solvate means a compound which further includes a stoichiometric or non- stoichiometric amount of solvent such as water, isopropanol, acetone, ethanol, methanol, DMSO, ethyl acetate, acetic acid, and ethanolamine dichloromethane, 2- propanol, or the like, bound by non-covalent intermolecular forces.
  • Solvates or hydrates of the compounds are readily prepared by addition of at least one molar equivalent of a hydroxylic solvent such as methanol, ethanol, 1-propanol, 2-propanol or water to the compound to result in solvation or hydration of the imine moiety.
  • abnormal cell growth and “proliferative disorder” are used interchangeably in this application.
  • abnormal cell growth refers to cell growth that is independent of normal regulatory
  • tumor cells tumors
  • mutated tyrosine kinase or overexpression of a receptor tyrosine kinase tumor cells
  • benign and malignant cells of other proliferative diseases in which aberrant tyrosine kinase activation occurs tumor cells that proliferate by expressing a mutated tyrosine kinase or overexpression of a receptor tyrosine kinase
  • benign and malignant cells of other proliferative diseases in which aberrant tyrosine kinase activation occurs any tumors that proliferate by receptor tyrosine kinases
  • any tumors that proliferate by aberrant serine/threonine kinase activation and (5) benign and malignant cells of other proliferative diseases in which aberrant serine/threonine kinase activation occurs.
  • cancer and “cancerous” refer to or describe the physiological condition in mammals that is typically characterized by unregulated cell growth.
  • a “tumor” comprises one or more cancerous cells, and/or benign or pre-cancerous cells.
  • a “therapeutic agent” encompasses both a biological agent such as an antibody, a peptide, a protein, an enzyme or a chemotherapeutic agent.
  • a "chemotherapeutic agent” is a chemical compound useful in the treatment of cancer.
  • a “metabolite” is a product produced through metabolism in the body of a specified compound, a derivative thereof, or a conjugate thereof, or salt thereof. Metabolites of a compound, a derivative thereof, or a conjugate thereof, may be identified using routine techniques known in the art and their activities determined using tests such as those described herein. Such products may result for example from the oxidation, hydroxylation, reduction, hydrolysis, amidation, deamidation, esterification, deesterification, enzymatic cleavage, and the like, of the administered compound.
  • the invention includes metabolites of compounds, a derivative thereof, or a conjugate thereof, of the invention, including compounds, a derivative thereof, or a conjugate thereof, produced by a process comprising contacting a compound, a derivative thereof, or a conjugate thereof, of this invention with a mammal for a period of time sufficient to yield a metabolic product thereof.
  • composition indicates that the substance or composition must be compatible chemically and/or toxicologically, with the other ingredients comprising a formulation, and/or the mammal being treated therewith.
  • protecting group refers to a substituent that is commonly employed to block or protect a particular functionality while reacting other functional groups on the compound, a derivative thereof, or a conjugate thereof.
  • an "amine-protecting group” or an “amino-protecting moiety” is a substituent attached to an amino group that blocks or protects the amino functionality in the compound.
  • Such groups are well known in the art (see for example P. Wuts and T. Greene, 2007, Protective Groups in Organic Synthesis, Chapter 7, J.
  • carbamates such as methyl and ethyl carbamate, FMOC, substituted ethyl carbamates, carbamates cleaved by l,6-P-elimination (also termed "self immolative"), ureas, amides, peptides, alkyl and aryl derivatives.
  • Suitable amino-protecting groups include acetyl, trifluoroacetyl, t-butoxycarbonyl (BOC), benzyloxycarbonyl (CBZ) and 9- fluorenylmethylenoxycarbonyl (Fmoc).
  • leaving group refers to an group of charged or uncharged moiety that departs during a substitution or displacement.
  • leaving groups include, but not limited to, halogens, esters, alkoxy, hydroxyl, tosylates, triflates, mesylates, nitriles, azide, carbamate, disulfides, thioesters, thioethers and diazonium compounds.
  • bifunctional crosslinking agent refers to modifying agents that possess two reactive groups; one of which is capable of reacting with a cell binding agent while the other one reacts with the cytotoxic compound to link the two moieties together.
  • bifunctional crosslinkers are well known in the art (see, for example, Isalm and Dent in Bioconjugation, chapter 5, p218- 363, Groves Dictionaries Inc. New York, 1999).
  • SMCC N-succinimidyl-4-(N- maleimidomethyl)-cyclohexane-l-carboxylate
  • SIAB N-succinimidyl-4-(iodoacetyl)-aminobenzoate
  • Other bifunctional crosslinking agents that introduce maleimido groups or haloacetyl groups on to a cell binding agent are well known in the art (see US Patent Applications
  • BMDB bis-maleimidohexane
  • BMH bis-maleimidoethane
  • BMOE bis-maleimidoethane
  • sulfo-SIAB sulfosuccinimidyl(4-iodo- acetyl)aminobenzoate
  • sulfo-SIAB m-maleimidobenzoyl-N-hydroxysulfosuccinimide ester
  • sulfo-GMBS N-(y-maleimidobutryloxy)sulfosuccinimde ester
  • sulfo-GMBS ⁇ -( ⁇ - maleimidocaproyloxy)sulfosuccimido ester
  • sulfo-EMCS ⁇ -( ⁇ - maleimidoundecanoyloxy)s
  • Heterobifunctional crosslinking agents are bifunctional crosslinking agents having two different reactive groups. Heterobifunctional crosslinking agents containing both an amine-reactive iV-hydroxysuccinimide group (NHS group) and a carbonyl-reactive hydrazine group can also be used to link the cytotoxic compounds described herein with a cell-binding agent (e.g., antibody). Examples of such commercially available heterobifunctional crosslinking agents include succinimidyl 6-hydrazinonicotinamide acetone hydrazone (SANH), succinimidyl 4-hydrazidoterephthalate hydrochloride (SHTH) and succinimidyl hydrazinium nicotinate hydrochloride (SHNH). Conjugates bearing an acid-labile linkage can also be prepared using a hydrazine-bearing benzodiazepine derivative of the present invention. Examples of bifunctional crosslinking agents that can be used include
  • succinimidyl-p-formyl benzoate (SFB) and succinimidyl-p-formylphenoxyacetate (SFPA).
  • SFB succinimidyl-p-formyl benzoate
  • SFPA succinimidyl-p-formylphenoxyacetate
  • Bifunctional crosslinking agents that enable the linkage of cell binding agent with cytotoxic compounds via disulfide bonds are known in the art and include N-succinimidyl-3- (2-pyridyldithio)propionate (SPDP), N-succinimidyl-4-(2-pyridyldithio)pentanoate (SPP), N- succinimidyl-4-(2-pyridyldithio)butanoate (SPDB), N-succinimidyl-4-(2-pyridyldithio)2- sulfo butanoate (sulfo-SPDB) to introduce dithiopyridy
  • crosslinking agents that can be used to introduce disulfide groups are known in the art and are disclosed in U.S. Patents 6,913,748, 6,716,821 and US Patent Publications 20090274713 and 20100129314, all of which are incorporated herein by reference.
  • crosslinking agents such as 2-iminothiolane, homocysteine thiolactone or S-acetylsuccinic anhydride that introduce thiol groups can also be used.
  • a "linker,” “linker moiety,” or “linking group” as defined herein refers to a moiety that connects two groups, such as a cell binding agent and a cytotoxic compound, together. Typically, the linker is substantially inert under conditions for which the two groups it is connecting are linked.
  • a bifunctional crosslinking agent may comprise two reactive groups, one at each ends of a linker moiety, such that one reactive group can be first reacted with the cytotoxic compound to provide a compound bearing the linker moiety and a second reactive group, which can then react with a cell binding agent.
  • one end of the bifunctional crosslinking agent can be first reacted with the cell binding agent to provide a cell binding agent bearing a linker moiety and a second reactive group, which can then react with a cytotoxic compound.
  • the linking moiety may contain a chemical bond that allows for the release of the cytotoxic moiety at a particular site. Suitable chemical bonds are well known in the art and include disulfide bonds, thioether bonds, acid labile bonds, photolabile bonds, peptidase labile bonds and esterase labile bonds (see for example US Patents
  • linkers that can be used in the present invention include non-cleavable linkers, such as those described in are described in detail in U.S. publication number 20050169933, or charged linkers or hydrophilic linkers and are described in US 2009/0274713, US
  • the term "cation" refers to an ion with positive charge.
  • the cation can be monovalent (e.g., Na + , K + , etc.), bi-valent (e.g. , Ca 2+ , Mg 2+ , etc.) or multi-valent (e.g. , Al 3+ etc.).
  • the cation is monovalent.
  • terapéuticaally effective amount means that amount of active compound or conjugate that elicits the desired biological response in a subject. Such response includes alleviation of the symptoms of the disease or disorder being treated, prevention, inhibition or a delay in the recurrence of symptom of the disease or of the disease itself, an increase in the longevity of the subject compared with the absence of the treatment, or prevention, inhibition or delay in the progression of symptom of the disease or of the disease itself. Determination of the effective amount is well within the capability of those skilled in the art, especially in light of the detailed disclosure provided herein. Toxicity and therapeutic efficacy of compound I can be determined by standard pharmaceutical procedures in cell cultures and in experimental animals.
  • the effective amount of compound or conjugate of the present invention or other therapeutic agent to be administered to a subject will depend on the stage, category and status of the multiple myeloma and characteristics of the subject, such as general health, age, sex, body weight and drug tolerance.
  • the effective amount of compound or conjugate of the present invention or other therapeutic agent to be administered will also depend on administration route and dosage form. Dosage amount and interval can be adjusted individually to provide plasma levels of the active compound that are sufficient to maintain desired therapeutic effects.
  • humanized antibody refers to forms of non-human (e.g. , murine) antibodies that are specific immunoglobulin chains, chimeric immunoglobulins, or fragments thereof that contain minimal non-human (e.g. , murine) sequences.
  • humanized antibodies are human immunoglobulins in which residues from the complementary determining region (CDR) are replaced by residues from the CDR of a non-human species (e.g. , mouse, rat, rabbit, hamster) that have the desired specificity, affinity, and capability (Jones et al, Nature 321 :522-525, 1986; Riechmann et al, Nature 332:323-327, 1988;
  • the immunoglobulin are replaced with the corresponding residues in an antibody from a non- human species that has the desired specificity, affinity, and capability.
  • the humanized antibody can be further modified by the substitution of additional residues either in the F v framework region and/or within the replaced non-human residues to refine and optimize antibody specificity, affinity, and/or capability.
  • the humanized antibody will comprise substantially all of at least one, and typically two or three, variable domains containing all or substantially all of the CDR regions that correspond to the non-human immunoglobulin whereas all or substantially all of the FR regions are those of a human immunoglobulin consensus sequence.
  • the humanized antibody can also comprise at least a portion of an immunoglobulin constant region or domain (F c ), typically that of a human immunoglobulin.
  • F c immunoglobulin constant region or domain
  • Examples of methods used to generate humanized antibodies are described in U.S. Pats. 5,225,539 and 5,639,641, Roguska et al, Proc. Natl. Acad. Sci. USA 91(3):969- 973, 1994; and Roguska et al, Protein Eng. 9(10):895-904, 1996 (all incorporated herein by reference).
  • a "humanized antibody” is a resurfaced antibody.
  • a "humanized antibody” is a CDR-grafted antibody.
  • the present invention provides cell-binding agent-cytotoxic agent conjugates comprising a cell-binding agent described herein covalently linked to one or more molecules of the cytotoxic agent of the present invention via a variety of linkers, including, but not limited to, disulfide linkers, thioether linkers, amide bonded linkers, acid-labile linkers, and esterase-labile linkers.
  • linkers including, but not limited to, disulfide linkers, thioether linkers, amide bonded linkers, acid-labile linkers, and esterase-labile linkers.
  • the present invention provides a cell-binding agent-cytotoxic agent conjugate of structural formula (I):
  • CBA is a cell-binding agent covalently linked to the JCB' group
  • JCB' is a moiety formed by reacting an aldehyde group on the CBA and an aldehyde reactive group connected to the group L, wherein the aldehyde is derived from oxidation of a 2-hydroxyethylamine moiety represented by the following structural formula:
  • 2-hydroxyethylamine moiety being part of a serine, threonine, hydroxylysine, 4-hydroxyornithine or 2,4-diamino-5-hydroxy valeric acid residue;
  • L is a spacer or a bond
  • JD' is a linking moiety connecting the cytotoxic agent D with the group L;
  • D is a cytotoxic agent covalently linked to L through the linking moiety J D ' or to CBA through J C B' when L is a bond; and w is 1, 2, 3 or 4.
  • aldehyde reactive group can be used in the present invention.
  • exemplary aldehyde reactive groups include, but are not limited to, those described in R.C. Larock,
  • the aldehyde reactive group is a hydrazine, a hydrazide or a hydroxylamine.
  • the aldehyde reactive group is selected from:
  • X a is CH 2 , O or NCH 3 ;
  • U' is NH, O, S or CH 2 ;
  • U is H or an electron
  • Z Z' donating group is each independently -OH, -SH or -NH 2 ; R and R are each independently H or an alkyl (preferably -Me); R z " is H or an alkyl; and X c is N or CH. More
  • J C B' is represented by one of the following structural formulas:
  • X A is CH 2 , O or NCH 3 ;
  • U' is NH, O, S or CH 2 ;
  • U is H or an electron donating group;
  • XM and XM' are each independen -0-, -S- or -NH-; R and R are each independently H or an alkyl (preferably -Me); and R " is H or an alkyl; sl is the site covalently linked to the cell-binding agent; and s2 is the site covalently linked to the group
  • s3 is the site covalently linked to the group JCB' ;
  • s4 is the site covalently linked to the group D;
  • R 9 is H or an optionally substituted alkyl; p and p' are each independently an integer from 1 to 10;
  • Q is H, a charged substituent or an ionizable group
  • Rai , Ra2, Ra3, R a 4, for each occurrence, are independently H or an optionally substituted alkyl
  • ql and rl are each independently an integer from 0 to 10, provided that ql and rl are not both 0; and the remaining variables are as described above in the first embodiment or the 1 st specific embodiment or any more specific embodiments described therein.
  • Q is i) H; ii) -S0 3 H, -Z'-S0 3 H, -OP0 3 H 2 , -Z'-OP0 3 H 2 , -P0 3 H 2 , - Z'-P0 3 H 2 , -C0 2 H, -Z'-C0 2 H, -NRnRi 2 , or -Z'-NRnRi 2 , or a pharmaceutically acceptable salt thereof; or, iii) -N + Ri 4 Ri 5 Ri 6 X or -Z'-N + Ri 4 RisRi 6 X ; Z' is an optionally substituted alkylene, an optionally substituted cycloalkylene or an optionally substituted phenylene; Ri 4 to Ri 6 are each independently an optionally substituted alkyl; X " is a pharmaceutically acceptable anion; and the remaining variables are as described above in the 2 nd specific embodiment. More specifically, Q is -S0 3 H or
  • Z al is absent; Z a2 is and the remaining variables are as described above in any embodiments of the 2 nd specific
  • R 9 is H.
  • Z al and Z ⁇ are both absent; and the remaining variables are as described above in any embodiments of the 2 nd specific embodiment.
  • R al , R ⁇ , R ⁇ and R a4 are all -H; q and r are each
  • s3 is the site covalently linked to the group J CB ' group
  • s4 is the site covalently linked to the group D;
  • Z i and Z 2 are each independently absent, -S0 2 NRg-, -NRgS0 2 -,
  • R 9 is H or an optionally substituted alkyl
  • P is [XX] 1 - 10 , in which each XX is a residue of an independently selected amino acid, or P is -(NR m -CH 2 CH 2 ) s -;
  • s is an integer from 1 to 5;
  • R m is H, or alkyl optionally substituted with a charged substituent or an ionizable group
  • Rbi, 3 ⁇ 4 2 , 3 ⁇ 4 3 , Rb4, Rb5 and Rb 6 are each independently H or an optionally substituted alkyl;
  • nl and nl are independently an integer from 0 to 10; and the remaining variables are as described above in the first embodiment or the 1 st specific embodiment or any more specific embodiments described therein.
  • Z bl and Z b2 are both absent, or one of Z bl and Z b2 is absent and the other is -CH 2 - O- or -0-CH 2 -;
  • nl is an integer from 1 to 6; and the remaining variables are as described above in the first embodiment or the 1 st specific embodiment or any more specific embodiments described therein. More specifically, RM and R b2 are both H.
  • nl and ml are each independently an integer from 1 to 6; and the remaining variables are as described above in the first embodiment or the 1 st specific embodiment or any more specific embodiments described therein.
  • ZM and Z b2 are both absent.
  • ZM is -CH 2 -0-; and Z b2 is absent.
  • ZM is and Z b2 is -0-CH 2 - or absent.
  • R 9 is-H.
  • P is a peptide cleavable by a protease. More specifically, P is a peptide cleavable by a protease expressed in tumor tissue. In yet another more specific embodiment, P is a peptide cleavable by a lysosomal protease.
  • P is selected from the group consisting of: Val-Cit, Val-Lys, Phe-Lys, Lys-Lys, Ala-Lys, Phe- Cit, Leu-Cit, Lle-Cit, Trp, Cit, Phe-Ala, Phe-N -tosyl-Arg, Phe-N -nitro-Arg, Phe-Phe-Lys, D-Phe-Phe-Lys, Gly-Phe-Lys, Leu-Ala-Leu, Ile-Ala-Leu, Val-Ala-Val, Ala-Leu-Ala-Leu (SEQ ID NO: 17), ⁇ -Ala-Leu- Ala-Leu (SEQ ID NO: 18), Gly-Phe-Leu-Gly (SEQ ID NO: 19), Val-Arg, Arg-Val, Arg-Arg, Val-D-Cit, Val-D-Cit, Val-D-
  • P is Gly-Gly-Gly, Ala- Ala- Ala, d- Ala- Ala- Ala, Ala-d-Ala-Ala, Ala-Val-Ala, Gly-Gly or Ala- Ala.
  • s3 is the site covalently linked to the group J CB ' ;
  • s4 is the site covalently linked to the group D;
  • p and p' are independently an integer from 1 to 1000;
  • the site covalently linked to the cytotoxic agent D, s2' is the site covalently linked to the group A';
  • a and A' are each independently an optionally substituted alkylene, an optionally substituted alkenylene, an optionally substituted alkynylene, an optionally substituted cycloalkylene, an optionally substituted cycloalkenylene or an optionally substituted cycloalkynylene;
  • Q' is -Zi'-P'-Z ⁇ -
  • P and P' are each independently absent, an optionally substituted alkylene, -(CH 2 - CH 2 -0) j -, -(0-CH 2 -CH 2 ) j -, or [XX]i_i 0 , in which each XX is a residue of an independently selected amino acid;
  • j is an integer between 1 and 500;
  • k is 0 or 1 ;
  • L is -(CR 5 R 6 )v-, -(CR 7 R 8 ) q -N(R g )-(CR 9 R 10 ) r -, -(CR 7 R 8 ) q -C(R a )(R g )-(CR 9 R 10 ) r or -(CRiiRi 2 ) s -N(R g )-(CRi 3 Ri4)t-N(R g ')-(CRi 5 Ri6)u-,;
  • R g and R g ' are each independently -(CRi 7 Ris) p -Z-V;
  • p is an integer between 1 and 5;
  • V is H, a charged substituent or an ionizable group
  • R h and R h ' are independently H or an optionally substituted alkyl
  • R 5 to Rig are independently H or an optionally substituted alkyl; q, r, s, t, u and v are each independently an integer between 0 and 10; and the remaining variables are as described above in the first embodiment or the I s specific embodiment or any more specific embodiments described therein.
  • Ri9 to R 22 are independently H or an optionally substituted alkyl; m and n are each independently 0 to 10; and the remaining variables are as described above in the first embodiment or the 1 st specific embodiment. More specifically, R 19 to R 22 are each H; R 5 and R 6 are each H; R 7 to Rio are each H; and Rn to Ri 6 are each H.
  • P and P' for each occurrence, are independently [XX] 1-10. More specifically, P and P', for each occurrence, are independently [XX] 2 _ 5 ; and the remaining variables are as described above.
  • P and P' are each a peptide cleavable by a protease.
  • P and P' are each a peptide cleavable by a protease expressed in tumor tissue.
  • P and P' are each a peptide cleavable by a lysosomal protease.
  • P and P' are each selected from the group consisting of: Val-Cit, Val-Lys, Phe-Lys, Lys-Lys, Ala-Lys, Phe-Cit, Leu-Cit, Lle- Cit, Trp, Cit, Phe-Ala, Phe-N 9 -tosyl-Arg, Phe-N 9 -nitro-Arg, Phe-Phe-Lys, D-Phe-Phe-Lys, Gly-Phe-Lys, Leu-Ala-Leu, Ile-Ala-Leu, Val-Ala-Val, Ala-Leu-Ala-Leu (SEQ ID NO: 17), ⁇ -Ala-Leu-Ala-Leu (SEQ ID NO: 18), Gly-Phe-Leu-Gly (SEQ ID NO: 19), Val-Arg, Arg- Val, Arg-Arg, Val-D-C
  • P and P' are each Gly- Gly-Gly, Ala- Ala- Ala, D- Ala-Ala-Ala, Ala-D- Ala-Ala, Ala-Val-Ala, or ⁇ -Ala-Gly-Gly-Gly.
  • [XX] in any embodiments described above, for each occurrence, is the residue of an independently selected amino acid selected from: a naturally occurring amino acid, a synthetic amino acid, an amino acid analog, or an amino acid mimetic that functions in a manner similar to the naturally occurring amino acids.
  • [XX] in any embodiments described above, for each occurrence, is the residue of an independently selected amino acid selected from the group consisting of: Histidine, Alanine, Isoleucine, Arginine, Leucine, Asparagine, Lysine, Aspartic acid, Methionine, Cysteine, Phenylalanine, Glutamic acid, Threonine, Glutamine,
  • D is a maytansinoid; and the remaining variables are as described above in the first embodiment or the 1 st , 2 nd , 3 rd or 4 fl embodiment or any more specific embodiments describe therein.
  • D is a maytansinoid represented by the following structural formula:
  • R M , R M ⁇ and R M ' ⁇ for each occurrence, are independently H or an optionally substituted alkyl
  • Ri', R 2 ', R 3 ' and R 4 ' for each occurrence, are independently H, an optionally substituted an optionally substituted alkyl, an optionally substituted alkenyl, an optionally substituted cycloalkyl, an optionally substituted heterocyclyl, an optionally substituted aryl, or an optionally substituted heteroaryl;
  • i is an integer between 0 and 15;
  • s5 is the site covalently linked to the group J D ';
  • D is represented by the following structural formula:
  • D is a represented by the following structural formula:
  • R M , and R M ", for each occurrence, are independently H or an optionally substituted alkyl; s5 is the site covalently linked to the group J D '; and -L-J D '- are as described above in the first embodiment, or the 3 rd specific embodiment or any more specific embodiments described therein.
  • D is represented by the following structural formula:
  • D is a benzodiazepine compound; and the remaining variables are as described above in the first embodiment or the 1 st , 2 nd , 3 rd or 4 th embodiment or any more specific embodiments describe therein.
  • exemplary benzodiazepine compounds include, but are not limited those described in US Patent Nos. 8,765,740, 8,426,402, US2014/0088089, WO2011/130613, WO2011/130616, WO2010/091150, and
  • D is a benzodiazepine compound represented by the following structural formula:
  • Y is selected from -H, -OR, -OCOR', -SR, -NR'R," -S0 3 M, -S0 2 M or -OS0 3 M, wherein M is -H or a cation such as Na + or K + ;
  • R is -H, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms or a PEG group -(CH 2 CH 2 0) n -R c , wherein n is an integer from 1 to 24, and R c is a linear or branched alkyl having 1 to 4 carbon atoms;
  • R' and R" are the same or different, and are selected from -H, -OH, -OR, -NRR g , - COR, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, an optionally substituted aryl having from 6 to 18 carbon atoms, an optionally substituted 3- to 18-membered heterocyclic ring having 1 to 6 heteroatoms selected from O, S, N and P, a PEG group -(CH 2 CH 2 0) n -R c , wherein n is an integer from 1 to 24, preferably n is 2, 4 or 8; and R g is -H, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms or a PEG group -(CH 2 CH 2 0) n -R c ;
  • X' is selected from the group consisting of -H, -OH, a substituted or unsubstituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, phenyl, and an amine-protecting group;
  • Y' is selected from the group consisting of -H, an oxo group, a substituted or unsubstituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms;
  • a and A' are selected from -O- and -S-;
  • R x is absent or selected from a linear, branched or cyclic alkyl having 1 to 10 carbon atoms;
  • R e is -H, a linear, branched or cyclic alkyl, alkenyl or alkynyl having 1 to 10 carbon atoms or -(CH 2 -CH 2 -0) n -R k , wherein R k is a -H, a linear, branched cyclic alkyl having 1 to 6 carbon atoms, optionally bearing a secondary amino (e.g.
  • R 101 and R 102 are each independently a linear, branched, or cyclic alkyl, alkenyl or alkynyl having 1 to 10 carbon atoms;
  • G is selected from -CH- or -N-;
  • X" and X'" are the same or different, and are independently selected
  • Y" and Y'" are the same or different, and are independently selected
  • Z" and Z' are the same or different, and are independently selected
  • n' is selected from 0, 1, 2 and 3;
  • R 7 ' and R 8 ' are the same or different, and are each independently selected
  • R 9 ' is independently selected from -H, an optionally substituted linear, branched or cyclic alkyl having from 1 to 10 carbon atoms, a polyethylene glycol unit -(OCH 2 CH 2 ) N -;
  • Ar and Ar' are each independently absent, or represent an aryl group
  • R C is absent or selected from linear or branched alkyl, alkenyl or alkynyl having 1 to 5 carbon atoms.
  • D is represented by the following structural formula:
  • R A " and R B " are the same or different, and are selected from -H and -Me; and the remaining variables are as described above.
  • M is -H or a pharmaceutically acceptable cation (e.g., Na + );
  • X' and Y' are both -H;
  • a and A' are both -0-;
  • R 6 is -OMe
  • R x is a linear or branched alkyl having 1 to 6 carbon atoms.
  • D is represented by the following structural formula:
  • Y is -H or -SO 3 M
  • M is H + or a cation. Even more specifically, Y is -SO 3 M, and M is H + , Na + or K + .
  • P is an amino acid residue or a peptide containing between 2 to 20 amino acid residues
  • R a and R b are independently -H, (Ci-C 3 )alkyl or a charged substituent or an ionizable group Q;
  • r and r' are independently an integer from 1 to 6;
  • Y is a leaving group selected from -OR, -OCOR', -OCOOR', -OCONR'R", -NR'R", -NR'COR", -NR'NR'R", an optionally substituted 5- or 6-membered nitrogen-containing heterocycle (e.g., piperidine, tetrahydropyrrole, pyrazole, morpholine, etc.
  • an optionally substituted 5- or 6-membered nitrogen-containing heterocycle e.g., piperidine, tetrahydropyrrole, pyrazole, morpholine, etc.
  • P' is an amino acid residue or a polypeptide containing between 2 to 20 amino acid residue
  • R for each occurrence, is independently selected from the group consisting of -H, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, a polyethylene glycol unit -(CH 2 CH 2 0) n -R c , an optionally substituted aryl having 6 to 18 carbon atoms, an optionally substituted 5- to 18-membered heteroaryl ring containing one or more heteroatoms independently selected from nitrogen, oxygen, and sulfur, or an optionally substituted 3- to 18-membered heterocyclic ring containing 1 to 6 heteroatoms independently selected from O, S, N and P;
  • R' and R" are each independently selected from -H, -OH, -OR, -NHR, -NR 2 , -COR, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, a polyethylene glycol unit -(CH 2 CH 2 0) n -R c , and an optionally substituted 3- to 18-membered heterocyclic ring having 1 to 6 heteroatoms independently selected from O, S, N and P;
  • R c is -H or an optionally substituted linear or branched alkyl having 1 to 4 carbon atoms;
  • n is an integer from 1 to 24;
  • X' is selected from -H, an amine-protecting group, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, a polyethylene glycol unit -(CH 2 CH 2 0) n -R c , an optionally substituted aryl having 6 to 18 carbon atoms, an optionally substituted 5- to 18-membered heteroaryl ring containing one or more heteroatoms independently selected from nitrogen, oxygen, and sulfur, and an optionally substituted 3- to 18-membered heterocyclic ring containing 1 to 6 heteroatoms independently selected from O, S, N and P;
  • Y' is selected from -H, an oxo group, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, an optionally substituted 6- to 18-membered aryl, an optionally substituted 5- to 18-membered heteroaryl ring containing one or more heteroatoms independently selected from nitrogen, oxygen, and sulfur, an optionally substituted 3- to 18-membered heterocyclic ring having 1 to 6 heteroatoms;
  • R 6 is -H, -R, -OR, -SR, -NR'R", -N0 2 , or halogen;
  • R5 and R 9 are each independently -H or an optionally substituted linear or branched alkyl having 1 to 10 carbon atoms; and the remaining variables are as described above in the first embodiment or the 1 st specific embodiment or any more specific embodiments described therein.
  • L' is represented by formula (A) and L" and L'" are both -H.
  • Ri, R 2 , R 3 , R4, Ri', R 2 ', R 3 ' and R 4 ' are all -H;
  • R 6 is -OMe
  • X' and Y' are both -H; A and A' are -0-; and
  • M is H + , Na + or K + ; and the remaining variables are as described above in the 7 th specific embodiment or any more specific embodiments described above.
  • R a and R b are both H; and the remaining variables are as described above in the 7 th specific embodiment or any more specific embodiments described above.
  • R 5 and Rg are each independently H or Me; and the remaining variables are as described above in the 7 th specific embodiment or any more specific embodiments described above. More specifically, R5 and R 9 are both H.
  • P is a peptide containing 2 to 10 amino acid residues; and the remaining variables are as described above in the 7 th specific embodiment or any more specific embodiments described above. More specifically, P is a peptide containing 2 to 5 amino acid residues.
  • P is elected from Gly-Gly-Gly, Ala-Val, Val-Ala, Val-Cit, Val-Lys, Phe-Lys, Lys-Lys, Ala-Lys, Phe-Cit, Leu-Cit, Lle-Cit, Trp, Cit, Phe-Ala, Phe-N 9 -tosyl-Arg, Phe-N 9 -nitro-Arg, Phe-Phe- Lys, D-Phe-Phe-Lys, Gly-Phe-Lys, Leu- Ala-Leu, He- Ala-Leu, Val- Ala-Val, Ala-Leu- Ala- Leu (SEQ ID NO: 17), ⁇ -Ala-Leu-Ala-Leu (SEQ ID NO: 18) and Gly-Phe-Leu-Gly (SEQ ID NO: 19), Val-Arg, Arg-Val, Arg-Arg, Val-D-Cit, Val-D-L
  • Y is H or -S0 3 M and M is H + , Na + or K + .
  • the CBA in the conjugates of any one of the embodiments described above, such as the first embodiment or the 1 t to 8 th specific embodiments or any more specific embodiments described therein, may be any cell-binding agents described herein, such as those described in the second embodiment below.
  • the conjugates of any one of the embodiments described above, such as the first embodiment or the 1 st to 8 th specific embodiments or any more specific embodiments described therein may comprise 1-4 cytotoxic agent molecules bound per cell-binding agent (e.g. , antibody) molecule.
  • the conjugates may comprise 2 or 4 cytotoxic agent molecules per cell-binding agent molecule. The number of cytotoxic agent molecules bound per cell-binding agent (e.g.
  • antibody molecule
  • the number of cytotoxic agent molecule bound per cell-binding agent (e.g. , antibody) molecule can be determined by mass spectrometry.
  • the present invention further provides a composition comprising the conjugates of any one of the embodiments described above, such as the first embodiment or the 1 st to 8 th specific embodiments or any more specific embodiments described therein.
  • at least about 50%, 60%, 70%, 80%, 90%, 95%, 99%, 99.5%, 99.9% or more of the conjugates in the composition have 2 or 4 cytotoxic agents covalently linked to each CBA.
  • no more than about 20%, 15%, 10% , 9%, 8%, 7%, 6%, 5%, 4%, 3%, 2%, 1%, 0.5% or 0.1% of the conjugates have only 1 cytotoxic agent covalently linked to each CBA.
  • the invention provides a cell-binding agent (CBA) for preparing the cell-binding agent-cytotoxic agent conjugates described herein.
  • CBA may be a protein (e.g. , a protein found in nature, or an engineered or recombinant protein), such as an antibody, an antigen-binding portion thereof (which may include an antibody derivative), or an antibody mimetic protein.
  • the N-terminus of such proteinaceous CBA may comprise a 2-hydroxyethylamine moiety that may be part of a serine, threonine,
  • the 2- hydroxyethylamine moiety can be oxidized using the methods of the invention to become an aldehyde group, which can then react with an aldehyde reactive group to form the subject conjugates.
  • the invention also provides certain engineered proteinaceous CBA, such as engineered antibody, antigen-binding portion thereof (or antibody derivative), or antibody mimetic protein, which may have a Ser or Thr as the N-terminal residue, as opposed to a non-Ser, non-Thr natural sequence of such antibody, antigen-binding portion thereof (or antibody derivative), or antibody mimetic protein.
  • engineered proteinaceous CBA such as engineered antibody, antigen-binding portion thereof (or antibody derivative), or antibody mimetic protein, which may have a Ser or Thr as the N-terminal residue, as opposed to a non-Ser, non-Thr natural sequence of such antibody, antigen-binding portion thereof (or antibody derivative), or antibody mimetic protein.
  • the N-terminal Ser / Thr can be added by inserting a Ser / Thr codon immediately after a signal peptide sequence.
  • signal peptide sequence may be the natural signal peptide for the antibody, antigen-binding portion thereof (or antibody derivative), or antibody mimetic protein, or may be a heterologous signal peptide fused N-terminal to the mature processed sequence of the antibody, antigen-binding portion thereof (or antibody derivative), or antibody mimetic protein.
  • mature processed sequence e.g. , of recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof
  • mature processed sequence refers to the processed sequence of certain secreted proteins - such as the recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof - which secreted proteins are synthesized with an N- terminal signal peptide (either a naturally occurring one, or a heterologous one fused N- terminal using recombinant technology).
  • N- terminal signal peptide either a naturally occurring one, or a heterologous one fused N- terminal using recombinant technology
  • SEQ ID NOs: 1 and 6 may be used as such natural or heterologous signal peptides. Additional sequence changes to the N-terminal residues in the mature processed sequence of the antibody, antigen-binding portion thereof (or antibody derivative), or antibody mimetic protein may be present, so long as the N-terminal residue, after signal peptide cleavage, is Ser/Thr.
  • the N-terminal Ser / Thr can be added by using a specific signal peptide sequence obtained from the light chain signal peptide of a murine anti-FOLRl antibody FR1- 2.1 (produced by the hybridoma deposited with the ATCC on April 16, 2013 and having ATCC deposit no. PTA- 120197), which signal peptide is represented by SEQ ID NO: 1. It was surprisingly found that this signal peptide sequence is uniquely processed to leave behind its last Ser as the N-terminal residue of the mature processed sequence of the protein.
  • another aspect of the invention further provides a modified CBA (e.g., a modified antibody, antigen-binding portion thereof (or antibody derivative), or antibody mimetic protein) in which its N-terminal Ser/Thr has been oxidized to an aldehyde group.
  • the aldehyde is derived from the oxidation of N-terminal Ser/Thr on the heavy chain of an antibody or an antigen-binding portion thereof. The oxidation can be done using any of the methods of the invention described herein.
  • Such modified CBA can react with a linker bearing an aldehyde reactive group (such as those described herein) to form the conjugates of the invention.
  • the invention also provides a method of making a conjugate of the invention described herein, using a modified CBA of the invention (e.g. , an antibody, antigen-binding portion thereof (or antibody derivative), or antibody mimetic protein).
  • a modified CBA of the invention e.g. , an antibody, antigen-binding portion thereof (or antibody derivative), or antibody mimetic protein.
  • the invention further provides a polynucleotide encoding any of the engineered CBA (e.g. , an antibody, antigen- binding portion thereof (or antibody derivative), or antibody mimetic protein) that produces a mature processed sequence of the CBA with an N-terminal Ser/Thr.
  • the aldehyde group is located at the N-terminus of the proteinaceous CBA (e.g., antibody or antigen-binding portion thereof).
  • the N- terminal aldehyde group can be derived from oxidation of an N-terminal serine or threonine.
  • the N-terminal serine or threonine may be naturally existing in the proteinaceous CBA (e.g. , antibody or antigen-binding portion thereof).
  • the antibody or antigen-binding portion thereof may comprise a light chain sequence of SEQ ID NO: 3, or a light chain sequence derived from the same mouse germ line sequence that encodes the signal peptide of SEQ ID NO: 1.
  • the antibody or antigen-binding portion thereof is a chimeric, humanized, or human antibody or antigen- binding portion thereof of a murine antibody or antigen-binding portion thereof comprising a light chain sequence of SEQ ID NO: 3, or a light chain sequence derived from the same mouse germ line sequence that encodes the signal peptide of SEQ ID NO: 1.
  • the antibody or antigen-binding portion thereof may comprise a light chain sequence derived from the murine IGKV6-32*01 sequence (i.e. , S IVMTQTPKFLLVS AGDRVT I TCKAS Q SVSNDVAWYQQKP GQ SPKLL I YYASNRYTGVPDRF TGS GYGTDF TF T I S TVQAEDLAVYFCQQDY S SP , SEQ ID NO: 20).
  • the antibody or antigen-binding portion thereof is a chimeric, humanized, or human antibody or antigen- binding portion thereof of a murine antibody or antigen-binding portion thereof comprising a light chain sequence derived from the murine IGKV6-32*01 sequence of SEQ ID NO: 20.
  • the antibody or antigen-binding portion thereof may comprise a light chain sequence derived from any one of the human Lambda V3 family of V gene sequences listed below (i.e. , SEQ ID NOs: 21-41).
  • the antibody or antigen- binding portion thereof is a chimeric, humanized, or human antibody or antigen-binding portion thereof of a murine antibody or antigen-binding portion thereof comprising a light chain sequence derived from any one of the human Lambda V3 family of V gene sequences listed below.
  • the humanized antibody or antigen-binding portion thereof may be resurfaced or CDR grafted antibody or antigen-binding portion thereof.
  • the N-terminal serine or threonine may be engineered into the proteinaceous CBA (e.g., antibody or antigen-binding portion thereof).
  • the antibody or antibody-binding portion thereof may be any one of the recombinant antibody of the invention described herein (see below).
  • the N-terminal aldehyde group is located on one or both heavy chains of the antibody or antigen-binding portion thereof, or on one or both light chains of the antibody or antigen-binding portion thereof, or a combination thereof.
  • the CBA is an antibody or an antigen-binding portion thereof.
  • the antigen-binding portion may be Fab, F(ab) 2 , F(ab'), F(ab') 2 , F(ab') 3 , Fd, Fv, disulfide linked Fv, dAb or sdAb (or nanobody), CDR, scFv, (scFv) 2 , di-scFv, bi-scFv, tascFv (tandem scFv), AVIBODY (e.g., diabody, triabody, tetrabody), T- cell engager (BiTE), scFv-Fc, Fcab, mAb2, small modular immunopharmaceutical (SMIP), Genmab / unibody or duobody, V-NAR domain, IgNAR, minibody, IgGACH2, DVD-Ig, probody, intrabody,
  • the CBA is an antibody mimetic, such as a DARPin, a Centyrin, an affibody, an affilin, an affitin, an anticalin, an avimer, a Fynomer, a Kunitz domain peptide, a monobody (or adnectin), a tribody, or a nanofitin.
  • the CBA is a DARPin.
  • the CBA is a Centyrin.
  • the CBA is a monobody or adnectin.
  • the CBA is a dual receptor retargeting (DART) molecule (P. A. Moore et al, Blood, 2011; 117(17):4542-4551; Veri MC et al, Arthritis Rheum., 2010 Mar 30;
  • the invention provides a recombinant antibody heavy chain (HC), light chain (LC), or an antigen-binding portion thereof, comprising a heterologous signal peptide having an amino acid sequence of SEQ ID NO: 1.
  • SEQ ID NO: 1 the light chain signal peptide of antibody FRl-2.1
  • SEQ ID NO: 1 the light chain signal peptide of antibody FRl-2.1
  • the signal peptide of SEQ ID NO: 1 can be recombinantly fused to a heterologous polypeptide (e.g. , recombinant antibody heavy chain (HC), light chain (LC), or an antigen-binding portion thereof), and used in a general approach to produce polypeptides having an N-terminal Ser.
  • the heterologous signal peptide is fused to the N-terminus of the mature processed sequence of the recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof.
  • the heterologous signal peptide is fused to the 2 nd amino acid residue of the N-terminus of the mature processed sequence of the recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof.
  • the processed polypeptide does not have one extra amino acid residue due to the N-terminal Ser from SEQ ID NO: 1.
  • the heterologous signal peptide is fused to the any residue (e.g.
  • N-terminal portion of the mature processed sequence of the recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof, resulting in "deletion" of one or more N-terminal residues, so long as the binding ability of the antibody or antigen-binding portion thereof is not substantially affected.
  • one or more additional residues can be added after the N-terminal Ser, so long as the N-terminal residue is a Ser, such as the Ser from the last residue of SEQ ID NO: 1.
  • the invention provides a recombinant antibody heavy chain (HC), light chain (LC), or an antigen-binding portion thereof, comprising a Ser or Thr residue immediately C-terminal to the last residue of the (natural) signal peptide of the heavy chain (HC), light chain (LC), or antigen-binding portion thereof.
  • HC heavy chain
  • LC light chain
  • antigen-binding portion thereof comprising a Ser or Thr residue immediately C-terminal to the last residue of the (natural) signal peptide of the heavy chain (HC), light chain (LC), or antigen-binding portion thereof.
  • This can be accomplished by inserting a codon for Ser or Thr immediately after the coding sequence for the natural signal peptide.
  • a Ser residue can be inserted immediately after the natural signal peptide sequence of the monoclonal antibody huMovl9 light chain or heavy chain, to create the sequence MGWS C I I LFLVATATGVH S S (SEQ ID NO: 42). After natural processing (cleavage
  • the Ser or Thr residue may be immediately N- terminal to the first residue of the mature processed sequence of the recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof.
  • the Ser or Thr residue replaces one or more N-terminal amino acid residue(s) of the mature processed sequence of the recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof.
  • additional amino acid residues can be added, deleted, or replaced, so long as the 1st residue of the resulting polypeptide after signal peptide processing is Ser/Thr.
  • Exemplary recombinant antibody heavy chain (HC), light chain (LC), or an antigen- binding portion thereof may have a sequence of: SEQ ID NOs: 10 or 14. Others may include those comprising SEQ ID NO: 42.
  • Yet another aspect of the invention provide a recombinant antibody comprising a mature processed sequence of the heavy chain, light chain, or antigen-binding portion thereof, derived from any one of the subject recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof described herein.
  • the recombinant antibody may be or may comprise an Fab, F(ab) 2 , F(ab'), F(ab') 2 , F(ab') 3 , Fd, Fv, disulfide linked Fv, dAb or sdAb (or nanobody), CDR, scFv, (scFv) 2 , di-scFv, bi-scFv, tascFv (tandem scFv), AVIBODY (e.g., diabody, triabody, tetrabody), T-cell engager (BiTE), scFv-Fc, Fcab, mAb2, small modular immu- nopharmaceutical (SMIP), Genmab / unibody or duobody, V-NAR domain, IgNAR, minibody, IgGACH2, DVD-Ig, probody, intrabody, or a multispecificity antibody.
  • the scFv disulfide linked
  • the recombinant antibody may comprise 1, 2, 3, or 4 of the mature processed sequence of the heavy chain, light chain, or antigen-binding portion thereof, each derived from any one of the subject recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof described herein.
  • the recombinant antibody may be a heterodimeric antibody comprising a first heavy chain polypeptide and a second heavy chain polypeptide, wherein the Fc region of the first heavy chain polypeptide and the Fc region of the second heavy chain polypeptide meet at an interface, and the interface of the Fc region of the second heavy chain polypeptide comprises a protuberance which is positionable in a cavity in the interface of the Fc region of the first heavy chain polypeptide.
  • the knob-into-hole technology to promote specific pairing of heavy chains in the bi- specific antibody may be further improved based on, for example, the CrossMab technology of Genentech / Roche, e.g. , by swapping CHI and Kappa constant regions to further reduce or eliminate light chain mis-pairing.
  • LC heterodimers such as Zymeworks AZYMETRICTM heterodimeric IgGi light chain platform technology that fully complements multiple other biologies approaches, including common light chain, domain antibody, and single chain formats, in the development of fully bi-specific antibodies.
  • the Fc region of the second heavy chain polypeptide has been altered from a template/original polypeptide to encode the protuberance, or the Fc region of the first heavy chain polypeptide has been altered from a template/original polypeptide to encode the cavity, or both.
  • the protuberance and the cavity each comprises a naturally occurring amino acid residue.
  • the Fc region of the second heavy chain polypeptide comprising the protuberance is generated by replacing an original residue from the interface of a template/original polypeptide with an import residue having a larger side chain volume than the original residue.
  • the Fc region of the second heavy chain polypeptide comprising the protuberance is generated by a method comprising a step wherein nucleic acids encoding an original residue from the interface of said polypeptide is replaced with nucleic acids encoding an import residue having a larger side chain volume than the original.
  • Yet another aspect of the invention provides a modified antibody oxidized from an antibody having an N-terminal Ser or Thr on a mature processed sequence of the heavy chain, light chain, or antigen-binding portion thereof, wherein the N-terminal Ser or Thr has been oxidized to an aldehyde group in the modified antibody.
  • the antibody is derived from a recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof comprising: (1) a
  • heterologous signal peptide having an amino acid sequence of SEQ ID NO: 1 ; (2) a Ser or Thr residue immediately N-terminal to the first residue of the mature processed sequence of the recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof; or (3) a Ser or Thr residue replacing one or more N-terminal amino acid residue(s) of the mature processed sequence of the recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof.
  • the antibody is a murine antibody or antigen-binding portion thereof comprising a light chain sequence of SEQ ID NO: 3.
  • the antibody is a chimeric, humanized, or human antibody or antigen-binding portion thereof of a murine antibody or antigen-binding portion thereof comprising a light chain sequence of SEQ ID NO: 3.
  • the humanized antibody or antigen- binding portion thereof may be resurfaced or CDR grafted antibody or antigen-binding portion thereof.
  • Another aspect of the invention provides a polynucleotide encoding a subject recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof described herein.
  • the polynucleotide is codon-optimized for expression in a mammalian expression system.
  • Another aspect of the invention provides a method of producing a subject
  • HC recombinant antibody heavy chain
  • LC light chain
  • antigen-binding portion thereof the method comprising expressing the subject polynucleotide described herein in an expression system, such as a mammalian expression system.
  • CBA cell-binding agent
  • the CBA may include peptides and non-peptides.
  • the N- terminal residue can be engineered using any of the recombinant methods described herein, e.g., by using a heterologous signal peptide of SEQ ID NO: 1, or by inserting a Ser/Thr codon to code for the N-terminal residue.
  • the appropriate cell-binding agent is a matter of choice that partly depends upon the particular cell population that is to be targeted, but in many (but not all) cases, humanized monoclonal antibodies are a good choice if an appropriate one is available.
  • the monoclonal antibody MY9 is a murine IgGi antibody that binds specifically to the CD33 Antigen (J.D. Griffin et ah, Leukemia Res., 8:521 (1984)), and can be used if the target cells express CD33 as in the disease of acute myelogenous leukemia (AML).
  • the cell-binding agent is not a protein.
  • the cell binding agent may be a vitamin that binds to a vitamin receptor, such as a cell- surface receptor.
  • vitamin A binds to retinol-binding protein (RBP) to form a complex, which complex in turn binds the STRA6 receptor with high affinity and increases vitamin A in-take.
  • RBP retinol-binding protein
  • folic acid / folate / vitamin B 9 binds the cell-surface folate receptor (FR), for example, FRa, with high affinity.
  • Folic acid or antibodies that bind to FRa can be used to target the folate receptor expressed on ovarian and other tumors, including solid tumors that over-express FRa, including non-small cell lung cancer (NSCLC).
  • NSCLC non-small cell lung cancer
  • vitamin D and its analog bind to vitamin D receptor.
  • the cell-binding agent is a protein or a polypeptide, or a compound comprising a protein or polypeptide, including antibody, non-antibody protein, or polypeptide.
  • GM-CSF a ligand / growth factor which binds to myeloid cells
  • IL-2 which binds to activated T-cells can be used for prevention of transplant graft rejection, for therapy and prevention of graft-versus-host disease, and for treatment of acute T-cell leukemia.
  • MSH which binds to melanocytes, can be used for the treatment of melanoma, as can antibodies directed towards melanomas.
  • Epidermal growth factor can be used to target squamous cancers, such as lung and head and neck.
  • Somatostatin can be used to target neuroblastomas and other tumor types.
  • Estrogen or estrogen analogues
  • Androgen or androgen analogues
  • the cell-binding agent can be a lymphokine, a hormone, a growth factor, a colony stimulating factor, or a nutrient-transport molecule.
  • the cell-binding agent is an antibody mimetic, such as an ankyrin repeat protein, a Centyrin, or an adnectin / monobody.
  • the cell-binding agent is an antibody, a single chain antibody, an antibody fragment that specifically binds to the target cell, a monoclonal antibody, a single chain monoclonal antibody, a monoclonal antibody fragment (or "antigen-binding portion") that specifically binds to a target cell, a chimeric antibody, a chimeric antibody fragment (or "antigen-binding portion") that specifically binds to the target cell, a domain antibody (e.g. , sdAb), or a domain antibody fragment that specifically binds to the target cell.
  • the cell-binding agent is a humanized antibody, a humanized single chain antibody, or a humanized antibody fragment (or "antigen-binding portion").
  • the cell-binding agent is an anti-CD33 antibody or fragement thereof, such as the antibodies or fragements thereof described in U.S. Patent Nos. 7,557,189, 7,342, 110, 8,119,787 and 8,337,855 and WO2004/043344, herein incorporated by reference.
  • the humanized antibody is huMy9-6 or another related antibody, which is described in U.S. Pat. Nos. 7,342, 110 and 7,557, 189.
  • the anti-CD33 antibody is huMy9-6 antibody.
  • double underlined sequences represent the variable regions (i.e., heavy chain variable region or HCVR, and light chain variable region or LCVR) of the heavy or light chain sequences, while bold sequences represent the CDR regions (i.e., from N- terminal to C-terminal, CDR1, CDR2, and CDR3, respectively, of the heavy chain or light chain sequences).
  • the anti-CD33 antibody comprises an immunoglobulin heavy chain region having the amino acid sequence of
  • the anti-CD33 antibody comprises the heavy chain CDR1-CDR3 of SEQ ID NO: 43, and/or the light chain CDR1-CDR3 of SEQ ID NO: 44, and preferably specifically binds CD33.
  • the anti-CD33 antibody comprises a heavy chain variable region (HCVR) sequence at least about 90%, 95%, 97%, 99%, or 100% identical to SEQ ID NO: 43, and/or a light chain variable region (LCVR) sequence at least about 90%, 95%, 97%, 99%, or 100% identical to SEQ ID NO: 44, and preferably specifically binds CD33.
  • HCVR heavy chain variable region
  • LCVR light chain variable region
  • the humanized antibody is an anti-folate receptor antibody described herein.
  • the antibody is an anti-folate receptor antibody described in U.S. Patent No. 8,577,966). More specifically, the anti-folate receptor antibody is a humanized antibody or antigen binding fragment thereof that specifically binds a human folate receptor 1.
  • human folate receptor 1 The terms "human folate receptor 1,"
  • FOLR1, or “folate receptor alpha (FR-a)", as used herein, refers to any native human FOLR1, unless otherwise indicated. Thus, all of these terms can refer to either a protein or nucleic acid sequence as indicated herein.
  • F0LR1 encompasses "full-length,” unprocessed FOLR1 as well as any form of FOLR1 that results from processing within the cell.
  • the FOLR1 antibody comprises: (a) a heavy chain CDRl comprising GYFMN (SEQ ID NO: 45); a heavy chain CDR2 comprising RIHP YDGDTF YNQXaa i FXaa 2 Xaa 3 (SEQ ID NO: 46); and a heavy chain CDR3 comprising YDGSRAMDY (SEQ ID NO: 47); and (b) a light chain CDRl comprising KASQSVSFAGTSLMH (SEQ ID NO: 48); a light chain CDR2 comprising RASNLEA (SEQ ID NO: 49); and a light chain CDR3 comprising QQSREYPYT (SEQ ID NO: 50); wherein Xaai is selected from K, Q, H, and R; Xaa 2 is selected from Q, H, N, and R; and Xaa 3 is selected from G, E, T, S, A, and V.
  • the heavy chain CDR2 sequence comprises RIHPYDGDTFYN
  • the anti-folate receptor antibody is a humanized antibody or antigen binding fragment thereof that specifically binds the human folate receptor 1 comprising the heavy chain having the amino acid sequence of
  • the anti-folate receptor antibody is a humanized antibody or antigen binding fragment thereof encoded by the plasmid DNA deposited with the ATCC on April 7, 2010 and having ATCC deposit nos. PTA-10772 and PTA-10773 or PTA-10774.
  • the anti-folate receptor antibody is a humanized antibody or antigen binding fragment thereof that specifically binds the human folate receptor 1 comprising the light chain having the amino acid sequence of
  • DrVLTQSPLSLAVSLGQPAIISCKASQSVSFAGTSLMHWYHQKPGQQPRLLIYRASN LEAGVPDRFSGSGSKTDFTLNISPVEAEDAATYYCQQSREYPYTFGGGTKLEIKRTV AAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQD SKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC (SEQ ID NO: 53); or DIVLTQSPLSLAVSLGQPAIISCKASQSVSFAGTSLMHWYHQKPGQQPRLLIYRASN LEAGVPDRFSGSGSKTDFTLTISPVEAEDAATYYCQQSREYPYTFGGGTKLEIKRTV AAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQD SKDSTYSLSSTLTLSKA
  • the anti-folate receptor antibody is a humanized antibody or antigen binding fragment thereof that specifically binds the human folate receptor 1 comprising the heavy chain having the amino acid sequence of SEQ ID NO: 52, and the light chain having the amino acid sequence of SEQ ID NO: 53 or SEQ ID NO: 54.
  • the antibody comprises the heavy chain having the amino acid sequence of SEQ ID NO: 52 and the light chain having the amino acid sequence of SEQ ID NO: 54 (hu FOLR1).
  • the anti-folate receptor antibody is a humanized antibody or antigen binding fragment thereof encoded by the plasmid DNA deposited with the ATCC on April 7, 2010 and having ATCC deposit nos. PTA- 10772 and PTA- 10773 or 10774.
  • the anti-folate receptor antibody is a humanized antibody or antigen binding fragment thereof that specifically binds the human folate receptor 1, and comprising a heavy chain variable domain at least about 90%, 95%, 99% or 100% identical to
  • the anti-folated receptor antibody is huMovl9 or M9346A (see, for example, U.S. Patent No. 8,709,432, U.S. Patent No. 8,557,966, and
  • the humanized antibody is an anti-CD37 antibody (e.g., anti- CD37-3) described in U.S. Patent No. 8,765,917.
  • the cell-binding agent is an anti-CD37 antibody or an antibody fragment thereof, such as those described in US Patent No. 8,765,917 and WO 2011/112978 , herein incorporated by reference.
  • the anti-CD37 antibody is huCD37-3 antibody.
  • the anti-CD37 antibody comprises an immunoglobulin light chain region having the amino acid sequence of
  • TYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC (SEQ ID NO: 58) and an immunoglobulin heavy chain region having the amino acid sequence of
  • the anti-CD37 antibody comprises an immunoglobulin light chain region having the amino acid sequcence set forth in SEQ ID NO: 58 and an
  • immunoglobulin heavy chain region having the amino acid sequcence set forth in SEQ ID NO: 59.
  • the anti-CD37 antibody comprises an immunoglobulin light chain region having the amino acid sequcence set forth in SEQ ID NO: 58 and an immunoglobulin heavy chain region having the amino acid sequcence set forth in SEQ ID NO: 60.
  • the anti-CD37 antibody comprises the heavy chain CDR1-CDR3 of SEQ ID NO: 59 or 60, and/or the light chain CDR1-CDR3 of SEQ ID NO: 58, and preferably specifically binds CD37.
  • the anti-CD37 antibody comprises a heavy chain variable region (HCVR) sequence at least about 90%, 95%, 97%, 99%, or 100% identical to SEQ ID NO: 59 or 60, and/or a light chain variable region (LCVR) sequence at least about 90%, 95%, 97%, 99%, or 100% identical to SEQ ID NO: 58, and preferably specifically binds CD37.
  • HCVR heavy chain variable region
  • LCVR light chain variable region
  • the anti-CD37 antibody comprises an immunoglobulin light chain region having the amino acid sequence of
  • TYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC (SEQ ID NO: 61) and an immunoglobulin heavy chain region having the amino acid sequence of
  • the anti-CD37 antibody comprises the heavy chain CDR1-CDR3 of SEQ ID NO: 62, and/or the light chain CDR1-CDR3 of SEQ ID NO: 61, and preferably specifically binds CD37.
  • the anti-CD37 antibody comprises a heavy chain variable region (HCVR) sequence at least about 90%, 95%, 97%, 99%, or 100% identical to SEQ ID NO: 62, and/or a light chain variable region (LCVR) sequence at least about 90%, 95%, 97%, 99%, or 100% identical to SEQ ID NO: 61, and preferably specifically binds CD37.
  • HCVR heavy chain variable region
  • LCVR light chain variable region
  • the anti-CD37 antibody is huCD37-50 antibody.
  • the humanized antibody is an anti-EGFR antibody described in U.S. Patent No. 8,790,649.
  • the antibody is an anti-EGFR antibody.
  • the anti-EGFR antibody is a non-antagonist antibody, including, for example, the antibodies described in WO2012058592, herein incorporated by reference.
  • the anti-EGFR antibody is a non-functional antibody, for example, humanized ML66 or EGFR-8. More specifically, the anti-EGFR antibody is huML66. The teachings of all these applications are incorporated herein by reference in its entirety.
  • the anti-EGFR antibody comprising the heavy chain having the amino acid sequence of SEQ ID NO: 63, and the light chain having the amino acid sequence of SEQ ID NO: 64.
  • the anti-EGFR antibody comprises the heavy chain CDR1-CDR3 of SEQ ID NO: 63, and/or the light chain CDR1-CDR3 of SEQ ID NO: 64, and preferably specifically binds EGFR.
  • the anti-EGFR antibody comprises a heavy chain variable region (HCVR) sequence at least about 90%, 95%, 97%, 99%, or 100% identical to SEQ ID NO: 63, and/or a light chain variable region (LCVR) sequence at least about 90%, 95%, 97%, 99%, or 100% identical to SEQ ID NO: 64, and preferably specifically binds EGFR.
  • HCVR heavy chain variable region
  • LCVR light chain variable region
  • the anti-EGFR antibody are antibodies described in
  • the anti-EGFR antibody is huEGFR-7R antiboby.
  • the anti-EGFR antibody comprises an immunoglobulin heavy chain region having the amino acid sequence of
  • the anti-EGFR antibody comprises an immunoglobulin heavy chain region having the amino acid sequence set forth in SEQ ID NO: 65 and an immunoglobulin light chain region having the amino acid sequence set forth in SEQ ID NO: 66.
  • the anti-EGFR antibody comprises an immunoglobulin heavy chain region having the amino acid sequence set forth in SEQ ID NO: 65 and an
  • immunoglobulin light chain region having the amino acid sequence set forth in SEQ ID NO: 67.
  • the anti-EGFR antibody comprises the heavy chain CDR1-CDR3 of SEQ ID NO: 65, and/or the light chain CDR1-CDR3 of SEQ ID NO: 66 or 67, and preferably specifically binds EGFR.
  • the anti-EGFR antibody comprises a heavy chain variable region (HCVR) sequence at least about 90%, 95%, 97%, 99%, or 100% identical to SEQ ID NO: 65, and/or a light chain variable region (LCVR) sequence at least about 90%, 95%, 97%, 99%, or 100% identical to SEQ ID NO: 66 or 67, and preferably specifically binds EGFR.
  • the cell-binding agent is an anti-CD19 antibody, such as those described in U.S. Patent No. 8,435,528 and WO2004/ 103272, hereinin incorporated by reference.
  • the anti-CD 19 antibody comprises an immunoglobulin heavy chain region having the amino acid sequence of
  • the anti-CD 19 antibody is huB4 antibody.
  • the anti-CD 19 antibody comprises the heavy chain CDR1-CDR3 of SEQ ID NO: 68, and/or the light chain CDR1-CDR3 of SEQ ID NO: 69, and preferably specifically binds CD 19.
  • the anti-CD 19 antibody comprises a heavy chain variable region (HCVR) sequence at least about 90%, 95%, 97%, 99%, or 100% identical to SEQ ID NO: 68, and/or a light chain variable region (LCVR) sequence at least about 90%, 95%, 97%, 99%, or 100% identical to SEQ ID NO: 69, and preferably specifically binds CD19.
  • HCVR heavy chain variable region
  • LCVR light chain variable region
  • the cell-binding agent is an anti-Mucl antibody, such as those described in U.S. Patent No. 7,834,155, WO 2005/009369 and WO 2007/024222, herein incorporated by reference.
  • the anti-Mucl antibody comprises an immunoglobulin heavy chain region having the amino acid sequence of
  • the anti-Mucl antibody is huDS6 antibody.
  • the anti-Mucl antibody comprises the heavy chain CDR1-CDR3 of SEQ ID NO: 70, and/or the light chain CDR1-CDR3 of SEQ ID NO: 71, and preferably specifically binds Mucl .
  • the anti-Mucl antibody comprises a heavy chain variable region (HCVR) sequence at least about 90%, 95%, 97%, 99%, or 100% identical to SEQ ID NO: 70, and/or a light chain variable region (LCVR) sequence at least about 90%, 95%, 97%, 99%, or 100% identical to SEQ ID NO: 71, and preferably specifically binds Mucl .
  • HCVR heavy chain variable region
  • LCVR light chain variable region
  • the cell-binding agent is a resurfaced antibody, a resurfaced single chain antibody, a resurfaced antibody fragment (or "antigen-binding portion"), or a bispecific antibody.
  • the cell-binding agent is a minibody, an avibody, a diabody, a tribody, a tetrabody, a nanobody, a probody, a domain antibody, or an unibody.
  • an exemplary cell binding agent may include an antibody, a single chain antibody, an antibody fragment that specifically binds to the target cell, a monoclonal antibody, a single chain monoclonal antibody, a monoclonal antibody fragment that specifically binds to a target cell, a chimeric antibody, a chimeric antibody fragment that specifically binds to the target cell, a bispecific antibody, a domain antibody, a domain antibody fragment that specifically binds to the target cell, an interferon, a lymphokine (e.g., IL-2, IL-3, IL-4, and IL-6), a hormone (e.g.
  • a lymphokine e.g., IL-2, IL-3, IL-4, and IL-6
  • a hormone e.g.
  • a steroid hormone e.g., androgen and estrogen
  • a vitamin e.g. , folate
  • a growth factor e.g. , EGF, TGF-alpha, FGF, VEGF
  • a colony stimulating factor e.g., transferrin; see O'Keefe et al. (1985) J. Biol. Chem. 260:932-937, incorporated herein by reference
  • a Centyrin a protein scaffold based on a consensus sequence of fibronectin type III (FN3) repeats; see U.S. Patent
  • an Ankyrin Repeat Protein e.g., a designed ankyrin repeat protein, known as DARPin; see U.S. Patent Publication Nos. 2004/0132028, 2009/0082274, 2011/0118146, and 2011/0224100, incorporated herein by reference, and also see C. Zahnd et al., Cancer Res. (2010) 70: 1595-1605; Zahnd et al, J. Biol. Chem. (2006) 281(46):35167-35175; and Binz, H.K., Amstutz, P.
  • DARPin an ankyrin Repeat Protein
  • WO 2007/062466 incorporated herein by reference
  • an Adnectin a fibronectin domain scaffold protein; see US Patent Publication Nos. 2007/0082365; 2008/0139791, incorporated herein by reference
  • Avibody including diabodies, triabodies, and tetrabodies; see U.S. Publication Nos. 2008/0152586 and 2012/0171115
  • other cell-binding molecules or substances see U.S. Publication Nos. 2008/0152586 and 2012/0171115
  • the cell-binding agent may be a ligand that binds to a moiety on the target cell, such as a cell- surface receptor.
  • the ligand may be a growth factor or a fragment thereof that binds to a growth factor receptor; or may be a cytokine or a fragment thereof that binds to a cytokine receptor.
  • the growth factor receptor or cytokine receptor is a cell-surface receptor.
  • the CBA may bind to a ligand on the target cell, such as a cell- surface ligand, including cell- surface receptors.
  • Specific exemplary antigens or ligands may include renin; a growth hormone (e.g., human growth hormone and bovine growth hormone); a growth hormone releasing factor; a parathyroid hormone; a thyroid stimulating hormone; a lipoprotein; alpha- 1- antitrypsin; insulin A-chain; insulin B-chain; proinsulin; a follicle stimulating hormone; calcitonin; a luteinizing hormone; glucagon; a clotting factor (e.g., factor vmc, factor IX, tissue factor, and von Willebrands factor); an anti-clotting factor (e.g., Protein C); an atrial natriuretic factor; a lung surfactant; a plasminogen activator (e.g., a urokinase, a human urine or tissue-type plasminogen activator); bombesin; a thrombin; hemopoietic growth factor; tumor necrosis factor- alpha and -
  • vascular endothelial growth factor a receptor for hormones or growth factors; protein A or D; a rheumatoid factor; a neurotrophic factor(e.g. , bone-derived neurotrophic factor, neurotrophin-3, -4, -5, or -6), a nerve growth factor (e.g. , NGF- ⁇ ); a platelet-derived growth factor; a fibroblast growth factor (e.g. , aFGF and bFGF); fibroblast growth factor receptor 2; an epidermal growth factor; a transforming growth factor (e.g.
  • TGF-alpha TGF- ⁇ , TGF- 2, TGF- 3, TGF- 4, and TGF- 5
  • insulin-like growth factor-I and -II des(l-3)-IGF-I (brain IGF-I); an insulin-like growth factor binding protein
  • melanotransferrin EpCAM; GD3; FLT3; PSMA; PSCA; MUC1 ; MUC16; STEAP; CEA; TENB2; an EphA receptor; an EphB receptor; a folate receptor; FOLR1 ; mesothelin; cripto; an alpha v beta 6 ; integrins; VEGF; VEGFR; EGFR; transferrin receptor; IRTA1 ; IRTA2; IRTA3; IRTA4; IRTA5; CD proteins (e.g.
  • erythropoietin an osteoinductive factor
  • an immunotoxin a bone morphogenetic protein
  • an interferon e.g. , interferon- alpha, -beta, and -gamma
  • a colony stimulating factor e.g., M-CSF, GM-CSF, and G-CSF
  • interleukins e.g., IL- 1 to IL- 10
  • a superoxide dismutase a T-cell receptor
  • a surface membrane protein a decay accelerating factor
  • a viral antigen s e.g.
  • a portion of the HIV envelope a transport protein, a homing receptor; an addressin; a regulatory protein; an integrin (e.g. , CD1 la, CDl lb, CDl lc, CD18, an ICAM, VLA-4, and VCAM;) a tumor associated antigen (e.g. , HER2, HER3 and HER4 receptor); endoglin; c-Met; c-kit; 1GF1R; PSGR; NGEP; PSMA; PSCA; TMEFF2; LGR5; B7H4; and fragments of any of the above-listed polypeptides.
  • an integrin e.g. , CD1 la, CDl lb, CDl lc, CD18, an ICAM, VLA-4, and VCAM
  • a tumor associated antigen e.g. , HER2, HER3 and HER4 receptor
  • endoglin c-Met; c-kit; 1GF1R; PSGR; NGEP
  • the term "antibody” includes immunoglobulin (Ig) molecules.
  • the antibody is a full-length antibody that comprises four polypeptide chains, namely two heavy chains (HC) and two light chains (LC) inter-connected by disulfide bonds.
  • Each heavy chain is comprised of a heavy chain variable region (HCVR or VH) and a heavy chain constant region (CH).
  • the heavy chain constant region is comprised of three domains, CHI, CH2, and CH3.
  • Each light chain is comprised of a light chain variable region (LCVR or VL) and a light chain constant region, which is comprised of one domain, CL.
  • VH and VL regions can be further subdivided into regions of hypervariability, termed complementarity determining regions (CDRs). Interspersed with such regions are the more conserved framework regions (FRs).
  • CDRs complementarity determining regions
  • FRs framework regions
  • Each VH and VL is composed of three CDRs and four FRs, arranged from amino-terminus to carboxy- terminus in the following order: FRl, CDRl, FR2, CDR2, FR3, CDR3, and FR4.
  • the antibody is IgG, IgA, IgE, IgD, or IgM. In certain embodiments, the antibody is IgGl, IgG2, IgG3, or IgG4; or IgAl or IgA2.
  • the cell-binding agent is an "antigen-binding portion" of a monoclonal antibody, sharing sequences critical for antigen-binding with an antibody (such as huMy9-6 or its related antibodies described in U.S. Pat. Nos. 7,342,110 and 7,557,189, incorporated herein by reference).
  • antibody fragments include one or more fragments of an antibody that retain the ability to specifically bind to an antigen. It has been shown that the antigen-binding function of an antibody can be performed by certain fragments of a full- length antibody.
  • binding fragments encompassed within the term "antigen- binding portion" of an antibody include (without limitation): (i) a Fab fragment, a monovalent fragment consisting of the VL, VH, CL and CHI domains (e.g., an antibody digested by papain yields three fragments: two antigen-binding Fab fragments, and one Fc fragment that does not bind antigen); (ii) a F(ab') 2 fragment, a bivalent fragment comprising two Fab fragments linked by a disulfide bridge at the hinge region (e.g.
  • an antibody digested by pepsin yields two fragments: a bivalent antigen-binding F(ab') 2 fragment, and a pFc' fragment that does not bind antigen) and its related F(ab') monovalent unit; (iii) a Fd fragment consisting of the VH and CHI domains (i.e.
  • the antigen-binding portion is a sdAb (single domain antibody).
  • antigen-binding portion also include certain engineered or recombinant derivatives (or "derivative antibodies”) that also include one or more fragments of an antibody that retain the ability to specifically bind to an antigen, in addition to elements or sequences that may not be found in naturally existing antibodies.
  • VL and VH are coded for by separate genes, they can be joined, using standard recombinant methods, by a synthetic linker that enables them to be made as a single protein chain in which the VL and VH regions pair to form monovalent molecules (known as single chain Fv (scFv); see, e.g., Bird et al. Science 242:423-426, 1988: and Huston et al, Proc. Natl. Acad. Sci. USA 85:5879-5883, 1988).
  • scFv single chain Fv
  • the N-terminum of an scFv may be a VH domain ⁇ i.e., N-VH-VL-C), or a VL domain ⁇ i.e., N-VL-VH-C).
  • Divalent (or bivalent) single-chain variable fragments can be engineered by linking two scFvs. This produces a single peptide chain with two VH and two VL regions, yielding a tandem scFvs (tascFv). More tandem repeats, such as tri-scFv, may be similarly produced by linking three or more scFv in a head-to-tail fashion.
  • scFvs may be linked through linker peptides that are too short (about five amino acids) for the two variable regions to fold together, forcing scFvs to dimerize, and form diabodies (see, e.g., Holliger et al., Proc. Natl. Acad. Sci. USA 90:6444- 6448, 1993; Poljak ei a/., Structure 2: 1121-1123, 1994). Diabodies may be bi-specific or monospecific. Diabodies have been shown to have dissociation constants up to 40-fold lower than corresponding scFvs, i.e., having a much higher affinity to the target.
  • All of these formats can be composed from variable fragments with specificity for two or more different antigens, in which case they are types of bi- or multi- specific antibodies.
  • bispecific tandem di-scFvs are known as bi-specific T-cell engagers (BiTEs).
  • each scFv in the tandem scFv or diabody / triabody / tetrabody may have the same or different binding specificity, and each may independently have an N-terminal VH or N-terminal VL.
  • Single chain Fv scFv
  • Fc moiety such as the human IgG Fc moiety to obtain IgG-like properties, but nevertheless they are still encoded by a single gene.
  • this derivative antibody format is particularly suitable for many research applications.
  • Fcabs are antibody fragments engineered from the Fc constant region of an antibody. Fcabs can be expressed as soluble proteins, or they can be engineered back into a full-length antibody, such as IgG, to create mAb2.
  • a mAb2 is a full-length antibody with an Fcab in place of the normal Fc region. With these additional binding sites, mAb2 bispecific monoclonal antibodies can bind two different targets at the same time.
  • the engineered antibody derivatives have reduced size of the antigen-binding Ig-derived recombinant proteins ("miniaturized" full-size mAbs), produced by removing domains deemed non-essential for function.
  • miniaturized full-size mAbs
  • SMIP Small modular immunopharmaceutical
  • a Small modular immunopharmaceutical, or SMIP is an artificial protein largely built from parts of antibodies (immunoglobulins), and is intended for use as a pharmaceutical drug.
  • SMIPs have similar biological half-life as antibodies, but are smaller than antibodies and hence may have better tissue penetration properties.
  • SMIPs are single-chain proteins that comprise one binding region, one hinge region as a connector, and one effector domain.
  • the binding region comprises a modified single-chain variable fragment (scFv), and the rest of the protein can be constructed from the Fc (such as CH2, and CH3 as the effector domain) and the hinge region of an antibody, such as IgGl.
  • scFv modified single-chain variable fragment
  • genetically modified cells produce SMIPs as antibody-like dimers that are about 30% smaller than real antibodies.
  • FIG. 1 Another example of such engineered miniaturized antibody is "unibody,” in which the hinge region has been removed from IgG4 molecules.
  • IgG4 molecules are unstable and can exchange light-heavy chain heterodimers with one another. Deletion of the hinge region prevents heavy chain-heavy chain pairing entirely, leaving highly specific monovalent light / heavy heterodimers, while retaining the Fc region to ensure stability and half-life in vivo.
  • a single-domain antibody including but not limited to those called
  • the single-domain antibody is engineered from heavy-chain antibodies (hcIgG).
  • the first such sdAb was engineered based on an hcIgG found in camelids, called V H H fragments.
  • the single-domain antibody is engineered from IgNAR ("immunoglobulin new antigen receptor," see below) using a V NAR fragment.
  • Cartilaginous fishes such as shark have such heavy-chain IgNAR antibodies.
  • the sdAb is engineered by splitting the dimeric variable domains from common immunoglobulin G (IgG), such as those from humans or mice, into monomers.
  • IgG immunoglobulin G
  • a nanobody is derived from a heavy chain variable domain.
  • a nanobody is derived from light chain variable domain.
  • the sdAb is obtained by screening libraries of single domain heavy chain sequences (e.g., human single domain HCs) for binders to a target antigen.
  • VNARS single variable new antigen receptor domain antibody fragments
  • VNAR cartilaginous fish
  • IgNARs immunoglobulin new antigen receptor antibodies
  • V NAR cartilaginous fish
  • C NAR constant new antigen receptor
  • a minibody is an engineered antibody fragment comprising an scFv linked to a CH domain, such as the CH3yl (CH3 domain of IgGl) or CH48 (CH4 domain of IgE).
  • a CH domain such as the CH3yl (CH3 domain of IgGl) or CH48 (CH4 domain of IgE).
  • CEA carcinoembryonic antigen
  • the scFv may have a N-terminal VH or VL.
  • the linkage may be a short peptide (e.g., two amino acid linker, such as ValGlu) that results in a non-covalent, hingeless minibody.
  • the linkage may be an IgGl hinge and a GlySer linker peptide that produces a covalent, hinge-minibody.
  • Natural antibodies are mono-specific, but bivalent, in that they express two identical antigen -binding domains.
  • certain engineered antibody derivatives are bi- or multi- specific molecules possess two or more different antigen-binding domains, each with different target specificity.
  • Bispecific antibodies can be generated by fusing two antibody-producing cells, each with distinct specificity. These "quadromas" produced multiple molecular species, as the two distinct light chains and two distinct heavy chains were free to recombine in the quadromas in multiple configurations. Since then, bispecific Fabs, scFvs and full-size mAbs have been generated using a variety of technologies (see above).
  • the dual variable domain immunoglobulin (DVD-Ig) protein is a type of dual- specific IgG that simultaneously target two antigens / epitopes (DiGiammarino et al., Methods Mol Biol. 899: 145-56, 2012).
  • the molecule contains an Fc region and constant regions in a configuration similar to a conventional IgG.
  • the DVD-Ig protein is unique in that each arm of the molecule contains two variable domains (VDs). The VDs within an arm are linked in tandem and can possess different binding specificities.
  • a DuoBody® is a bispecific modified IgGl antibody heterodimer.IgGl hinge region that generally includes (i) a stable hinge region that contains a CPPC sequence and is non- permissive for Fab arm exchange in vivo and (ii) an IgG4-like CH3 domain that is modified to contain F405L and K409R residues, which renders it permissive for Fab arm exchange in vivo. (See, for example, WO2008119353 and WO2011131746).
  • Trispecific antibody derivative molecules can also been generated by, for example, expressing bispecific antibodies with two distinct Fabs and an Fc.
  • a mouse IgG2a anti-Ep-CAM, rat IgG2b anti-CD3 quadroma, called BiUII is thought to permit the co-localization of tumor cells expressing Ep-CAM, T cells expressing CD3, and macrophages expressing FCyRI, thus potentiating the costimulatory and anti-tumor functions of the immune cells.
  • Probodies are fully recombinant, masked monoclonal antibodies that remain inert in healthy tissue, but are activated specifically in the disease microenvironment ⁇ e.g., through protease cleavage by a protease enriched or specific in a disease microenvironment). See Desnoyers et ah, Sci. Transl. Med., 5:207ral44, 2013. Similar masking techniques can be used for any of the antibodies or antigen-binding portions thereof described herein.
  • An intrabody is an antibody that has been modified for intracellular localization, for working within the cell to bind to an intracellular antigen.
  • the intrabody may remain in the cytoplasm, or may have a nuclear localization signal, or may have a KDEL sequence for ER targeting.
  • the intrabody may be a single-chain antibody (scFv), modified immunoglobulin VL domains with hyperstability, selected antibody resistant to the more reducing intracellular environment, or expressed as a fusion protein with maltose binding protein or other stable intracellular proteins.
  • the antigen-binding portions or derivative antibodies of the invention may have substantially the same or identical (1) light chain and/or heavy chain CDR3 regions; (2) light chain and/or heavy chain CDR1, CDR2, and CDR3 regions; or (3) light chain and/or heavy chain regions, compared to an antibody from which they are derived / engineered. Sequences within these regions may contain conservative amino acid substitutions, including
  • the antigen-binding portions or derivative antibodies have a light chain region and/or a heavy chain region that is at least about 90%, 95%, 99% or 100% identical to an antibody from which they are derived / engineered. These antigen-binding portions or derivative antibodies may have substantially the same binding specificity and/or affinity to the target antigen compared to the antibody. In certain embodiments, the 3 ⁇ 4 and/or Rvalues of the antigen-binding portions or derivative antibodies are within 10-fold (either higher or lower), 5-fold (either higher or lower), 3-fold (either higher or lower), or 2-fold (either higher or lower) of an antibody described herein.
  • the antigen-binding portions or derivative antibodies may be derived / engineered from fully human antibodies, humanized antibodies, or chimeric antibodies, and may be produced according to any art-recognized methods.
  • Monoclonal antibody techniques allow for the production of extremely specific cell- binding agents in the form of specific monoclonal antibodies.
  • Particularly well known in the art are techniques for creating monoclonal antibodies produced by immunizing mice, rats, hamsters or any other mammal with the antigen of interest such as the intact target cell, antigens isolated from the target cell, whole virus, attenuated whole virus, and viral proteins such as viral coat proteins.
  • Sensitized human cells can also be used.
  • Another method of creating monoclonal antibodies is the use of phage libraries of scFv (single chain variable region), specifically human scFv (see e.g., Griffiths et al., U.S. Patent Nos.
  • Cell-binding agent can also be peptides derived from phage display (see, for example, Wang et al, Proc. Natl. Acad. Sci. USA (2011) 108(17), 6909-6914) or peptide library techniques (see, for example, Dane et al, Mol. Cancer. Ther. (2009) 8(5): 1312-1318).
  • the CBA of the invention also includes an antibody mimetic, such as a DARPin, an affibody, an affilin, an affitin, an anticalin, an avimer, a Fynomer, a Kunitz domain peptide, a monobody, or a nanofitin.
  • DARPin and "(designed) ankyrin repeat protein” are used interchangeably to refer to certain genetically engineered antibody mimetic proteins typically exhibiting preferential (sometimes specific) target binding.
  • the target may be protein, carbohydrate, or other chemical entities, and the binding affinity can be quite high.
  • the DARPins may be derived from natural ankyrin repeat-containing proteins, and preferably consist of at least three, usually four or five ankyrin repeat motifs (typically about 33 residues in each ankyrin repeat motif) of these proteins.
  • a DARPin contains about four- or five-repeats, and may have a molecular mass of about 14 or 18 kDa, respectively.
  • Libraries of DARPins with randomized potential target interaction residues with diversities of over 10 12 variants can be generated at the DNA level, for use in selecting DARPins that bind desired targets (e.g., acting as receptor agonists or antagonists, inverse agonists, enzyme inhibitors, or simple target protein binders) with picomolar affinity and specificity, using a variety of technologies such as ribosome display or signal recognition particle (SRP) phage display.
  • desired targets e.g., acting as receptor agonists or antagonists, inverse agonists, enzyme inhibitors, or simple target protein binders
  • SRP signal recognition particle
  • Affibody molecules are small proteins engineered to bind to a large number of target proteins or peptides with high affinity, thus imitating monoclonal antibodies.
  • An Affibody consists of three alpha helices with 58 amino acids and has a molar mass of about 6 kDa. They have been shown to withstand high temperatures (90 °C) or acidic and alkaline conditions (pH 2.5 or pH 11), and binders with an affinity of down to sub-nanomolar range have been obtained from naive library selections, and binders with picomolar affinity have been obtained following affinity maturation.
  • affibodies are conjugated to weak electrophiles for binding to targets covalently.
  • Monobodies are genetically engineered antibody mimetic proteins capable of binding to antigens.
  • monobodies consist of 94 amino acids and have a molecular mass of about 10 kDa. They are based on the structure of human fibronectin, more specifically on its tenth extracellular type III domain, which has a structure similar to antibody variable domains, with seven beta sheets forming a barrel and three exposed loops on each side corresponding to the three complementarity determining regions.
  • Monobodies with specificity for different proteins can be tailored by modifying the loops BC (between the second and third beta sheets) and FG (between the sixth and seventh sheets).
  • a tribody is a self-assembly antibody mimetic designed based on the C-terminal coiled-coil region of mouse and human cartilage matrix protein (CMP), which self-assembles into a parallel trimeric complex. It is a highly stable trimeric targeting ligand created by fusing a specific target-binding moiety with the trimerization domain derived from CMP. The resulting fusion proteins can efficiently self-assemble into a well-defined parallel homotrimer with high stability.
  • SPR Surface plasmon resonance
  • a Centyrin is another antibody mimetic that can be obtained using a library built upon the framework of a consensus FN3 domain sequence (Diem et ah, Protein Eng. Des. SeL, 2014). This library employs diversified positions within the C-strand, CD-loop, F-strand and FG-loop of the FN3 domain, and high-affinity Centyrin variants can be selected against specific targets.
  • All methods for introducing N-terminal Ser/Thr and the subsequent oxidation to aldehyde group for reacting with aldehyde reacting groups are applicable for cell-binding agents that are antibodies and that are not antibodies, including, for example, centyrin, Darpin, Avibody, adnectin, antibody fragment, minibody, diabody, tribody, tetrabody, nanobody, probody, duobody, domain body or unibody, etc.
  • huCD 123-6 antibodies are humanized by grafting the 6 CDRs from the heavy and light chains of the murine anti-CD 123 antibody muCD 123-6. In those antibodies, the letter “G” immediately follows the clone designation (i.e., huCD 123-6), which is in turn followed by a version number that designates the origin of the human light chain and heavy chain variable region sequences.
  • huCD123-6Gv4.6 refers to the humanized CD123 antibody based on grafting ("G") the 6 CDR regions from the corresponding muCDR123-6 antibody, onto the human light chain variable region Gv4 and the heavy chain variable region Gv6.
  • - Gv4.7 comprises human light chain variable region Gv4 and heavy chain variable region Gv7.
  • Another class of huCD 123-6 antibodies are humanized by way of resurfacing.
  • the resurfaced antibody having the resurfaced heavy chain sequence huCD123-6rhvl . l and the resurfaced light chain sequence huCD123-6rlvl .O is huCD123-6Rvl . l .
  • NTS#2 or "S2" for short refers to an antibody having an engineered Ser at the N-terminus of heavy chain.
  • S2 variant of the huCD123-6Gv4.7 antibody is designated huCD123-6Gv4.7S2.
  • NTS#3 or "S3” for short refers to an antibody having an engineered Ser at the N-terminus of light chain.
  • the S3 variant of the huCD123- 6Gv4.7 antibody is designated huCD123-6Gv4.7S3.
  • the conjugate name may contain a "SeriMab" designation.
  • huCD123-6Gv4.7S3-SeriMab-D8 refers to conjugate between D8 (see FIG. 17 for D8 or sD8 structure) and the humanized CD123 antibody huCD123-6Gv4.7S3, through the oxidized N-terminal Ser on the light chain.
  • cytotoxic agents used in Examples 23-30, and FIGs. 17, 18, 22A-24, 26A-26C, and 29, such as "D8" and its sulfonated version “sD8" and related "D2,” “Dl” and its sulfonated version “sDl,” may not follow the general formula of drug molecule "D” in the subject conjugates, but the structures of these cytotoxic agents are depicted in the associated figures and text.
  • CYTOTOXIC AGENTS including all protein (e.g., antibody and CDRs, HCVRs, LCVRs, full-length HC and LC sequences thereof) and nucleic acid sequences and the associated SEQ ID NOs, particularly those of CD123-SeriMab having one or more engineered N-terminal Ser/Thr residues, are incorporated herein by reference in its entirety.
  • the present invention provides cytotoxic agents (represented by D') that can be covalently linked to the cell-binding agents described herein to form the conjugates of the present invention.
  • the cytotoxic agent is a maytansinoid. More specifically, the cytotoxic agent D' is represented by the following structural formula:
  • cytotoxic agent D' is represented by the following formula:
  • cytotoxic agent D is represented by the following formula:
  • the cytotoxic agent D' is a maytansinoid compound comprising an aldehyde reactive group, which can be directly linked to the cell-binding agent. More specifically, the maytansinoid compound is represented by the following formula:
  • the cytotoxic agent is a benzodiazepine compound.
  • Exemplary benzodiazepine compounds include, but are not limited those described in US Patent Nos. 8,765,740, 8,426,402, US2014/0088089, WO2011/130613, WO2011/130616, WO2010/091150, and WO2009/016516.
  • the cytotoxic agent D' is a benzodiazepine compound represented by the following structural formula:
  • D' is represented by the following structural formula:
  • the cytotoxic agent D' is a benzodiazepine compound comprising an aldehyde reactive group, which can be directly linked to the cell- binding agent. More specifically, the benzodiazepine compound is represented by the following structural formula:
  • JCB is an aldehyde reactive group as described above in the first embodiment; and the remaining variables are as described above for structural formulas (D18)-(D23) in the 7 th specific embodiment of the first embodiment and any more specific embodiments described therein. pecifically, for formulas (D18')-(D23'), J,
  • L' is represented by formula (A) and L" and L'" are both -H; and remaining variables are as describe in any embodiments above.
  • the double line— between N and C represents a single bond or double bond, provided that when it is a double bond X is absent and Y is -H, and when it is a single bond, X is -H, Y is -OH or -S0 3 M;
  • Ri, R 2 , R 3 , R4, Ri', R 2 ', R 3 ' and R 4 ' are all -H;
  • R 6 is -OMe
  • X' and Y' are both -H;
  • a and A' are -0-; and M is H + , Na + or K + ; and the remaining variables are as described in any embodiments above.
  • R a and R b are both H; and the remaining variables are as described in any embodiments above.
  • R 5 and R 9 are each independently H or Me; and the remaining variables are as described any embodiments above. More specifically, R 5 and Rg are both H.
  • P is a peptide containing 2 to 10 amino acid residues; and the remaining variables are as described in any embodiments above. More specifically, P is a peptide containing 2 to 5 amino acid residues.
  • P is elected from Gly-Gly-Gly, Ala-Val, Val-Ala, Val-Cit, Val-Lys, Phe-Lys, Lys-Lys, Ala-Lys, Phe-Cit, Leu-Cit, Lle-Cit, Trp, Cit, Phe-Ala, Phe-N 9 -tosyl-Arg, Phe-N 9 -nitro-Arg, Phe-Phe-Lys, D-Phe-Phe-Lys, Gly-Phe-Lys, Leu- Ala-Leu, lie- Ala-Leu, Val-Ala-Val, Ala-Leu- Ala-Leu (SEQ ID NO: 17), ⁇ -Ala-Leu- Ala-Leu (SEQ ID NO: 18) and Gly-Phe-Leu-Gly (SEQ ID NO: 19), Val-Arg, Arg-Val, Arg-Arg, Val-D-Cit, Val-D-Cit,
  • cytotoxic agent D' is represented by the following structural formula:
  • the present invention provides cytotoxic agent- linker compounds having an aldehyde reactive group, which can be covalently linked to the cell- binding agents describe herein.
  • cytotoxic agent-linker compounds are represented by the following formula:
  • JCB is an aldehyde reactive group described in the first embodiment; and the remaining variables are as describe above in the first embodiment or the 2 nd to 6 th specific embodiment of the first embodiment or any more specific embodiments described therein.
  • JCB is a hydrazine, a hydrazide or a hydroxylamine.
  • JCB is selected from:
  • X a is CH 2 , O or NCH 3 ;
  • U' is NH, O, S or CH 2 ;
  • U is H or an electron
  • Z Z' donating group is each independently -OH, -SH or -NH 2 ; R and R are each independently H or an alkyl (preferably -Me); R " is H or an alk l; and X c is N or CH. More
  • aldehyde reactive group ; ; or 109
  • the present invention provides modified cell-binding agents formed by reacting cell-binding agents described herein with a linker compound having an aldehyde reactive group.
  • the modified cell-binding agent is represented by the following formula:
  • J D is a reactive group that can form a covalent bond with the cytotoxic agent D'; and the remaining variables are as described above in the first embodiment or any specific embodiments described therein.
  • J C B' is represented by one of the following structural formulas:
  • X a is CH 2 , O or NCH 3 ;
  • U' is NH, O, S or CH 2 ;
  • U is H or an electron donating group;
  • XM and X b i' are each independentl -0-, -S- or -NH-; R and R are each independently H or an alkyl (preferably -Me); and R " is H or an alkyl; si is the site covalently linked to the cell-binding agent; and s2 is the site covalently linked to the group
  • -L-J D is represented by the following structural formula:
  • J CB ' and J D are as described above in the 2 ND specific embodiment. More specifically, J D is-SH or -SSR d .
  • -L-J D is represented by the following structural formula:
  • CBA can be any cell- binding agents described in the second embodiment.
  • the present invention provides bifunctional crosslinking agents (i.e., linker compounds) having an aldehyde group and a reactive group that can form a covalent bond with the cytotoxic agents described herein.
  • bifunctional crosslinking agents i.e., linker compounds
  • the linker compound is represented by the following formula:
  • linker compound is represented by the following formula:
  • J CB is an aldehyde reactive group described in the first embodiment; and the remaining variables are as described above for structural formula (LI '). More specifically, J D is-SH or -SSR d . Even more specifically, J CB is
  • the bifunctional crosslinking agent is represented by the following structural formula:
  • J D is-SH or -SSR . ven more spec ca y,
  • linker compound is represented by the following structural formula:
  • the bifunctional crosslinking agent is represented by the following structural formula:
  • the bifunctional crosslinking agent is represented by the following structural formula:
  • J D is a maleimide
  • J D is a maleimide.
  • JCB is * H ; ; or
  • the present invention provides methods for preparing the cell-binding agent-cytotoxic agent conjugates described herein.
  • the present invention provides a method of preparing the cell- binding agent-cytotoxic agent conjugates described herein comprising the steps of:
  • a cytotoxic agent followed by the addition of a linker compound having an aldehyde reactive group and a reactive group that can form a covalent bond with the cytotoxic agent to form the cell-binding agent-cytotoxic agent conjugate.
  • the cell binding-agent is an antibody or an antigen binding portion thereof and the method comprises the steps of: (a) oxidizing an 2-hydroxyethylamine moiety of an antibody or an antigen-binding portion thereof with an oxidizing agent to form an oxidized antibody or an oxidized antigen- binding portion thereof having an aldehyde group, wherein the 2-hydroxyethylamine moiety is part of an N-terminal serine, threonine, hydroxylysine, 4-hydroxyornithine or 2,4-diamino-5-hydroxy valeric acid residue; and
  • Ab is an antibody or an antigen binding portion thereof described herein;
  • J CB is an aldehyde reactive group as described above;
  • L is a spacer or a bond as described above;
  • J D ' is a linking moiety connecting cytotoxic agent D with the group L or absent when L is a bond;
  • D is a cytotoxic agent covalently linked to L through the linking moiety J D '; and w is 1, 2, 3 or 4.
  • any cytotoxic agent-linker compounds described in the fourth embodiment above or cytotoxic agent described in the third embodiment can be used.
  • the modified cytotoxic agent-linker compound or a modified cytotoxic agent is generated in situ and reacted with the oxidized antibody or the oxidized antigen-binding portion thereof without purification.
  • the cell binding-agent is an antibody or an antigen binding portion thereof and the method comprises the steps of:
  • any linker compounds described in the sixth embodiment above can be used.
  • the modified cytotoxic agent is generated in situ and not purified before reacting with the modified antibody or the modified antigen-binding portion thereof having a linker bound thereto.
  • the cell binding-agent is an antibody or an antigen binding portion thereof and the method comprises the steps of:
  • any linker compounds described in the sixth embodiment and cytotoxic agent described in the third embodiment can be used.
  • any suitable oxidizing agent can be used in step (a) of the methods described above.
  • the oxidizing agent is a periodate. More specifically, the oxidizing agent is sodium periodate.
  • Excess molar equivalents of the oxidizing agent relative to the cell-binding agent can be used. In certain embodiments, about 2- 100, 5-80, 10-50, 1- 10 or 5- 10 molar equivalents of the oxidizing agent can be used. In certain embodiment, about 10 or about 50 equivalents of the oxidizing agent can be used. When large amount of the oxidizing agent is used, short reaction time is used to avoid over- oxidation. For example, when 50 equivalents of the oxidizing agent is used, the oxidation reaction is carried out for about 5 to about 60 minutes. Alternatively, when 10 equivalents of the oxidizing agent is used, the reaction is carried out for about 30 minutes to about 24 hours. In one embodiment, 5-10 molar equivalents of the oxidizing agent is used and the oxidation reaction is carried out for about 5 to about 60 minutes (e.g. , about 10 to about 30 minutes, about 20 to about 30 minutes).
  • the oxidation reaction does not lead to significant non- targeted oxidation.
  • no signification amount e.g. , less than 20%, less than 10%, less than 5%, less than 3%, less than 2% or less than 1%) of methionine and/or glycans are oxidized during the oxidation process of N-terminal serine to generate the oxidized
  • CD123/IL-3Ra-binding agent having a N-terminal aldehyde group.
  • a catalyst is present in the reaction of step (b) in the methods described above. Any suitable catalyst in the art can be used.
  • the catalyst is an aniline or substituted aniline.
  • Exemplary aniline catalyst include, but are not limited to, aniline, o-phenylenediamine, m-phenylenediamine, 3,5-diaminobenzoic acid, p- phenylenediamine, 2-methyl-p-phenylenediamine, N-methyl-p-phenylenediamine, o- aminophenol, m-aminophenol, p-aminophenol, p-methoxyaniline, 5-methoxy-anthranilic acid, o-aminobenzoid acid, and 4-aminophenethylalcohol.
  • the catalyst is 4-aminophenethylalcohol.
  • the reaction of step (b) is carried out at pH about 5.0 to about 6.5. In certain embodiments, the reaction of step (b) is carried out at pH about 5.0.
  • the compound having an aldehyde reactive group e.g. , cytotoxic agent- linker compound, cytotoxic agent, or the linker compound described herein
  • the oxidized cell- binding agent e.g. , oxidized antibody or oxidized antigen binding portion.
  • the ratio for the compound having an aldehyde reactive group to oxidized cell- binding agent is between about 10: 1 to about 1.1 : 1, between about 5: 1 to about 2: 1. In one embodiment, the ratio is about 4: 1.
  • the cell-binding agent such as the antibody or antigen binding portion thereof, can be obtained by any methods described herein.
  • the present invention provides a method of preparing an antibody-cytotoxic agent conjugate, comprising the steps of:
  • the antibody or antigen-binding portion thereof is obtained by expressing a polynucleotide encoding a recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof comprising: (1) a heterologous signal peptide having an amino acid sequence of SEQ ID NO: 1; (2) a Ser or Thr residue immediately N-terminal to the first residue of the mature processed sequence of the recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof; or (3) a Ser or Thr residue replacing one or more N- terminal amino acid residue(s) of the mature processed sequence of the recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof.
  • the antibody or antigen-binding portion thereof comprises a light chain sequence of SEQ ID NO: 3.
  • the antibody or antigen-binding portion thereof is a chimeric, humanized, or human antibody or antigen-binding portion thereof of a murine antibody or antigen-binding portion thereof comprising a light chain sequence of SEQ ID NO: 3.
  • the humanized antibody or antigen- binding portion thereof may be a resurfaced or CDR grafted antibody or antigen-binding portion thereof.
  • the conjugate prepared according to any methods described above can then be purified.
  • the conjugates of the present invention can be purified using tangential flow filtration (TFF), non-adsorptive chromatography, adsorptive chromatography, adsorptive filtration, selective precipitation, high performance liquid chromatography (HPLC), dialysis or any other suitable purification process, as well as combinations thereof.
  • TMF tangential flow filtration
  • HPLC high performance liquid chromatography
  • TFF systems Any suitable TFF systems may be utilized for purification, including a Pellicon type system (Millipore, Billerica, MA), a Sartocon Cassette system (Sartorius AG, Edgewood, NY), and a Centrasette type system (Pall Corp., East Hills, NY).
  • Pellicon type system Millipore, Billerica, MA
  • Sartocon Cassette system Sartorius AG, Edgewood, NY
  • Centrasette type system Pall Corp., East Hills, NY.
  • Any suitable adsorptive chromatography resin may be utilized for purification.
  • Preferred adsorptive chromatography resins include hydroxyapatite chromatography, hydrophobic charge induction chromatography (HCIC), hydrophobic interaction
  • hydroxyapatite resins include ceramic hydroxyapatite (CHT Type I and Type II, Bio-Rad Laboratories, Hercules, CA), HA Ultrogel hydroxyapatite (Pall Corp., East Hills, NY), and ceramic fluoroapatite (CFT Type I and Type II, Bio-Rad
  • HCIC resin An example of a suitable HCIC resin is MEP Hypercel resin (Pall Corp., East Hills, NY).
  • suitable HIC resins include Butyl-Sepharose, Hexyl-Sepaharose, Phenyl-Sepharose, and Octyl Sepharose resins (all from GE Healthcare, Piscataway, NJ), as well as Macro-prep Methyl and Macro-Prep t-Butyl resins (Biorad Laboratories, Hercules, CA).
  • Suitable ion exchange resins include SP- Sepharose, CM-Sepharose, and Q-Sepharose resins (all from GE Healthcare, Piscataway, NJ), and Unosphere S resin (Bio-Rad Laboratories, Hercules, CA).
  • suitable mixed mode ion exchangers include Bakerbond ABx resin (JT Baker, Phillipsburg NJ).
  • IMAC resins examples include Chelating Sepharose resin (GE Healthcare, Piscataway, NJ) and Profinity IMAC resin (Bio-Rad Laboratories, Hercules, CA).
  • suitable dye ligand resins include Blue Sepharose resin (GE Healthcare, Piscataway, NJ) and Affi-gel Blue resin (Bio-Rad Laboratories, Hercules, CA).
  • suitable affinity resins include Protein A Sepharose resin ⁇ e.g., MabSelect, GE Healthcare, Piscataway, NJ), His-Tag metal affinity resins, anti-FLAG affinity resins, and lectin affinity resins, e.g.
  • Lentil Lectin Sepharose resin (GE Healthcare, Piscataway, NJ), where the antibody bears appropriate lectin binding sites.
  • suitable reversed phase resins include C4, C8, and C18 resins (Grace Vydac, Hesperia, CA).
  • any suitable non-adsorptive chromatography resin may be utilized for purification.
  • size-exclusion chromatography can be used for purifying the conjugates of the invention.
  • suitable non-adsorptive chromatography resins include, but are not limited to, SEPHADEXTM G- 10, G-25, G-50, G- 100, SEPHACRYLTM resins (e.g., S-200 and S-300), SUPERDEXTM resins (e.g. , SUPERDEXTM 75 and SUPERDEXTM 200), BIO-GEL® resins (e.g. , P-6, P-10, P-30, P-60, and P- 100), and others known to those of ordinary skill in the art.
  • the conjugate when the cell-binding agent is an epitope-tagged Avibody, the conjugate can be purified using hydroxyl apatite chromatography, size-exclusion
  • affinity chromatography preferably affinity chromatography, more preferably His-tag metal affinity chromatography and anti-FLAG M2 affinity chromatography (see, for example,
  • the conjugate when the cell-binding agent is a centyrin, can be purified using protein A purification, ammonium sulfate or ethanol precipitation, acid extraction, anion or cation exchange chromatography, phosphocellulose chromatography, hydrophobic interaction chromatography, size-exclusion chromatography, tangential flow filtration, affinity chromatography, hydroxylapatite chromatography and lectin
  • the conjugate can be purified using HPLC.
  • the conjugate can be purified by using affinity chromatography, more preferably His-tag metal affinity chromatography. See, for example, US Patent Publication Nos. US 2010/0255056, US 2010/0216708 and US 2011/0274623.
  • the conjugate when the cell-binding agent is a DARPin, can be purified by affinity chromatography, size exclusion chromatography, hydroxylapatite chromatography, tangential flow filtration, preferably affinity chromatography, more preferably His-Tag affinity chromatography. See, for example, U.S. Patent Publication Nos. 20040132028, 2009/0082274, 2011/0118146, and 2011/0224100, WO 02/20565 and WO 06/083275. IN VITRO EVALUATION OF CYTOTOXICITY
  • the cytotoxic compounds and cell-binding agent-drug conjugates of the invention can be evaluated for their ability to suppress proliferation of various cancer cell lines in vitro.
  • Cells to be evaluated can be exposed to the compounds or conjugates for 1-5 days and the surviving fractions of cells measured in direct assays by known methods. IC 50 values can then be calculated from the results of the assays.
  • an in vitro cell line sensitivity screen such as the one described by the U.S. National Cancer Institute (see Voskoglou-Nomikos et al., 2003, Clinical Cancer Res. 9: 42227-4239, incorporated herein by reference) can be used as one of the guides to determine the types of cancers that may be sensitive to treatment with the compounds or conjugates of the invention.
  • the present invention includes a composition (e.g. , a pharmaceutical composition) comprising novel benzodiazepine compounds described herein (e.g., indolinobenzodiazepine or oxazolidinobenzodiazepine), derivatives thereof, or conjugates thereof, (and/or solvates, hydrates and/or salts thereof) and a carrier (a pharmaceutically acceptable carrier).
  • a composition e.g., a pharmaceutical composition
  • novel benzodiazepine compounds described herein e.g., indolinobenzodiazepine or oxazolidinobenzodiazepine
  • derivatives thereof or conjugates thereof
  • carrier a pharmaceutically acceptable carrier
  • compositions are useful for inhibiting abnormal cell growth or treating a proliferative disorder in a mammal (e.g. , human).
  • the present compositions are also useful for treating depression, anxiety, stress, phobias, panic, dysphoria, psychiatric disorders, pain, and inflammatory diseases in a mammal (e.g. , human).
  • the present invention includes a method of inhibiting abnormal cell growth or treating a proliferative disorder in a mammal (e.g. , human) comprising administering to said mammal a therapeutically effective amount of novel benzodiazepine compounds described herein (e.g., indolinobenzodiazepine or oxazolidinobenzodiazepine), derivatives thereof, or conjugates thereof, (and/or solvates and salts thereof) or a composition thereof, alone or in combination with a second therapeutic agent.
  • a mammal e.g., human
  • the proliferative disorder is cancer.
  • Cancer can include a hematological cancer or a solid tumor. More specifically, the cancer is leukemia (e.g. , acute myeloid leukemia (AML), acute monocytic leukemia, promyelocytic leukemia, eosinophilic leukemia, acute lymphoblastic leukemia (ALL) such as acute B lymphoblastic leukemia (B- ALL), chronic myelogenous leukemia (CML), chronic lymphocytic leukemia (CLL)) or lymphoma (e.g., non-Hodgkin lymphoma), myelodysplasia syndrome (MDS)juri melanoma, lung cancer (e.g., non-small cell lung cancer (NSCLC)), ovarian cancer, endometrial cancer, peritoneal cancer, pancreatic cancer, breast cancer, prostate cancer, squamous cell carcinoma of the head and neck, and cervical cancer.
  • AML acute myeloid le
  • the present invention also provides methods of treatment comprising administering to a subject in need of treatment an effective amount of any of the conjugates described above.
  • the present invention provides a method for inducing cell death in selected cell populations comprising contacting target cells or tissue containing target cells with an effective amount of a cytotoxic agent comprising any of the cytotoxic compound-cell-binding agents (e.g., indolinobenzodiazepine or oxazolidinobenzodiazepine dimer linked to a cell binding agent) of the present invention, a salt or solvate thereof.
  • the target cells are cells to which the cell-binding agent can bind.
  • Suitable pharmaceutically acceptable carriers, diluents, and excipients are well known and can be determined by those of ordinary skill in the art as the clinical situation warrants.
  • suitable carriers, diluents and/or excipients include: (1) Dulbecco's phosphate buffered saline, pH about 7.4, containing or not containing about 1 mg/mL to 25 mg/mL human serum albumin, (2) 0.9% saline (0.9% w/v NaCl), and (3) 5% (w/v) dextrose; and may also contain an antioxidant such as tryptamine and a stabilizing agent such as Tween 20.
  • the method for inducing cell death in selected cell populations can be practiced in vitro, in vivo, or ex vivo.
  • Examples of in vitro uses include treatments of autologous bone marrow prior to their transplant into the same patient in order to kill diseased or malignant cells; treatments of bone marrow prior to their transplantation in order to kill competent T cells and prevent graft- versus-host-disease (GVHD); treatments of cell cultures in order to kill all cells except for desired variants that do not express the target antigen; or to kill variants that express undesired antigen.
  • GVHD graft- versus-host-disease
  • the conditions of non-clinical in vitro use are readily determined by one of ordinary skill in the art.
  • Examples of clinical ex vivo use are to remove tumor cells or lymphoid cells from bone marrow prior to autologous transplantation in cancer treatment or in treatment of autoimmune disease, or to remove T cells and other lymphoid cells from autologous or allogenic bone marrow or tissue prior to transplant in order to prevent GVHD.
  • Treatment can be carried out as follows. Bone marrow is harvested from the patient or other individual and then incubated in medium containing serum to which is added the cytotoxic agent of the invention, concentrations range from about 10 ⁇ to 1 pM, for about 30 minutes to about 48 hours at about 37°C. The exact conditions of concentration and time of incubation, i.e., the dose, are readily determined by one of ordinary skill in the art.
  • the bone marrow cells After incubation the bone marrow cells are washed with medium containing serum and returned to the patient intravenously according to known methods. In circumstances where the patient receives other treatment such as a course of ablative chemotherapy or total-body irradiation between the time of harvest of the marrow and reinfusion of the treated cells, the treated marrow cells are stored frozen in liquid nitrogen using standard medical equipment.
  • the cytotoxic agent of the invention will be supplied as a solution or a lyophilized powder that are tested for sterility and for endotoxin levels.
  • conjugate administration examples are as follows. Conjugates are given weekly for 4 weeks as an intravenous bolus each week. Bolus doses are given in 50 to 1000 mL of normal saline to which 5 to 10 mL of human serum albumin can be added.
  • Dosages will be 10 ⁇ g to 2000 mg per administration, intravenously (range of 100 ng to 20 mg/kg per day). After four weeks of treatment, the patient can continue to receive treatment on a weekly basis. Specific clinical protocols with regard to route of administration, excipients, diluents, dosages, times, etc., can be determined by one of ordinary skill in the art as the clinical situation warrants.
  • Examples of medical conditions that can be treated according to the in vivo or ex vivo methods of inducing cell death in selected cell populations include malignancy of any type including, for example, cancer; autoimmune diseases, such as systemic lupus, rheumatoid arthritis, and multiple sclerosis; graft rejections, such as renal transplant rejection, liver transplant rejection, lung transplant rejection, cardiac transplant rejection, and bone marrow transplant rejection; graft versus host disease; viral infections, such as CMV infection, HIV infection, AIDS, etc.; and parasite infections, such as giardiasis, amoebiasis, schistosomiasis, and others as determined by one of ordinary skill in the art.
  • malignancy of any type including, for example, cancer; autoimmune diseases, such as systemic lupus, rheumatoid arthritis, and multiple sclerosis; graft rejections, such as renal transplant rejection, liver transplant rejection, lung transplant rejection, cardiac transplant rejection, and bone marrow transplant rejection;
  • PDR Physician's Desk Reference
  • the PDR discloses dosages of the agents that have been used in treatment of various cancers.
  • the dosing regimen and dosages of these aforementioned chemotherapeutic drugs that are therapeutically effective will depend on the particular cancer being treated, the extent of the disease and other factors familiar to the physician of skill in the art and can be determined by the physician.
  • the contents of the PDR are expressly incorporated herein in its entirety by reference.
  • One of skill in the art can review the PDR, using one or more of the following parameters, to determine dosing regimen and dosages of the chemotherapeutic agents and conjugates that can be used in accordance with the teachings of this invention. These parameters include:
  • cytotoxic agents [370]
  • each of the cytotoxic agents described herein can be modified in such a manner that the resulting compound still retains the specificity and/or activity of the starting compound.
  • the skilled artisan will also understand that many of these compounds can be used in place of the cytotoxic agents described herein.
  • the cytotoxic agents of the present invention include analogues and derivatives of the compounds described herein.
  • This N-terminal Ser is the result of signal peptidase utilizing an usual cleavage site in the signal peptide of the IGKV 1-99*01 murine germline sequence (accession number CAB46122; SEQ ID NO: 2) from which the FR1-2.1 light chain is derived. Unlike typical antibody signal peptides that are completely removed upon cleavage during antibody expression, the final serine of the IGKV 1-99* signal peptide (Kabat position -1) remains at the N terminus of the FR1-2.1 light chain.
  • the FR1-2.1 antibody proved to be a useful tool for evaluating the serine oxidation modification methods described herein, and, in addition, the FR1-2.1 signal peptide (Table 1; SEQ ID NO: 1) provides a possible mechanism for generating recombinant antibodies with serines at their light or heavy chain N termini.
  • the use of a native antibody signal peptide to incorporate the N-terminal serine allows for the avoidance of potential negative consequences of antibody engineering, including but not limited to expression problems and cleavage site heterogeneity that could come from non-natural constructs.
  • the light chain sequence was then provided to Blue Heron Biotechnology where it was codon-optimized, synthesized, and cloned into the EcoRI and BsiWI sites of the pAbKZeo mammalian expression plasmid containing the human Kappa constant region sequence.
  • the heavy chain sequence was then codon- optimized, synthesized, and cloned by Blue Heron Biotechnology in frame with the human IgGl constant region at the Hindlll and Apal sites of the pAbGlNeo plasmid.
  • Various combinations of the N-terminal serine addition and N-terminal serine replacement schemes described above are used to generate additional recombinant antibodies with up to 4 N-terminal serines (e.g. , 2 on the heavy chains and 2 on the light chains).
  • recombinant antibodies with serines at both N-termini for a total of 4 N-terminal serines per antibody e.g. , huMovl9LC NTS 3 with huMovl9HC NTS4.
  • These constructs are limited to either 2 (single chain N terminal serines) or 4 (both chains with N terminal serines) incorporation sites but with heterodimeric antibody technologies, such as "Knob in the Hole" mutations (WO 2005/063816 A2, incorporated by reference). Construction of antibodies with either 1 or 3 N terminal serines is also possible.
  • recombinant antibodies can be generated with threonine residues at their N-termini by simply replacing the N terminal residue (Kabat position +1) with a threonine in order to conjugate these antibodies by the methods described herein.
  • the humanized Movl9 light chain (LC) N terminal aspartate is replaced with threonine (huMovl9 LC NTTl, SEQ ID NO: 15) or the humanized Movl9 heavy chain (HC) N-terminal glutamine is replaced with a threonine (huMovl9 HC NTT2, SEQ ID NO: 16).
  • SEQ ID NO: 6 is used as a signal peptide for its natural huMovl9 LC and HC, or as a signal peptide for a heterologous LC or HC, with the modification that a Ser or Thr residue is inserted
  • the chimeric and humanized antibody constructs were transiently produced in suspension-adapted HEK-293T cells, using a modified PEI procedure (Durocher Y, Perret S, & Kamen A High-level and high-throughput recombinant protein production by transient transfection of suspension-growing human 293-EBNA1 cells. Nucleic Acids Res. 2002 Jan 15;30(2):E9) in shake flasks.
  • the PEI transient transfections were performed as previously described (Durocher, supra), except that the HEK-293T cells were grown in Freestyle 293 (Invitrogen), and the culture volume was left undiluted after the addition of the PEI-DNA complexes. Both the adherent and suspension transient transfections were incubated for a week, and then the cleared supernatant was purified by a Protein A column followed by a CM column ion exchange chromatography as described below.
  • Antibodies were purified from cleared cell culture supernatants using standard methods, such as, for example, Protein A or G chromatography (HiTrap Protein A or G HP, 1 mL, Amersham Biosciences). Briefly, supernatant was prepared for chromatography by the addition of 1/10 volume of 1 M Tris/HCl buffer, pH 8.0. The pH-adjusted supernatant was filtered through a 0.22 ⁇ filter membrane and loaded onto column equilibrated with binding buffer (PBS, pH 7.3). The column was washed with binding buffer until a stable baseline was obtained with no absorbance at 280 nm.
  • binding buffer PBS, pH 7.3
  • Antibody was eluted with 0.1 M acetic acid buffer containing 0.15 M NaCl, pH 2.8, using a flow rate of 0.5 mL/min. Fractions of approximately 0.25 mL were collected and neutralized by the addition of 1/10 volume of 1M Tris/HCl, pH 8.0. The peak fraction(s) was dialyzed overnight twice against lx PBS, and sterilized by filtering through a 0.2 ⁇ filter membrane. Purified antibody was quantified by absorbance at A280. [381] Protein A purified fractions were further purified using ion exchange chromatography (IEX) with carboxymethyl (CM) chromatography.
  • IEX ion exchange chromatography
  • CM carboxymethyl
  • samples from protein A purification were buffer exchanged into the start buffer (10 mM potassium phosphate, 10 mM sodium chloride, pH 7.5) and filtered through 0.22 ⁇ filer.
  • the prepared sample was then loaded onto a CM fast flow resin (GE Lifesciences) that was equilibrated with the start buffer at a flow rate of 120 cm/hr. Column size was chosen to have sufficient capacity to bind all the antibody in the sample.
  • the column was then washed with binding buffer until a stable baseline was obtained with no absorbance at 280 nm.
  • Antibody was eluted by initiating a gradient from 10 mM to 500 mM sodium chloride in 20 column volume (CV). Fractions with the UV reading above 50 mAu of the major peak were collected.
  • the purity (the percentage of monomer and soluble high molecular weight aggregates) was assessed with size exclusion chromatography (SEC) on a TSK gel G3000SWXL, 7.8 x 300 mm with a SWXL guard column, 6.0 x 40 mm (Tosoh Bioscience, Montgomeryville, PA) using an Agilent HPLC 1100 system (Agilent, Santa Clara, CA). Fractions with desired purity (>95%) were pooled, buffer exchanged to PBS (pH 7.4) using TFF system, and sterilized by filtering through a 0.2 ⁇ filter membrane. Purified antibody was further tested for its purity by SEC and the IgG concentration was determined by absorbance measurement at 280 nm using an extinction coefficient of 1.47.
  • SEC size exclusion chromatography
  • CHT ceramic hydroxyapatite
  • Type II CHT resin with 40 ⁇ particle size Bio-Rad Laboratories
  • the start buffer for CHT was 20 mM sodium phosphate, pH 7.0 and antibody was eluted with a gradient of 20-160 mM sodium phosphate over 20 CV.
  • huMOV19-NTS#2 antibody engineered with an N-terminal serine on the heavy chain [1], in Scheme 1 as shown in Figure 1; 3mg/mL in PBS, pH7.4) was treated with 5 mM aqueous sodium periodate (50 equivalents, 25°C, 30 minutes). The mixture was then buffer exchanged through a NAP desalting column (Illustra Sephadex G-25 DNA Grade, GE Healthcare) into sodium acetate buffer, pH5.0.
  • the mixture was then buffer exchanged through a NAP desalting column (Illustra Sephadex G-25 DNA Grade, GE Healthcare) into 250 mM Glycine, 10 mM Histidine, 1% sucrose buffer at pH 6.2. Dialysis was performed in the same buffer for 4 hours at 25°C, utilizing Slide-a-Lyzer dialysis cassettes (ThermoScientific 10,000 MWCO).
  • huMovl9-NTS#l antibody engineered with an N-terminal serine on the light chain through a leader peptide sequence [1] in Scheme 3, Figure 5; 3mg/mL in PBS, pH7.4) was treated with 5 mM aqueous sodium periodate (50 molar equivalents) at 25°C for 30 minutes. The mixture was then buffer exchanged through a NAP desalting column (Illustra Sephadex G-25 DNA Grade, GE Healthcare) into sodium acetate buffer, pH5.0.
  • ADC or control antibody e.g. , unconjugated native huMOV19, or M9346A
  • FACS buffer 1% BSA, lx
  • the human breast cancer cell line T47D cells were grown in RPMI- 1640 (Life Technologies) supplemented with heat-inactivated 10% FBS (Life Technologies), 0.1 mg/mL gentamycin (Life Technologies).
  • T47D cells were then resuspended in growth media (see above) to neutralize trypsin, and were counted on a Coulter counter. Cells were then washed twice in cold FACS buffer, centrifuging in between washes at 1200 rpm for 5 min.
  • KB cells bovine epithelial tumor
  • EMEM EMEM
  • FBS heat-inactivated 10% FBS
  • gentamycin 0.1 mg/ml gentamycin

Abstract

The invention relates to novel cell-binding agent-cytotoxic agent conjugates, wherein the cell-binding agent (CBA) is covalently linked to the cytotoxic agent through an aldehyde group obtained from oxidation of a 2-hydroxyethylamine moiety on the CBA. The invention also provides methods of preparing the conjugates of the present invention. The invention further provides composition and methods useful for inhibiting abnormal cell growth or treating a proliferative disorder in a mammal using the conjugates of the invention.

Description

CONJUGATES COMPRISING CELL-BINDING AGENTS AND CYTOTOXIC
AGENTS
REFERENCE TO RELATED APPLICATIONS
[01] This application claims the benefit of the filing date under 35 U.S.C. § 119(e), of U.S. Provisional Application No. 62/045,264, filed on September 3, 2014, U.S. Provisional Application No. 62/086,986, filed on December 3, 2014, U.S. Provisional Application No. 62/149,379, filed on April 17, 2015, and U.S. Provisional Application No. 62/186,235, filed on June 29, 2015, the entire contents of each of which, including all drawings, formulae, specifications, and claims, are incorporated herein by reference.
BACKGROUND OF THE INVENTION
[02] Antibody-drug conjugates (ADC) and cell binding agent-drug conjugates are emerging as a powerful class of anti-tumor agents with efficacy across a range of cancers. Cell binding agent-drug conjugates (such as ADCs) are commonly composed of three distinct elements: a cell-binding agent (e.g. , an antibody); a linker; and a cytotoxic moiety.
Conventionally, the cytotoxic drug moiety is covalently attached to lysines on the antibody, resulting in conjugates that are heterogeneous mixtures of ADCs bearing varying numbers of drugs attached at different positions on the antibody molecule.
SUMMARY OF THE INVENTION
[03] It is surprisingly found that the 2-hydroxyethylamine moiety of a N-terminal serine residue on a cell binding agent, such as an antibody, can be selectively oxidized to an aldehyde group without over-oxidation of the antibody. The resulting antibody having an aldehyde group allows site- specific conjugation with a cytotoxic drug having an aldehyde reactive group or through a linker compound having an aldehyde reactive group. The resulting antibody-drug conjugates surprisingly retain antigen binding affinity similar to the unconjugated antibody, despite the fact that the conjugation site is located at the N-terminus of the antibody. In addition, the resulting conjugates unexpectedly exhibit high potency despite having a drug load of only two molecules linked per antibody and are better tolerated as compared to lysine-linked conjugates.
[04] In certain embodiments, the cell binding agent, such as an antibody, is covalently linked to a cytotoxic agent through an oxime linkage (-C=N-O-). Surprisingly, in contrast to recent published findings (see Agarwal et ah, Proc. Natl. Acad. Sci. USA 110:46-51, 2013), the oxime linkage is highly stable in vivo.
[05] The present invention provides a cell-binding agent-cytotoxic agent conjugate represented by the following structural formula:
Figure imgf000003_0001
or a pharmaceutically acceptable salt thereof, wherein:
CBA is a cell-binding agent covalently linked to the JCB' group;
JCB' is a moiety formed by reacting an aldehyde group on the CBA and an aldehyde reactive group connected to the group L, wherein the aldehyde group is derived from oxidation of a 2-hydroxyethylamine moiety represented by the following structural formula:
Figure imgf000003_0002
wherein the 2-hydroxyethylamine moiety being part of a serine, threonine, hydroxylysine, 4-hydroxyornithine or 2,4-diamino-5-hydroxy valeric acid residue;
L is a spacer or a bond;
JD' is a linking moiety connecting the cytotoxic agent D with the group L or absent when L is a bond;
D is a cytotoxic agent covalently linked to L through the linking moiety Jo'or to CBA through JCB' when L is a bond; and
w is 1, 2, 3 or 4.
[06] The present invention also provides a recombinant antibody heavy chain (HC), light chain (LC), or an antigen-binding portion thereof, comprising a heterologous signal peptide having an amino acid sequence of SEQ ID NO: 1.
[07] The present invention further provides a recombinant antibody heavy chain (HC), light chain (LC), or an antigen-binding portion thereof, comprising a Ser or Thr residue immediately C-terminal to the last residue of the signal peptide of the heavy chain (HC), light chain (LC), or antigen-binding portion thereof. [08] Also provided is a modified antibody oxidized from an antibody having an N-terminal Ser or Thr on a mature processed sequence of the heavy chain, light chain, or antigen-binding portion thereof, wherein the N-terminal Ser or Thr has been oxidized to an aldehyde group in the modified antibody.
[09] The present invention also includes a polynucleotide encoding the recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof described herein and a method of producing a recombinant antibody heavy chain (HC), light chain (LC), or an antigen-binding portion thereof described herein.
[10] In one embodiment, the present invention is directed to a method of preparing a cell- binding agent-cytotoxic agent conjugate, comprising the steps of:
(a) oxidizing a 2-hydroxyethylamine moiety of a cell-binding agent with an oxidizing agent to form an oxidized cell-binding agent having an aldehyde group; wherein the 2- hydroxyethylamine moiety is part of a serine, threonine, hydroxylysine, 4-hydroxyornithine or 2,4-diamino-5-hydroxy valeric acid residue, and is represented by the following structural formula:
Figure imgf000004_0001
(b) contacting the oxidized cell-binding agent with:
(i) a cytotoxic agent-linker compound having an aldehyde reactive group or a cytotoxic agent having an aldehyde reactive group to form the cell-binding agent- cytotoxic agent conjugate; or
(ii) a linker compound having an aldehyde reactive group to form a modified antibody or a modified antigen-binding portion thereof having a linker bound thereto, followed by reacting the modified antibody or the modified antigen-binding portion thereof with a cytotoxic agent to form the cell-binding agent-cytotoxic agent conjugate; or
(iii) a cytotoxic agent followed by the addition of a linker compound having an aldehyde reactive group and a reactive group that can form a covalent bond with the cytotoxic agent to form the cell-binding agent-cytotoxic agent conjugate. [11] In one embodiment, the present invention is directed to a cytotoxic compound represented b the following fonnula:
Figure imgf000005_0001
or a pharmaceutically acceptable salt thereof, wherein: one of LD', LD", and LD' " is represented by the following formula:
— NR5-P-C(=0)-(CRaRb)r-Zdl-(CRaRb)r^JCB (A>) and the other two are the same or different, and are independently selected from -H, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, a polyethylene glycol unit -(OCH2CH2)n-Rc, halogen, guanidinium [- NH(C=NH)NH2], -OR, -NR'R", -N02, -NR'COR", -SR, -SOR', -S02R', -S03H, -OS03H, -S02NR'R", cyano, an azido, -COR', -OCOR', and -OCONR'R" ;
Zdi is absent, -C(=0)-NR9- or -NR9-C(=0)-;
P is an amino acid residue or a peptide containing between 2 to 20 amino acid residues;
Ra and Rb, for each occurrence, are independently -H, (Ci-C3)alkyl or a charged substituent or an ionizable group Q;
r and r' are independently an integer from 1 to 6;
the double line— between N and C represents a single bond or a double bond, provided that when it is a double bond X is absent and Y is -H, or a linear or branched alkyl having 1 to 4 carbon atoms, and when it is a single bond, X is -H or an amine protecting moiety;
Y is a leaving group selected from -OR, -OCOR', -OCOOR', -OCONR'R", -NR'R", -NR'COR", -NR'NR'R", an optionally substituted 5- or 6-membered nitrogen-containing heterocycle (e.g., piperidine, tetrahydropyrrole, pyrazole, morpholine, etc. attached through the nitrogen atom), a guanidinum represented by -NR'(C=NH)NR'R", an amino acid, or a peptide represented by -NRCOP', -SR, -SOR', halogen, cyano, azido, -OS03H, sulfite (- S03H or -SO2H), metabisulfite (H2S2O5), mono-, di-, tri-, and tetra- thiophosphate (P03SH3, PO2S2H2, POS3H2, PS4H2), thio phosphate ester (R'O^SCOR1), R;S-, R;SO, ^02, R'SOa, thiosulfate (HS203), dithionite (HS204), phosphorodithioate (P(=S)(ORk')(S)(OH)), hydroxamic acid (Rk C(=0)NOH), and formaldehyde sulfoxylate (HOCH2SO2 ) or a mixture thereof, wherein R1 is a linear or branched alkyl having 1 to 10 carbon atoms and is substituted with at least one substituent selected from -N(Rj)2, -C02H, -S03H, and -P03H; R1 can be further optionally substituted with a substituent for an alkyl described herein; RJ is a linear or branched alkyl having 1 to 6 carbon atoms; Rk is a linear, branched or cyclic alkyl, alkenyl or alkynyl having 1 to 10 carbon atoms, aryl, heterocyclyl or heteroaryl; P' is an amino acid residue or a polypeptide containing between 2 to 20 amino acid residue,
R, for each occurrence, is independently selected from the group consisting of -H, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, a polyethylene glycol unit -(CH2CH20)n-Rc, an optionally substituted aryl having 6 to 18 carbon atoms, an optionally substituted 5- to 18-membered heteroaryl ring containing one or more heteroatoms independently selected from nitrogen, oxygen, and sulfur, or an optionally substituted 3- to 18-membered heterocyclic ring containing 1 to 6 heteroatoms independently selected from O, S, N and P;
R' and R" are each independently selected from -H, -OH, -OR, -NHR, -NR2, -COR, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, a polyethylene glycol unit -(CH2CH20)n-Rc, and an optionally substituted 3- to 18-membered heterocyclic ring having 1 to 6 heteroatoms independently selected from O, S, N and P;
Rc is -H or an optionally substituted linear or branched alkyl having 1 to 4 carbon atoms;
n is an integer from 1 to 24;
X' is selected from -H, an amine-protecting group, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, a polyethylene glycol unit -(CH2CH20)n-Rc, an optionally substituted aryl having 6 to 18 carbon atoms, an optionally substituted 5- to 18-membered heteroaryl ring containing one or more heteroatoms independently selected from nitrogen, oxygen, and sulfur, and an optionally substituted 3- to 18-membered heterocyclic ring containing 1 to 6 heteroatoms independently selected from O, S, N and P;
Y' is selected from -H, an oxo group, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, an optionally substituted 6- to 18-membered aryl, an optionally substituted 5- to 18-membered heteroaryl ring containing one or more heteroatoms independently selected from nitrogen, oxygen, and sulfur, an optionally substituted 3- to 18-membered heterocyclic ring having 1 to 6 heteroatoms;
Ri, R2, R3, R4, Ri', R2', R3' and R4' are each independently selected from the group consisting of -H, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, a polyethylene glycol unit -(OCH2CH2)n-Rc, halogen, guanidinium [-NH(C=NH)NH2] , -OR, -NR'R", -N02, -NCO, -NR'COR", -SR, -SOR', - S02R' , -SO3 H, -OSO3H, -S02NR'R", cyano, an azido, -COR' , -OCOR' , and - OCONR'R" ;
R6 is -H, -R, -OR, -SR, -NR'R" , -N02, or halogen;
A and A' are the same or different, and are independently selected from -0-, oxo (-C(=0)-), -CRR'O-, -CRR'-, -S-, -CRR'S-, -NR5 and -CRR'N(R5)-;
R5 and R9 are each independently -H or an optionally substituted linear or branched alkyl having 1 to 10 carbon atoms;
JCB is an aldehyde reactive group.
[12] Also included in the present invention is a pharmaceutical composition comprising a conjugate of formula (I) or a cytotoxic compound of formulas (D18')-(D23') or a
pharmaceutically acceptable salt thereof and a pharmaceutically acceptable carrier.
[13] The pharmaceutical composition can further include a second therapeutic (e.g. , chemotherapeutic) agent.
[14] The present invention also includes a method of inhibiting abnormal cell growth or treating a proliferative disorder, a destructive bone disorder, an autoimmune disorder, a graft versus host disease, a transplant rejection, an immune deficiency, an inflammatory diseases, an infectious disease, a viral disease, a fibrotic disease, a neurodegenerative disorder, pancreatitis, or a kidney disease in a mammal (e.g. , human), comprising administering to said mammal a therapeutically effective amount of a conjugate formula (I) or, a cytotoxic compound represented of formulas (D18')-(D23') or a pharmaceutically acceptable salt thereof.
[15] In a related embodiment, the method described above further comprises administering to said mammal sequentially or consecutively a second therapeutic (e.g., chemotherapeutic) agent.
BRIEF DESCRIPTION OF THE DRAWINGS
[16] Figure 1 shows Scheme 1 for synthesizing the huMOV19-NTS#2-Linkerl -Compound A ADC using engineered N-terminal Ser-containing humanized monoclonal antibody huMOV19-NTS#2.
[17] Figure 2 is Q-ToF Mass Spectrometry (MS) data of intact huMOV19-NTS#2- Linkerl -Compound A. It is apparent that the reaction product is a homogeneous ADC with two incorporated Compound A molecules per antibody. [18] Figure 3 shows Scheme 2 for synthesizing the huMOV19-NTS#2-aminooxy-acetyl- MayNMA ADC using engineered N-terminal Ser-containing humanized monoclonal antibody huMOV19-NTS#2.
[19] Figure 4 is Q-ToF Mass Spectrometry (MS) data of intact huMOV19-NTS#2- aminooxy-acetyl-MayNMA. It is apparent that the reaction product is a homogeneous ADC with two incorporated MayNMA molecules per antibody.
[20] Figure 5 shows Scheme 3 for synthesizing the Antibody (such as huMOV19-NTS#l)- Linkerl -Compound A ADC using engineered N-terminal Ser-containing humanized monoclonal antibody (e.g. , huMOV19-NTS#l).
[21] Figure 6 shows Q-ToF Mass Spectrometry (MS) data of intact huMOV19-NTS#l- Linkerl -Compound A.
[22] Figure 7A demonstrates that N-terminal Ser-specific conjugation does not noticeably affect antibody binding to antigen. huMOV19-NTS#2-MayNMA (or SeriMab-May) and huMOV19-NTS#2-Compound A (or SeriMab-sDGN462) are both ADCs comprising the humanized IgG monoclonal antibody huMOV19, linked through an engineered N-terminal Ser residue to Maytansinoid and cytotoxic Compound A (or sulfonated DGN462
(sDGN462)), respectively. Binding between T47D (i.e. , the FRa antigen on the surface) and the ADCs (or the control antibody or the FACS buffer control) was measured by FACS detection of FITC-conjugated Goat Anti-Human-IgG-Fcy secondary antibody bound to any ADC (or control Ab) on T47D surface.
[23] Figure 7B shows FACS binding data for huMOV19-NTS#2-Linkerl-Comopund A to T47D cells expressing the FRa- antigen. Both lysine-loaded huMOV19-sSPDB-Compound A and N-terminal modified huMOV19-NTS#2-Linkerl -Compound A have comparable cell binding, which is also similar to that of unconjugated native huMOV19 and engineered huMOV19-NTS#2 (see EC50 values in the table).
[24] Figure 8A shows that N-terminal Ser-specific modification or conjugation does not noticeably affect antibody binding to antigen. As shown in Figures 7A and 7B above, wildtype anti-FRa antibody huMOV19, its N-terminal Ser modified version huMOV19- NTS#2 ("SeriMab"), and their respective conjugates to maytansinoid - Ab-SMCC-DMl (wildtype huMOV19 linked through Lys residues to DM1 via SMCC linkers) and SeriMab- May (huMOV19-NTS#2 linked through the engineered N-terminal Ser to maytansinoid) - all have essentially the same binding affinity to the FRa-bearing T47D cells, as measured by FACS. [25] Figure 8B shows that N-terminal Ser-specific modification or conjugation does not noticeably affect antibody binding to antigen. As shown in Figures 7A and 7B above, wildtype anti-FRa antibody huMOV19, its N-terminal Ser modified version huMOV19- NTS#2 ("SeriMab") and its conjugate to the cytotoxic Compound A (SeriMab-sDGN462) all have essentially the same binding affinity to the FRa-bearing T47D cells, as measured by FACS.
[26] Figure 9 A shows the result of cytotoxic evaluation of the ADC conjugate MOV 19- NTS#2-Linkerl -Compound A on the KB cervical cancer cell line. The data shows that the subject site-specific N-terminal Ser linked SERIMab-Compound A conjugate is about 3-fold more potent than the lysine-conjugated sSPDB-Compound A on the basis of antibody concentration, and about 5-fold more potent based on Compound A concentration. Both conjugates have identical antigen-independent activity, since potency for the two tested conjugates, in the presence of 1 μΜ unconjugated huMOV19 to block antigen binding sites on the KB cells, are nearly identical.
[27] Figure 9B shows the result of cytotoxic evaluation of the ADC conjugate SeriMab- May on KB cervical cancer cell line. The data shows that SeriMab-May conjugate has the same potency as the lysine-conjugate Ab-SMCC-DMl with higher DAR (cytotoxic compound to antibody ratio).
[28] Figures 10 and 11 show exemplary cytotoxic compounds that can be used in preparing the conjugates of the present invention.
[29] Figures 12A-12D show exemplary schemes for preparing the conjugates of the present invention.
[30] Figure 13 shows the in vivo efficacy for huMOV19-NTS#2-Linkerl -Compound A conjugate in NCTH2110 bearing SCID mice.
[31] Figure 14A shows the structure of SeriMab- sDGN462 conjugate with a disulfide linker. Dotted lines indicate the location of cleavage sites which lead to the observed target cell catabolites. Figure 14B shows scheme for incubation, purification, and isolation of catabolites from SeriMab-sDGN462 conjugate formed in KB cervical cancer cells in vitro. The four catabolites identified by LC-MS are shown along with the calculated and observed m/z ratios.
[32] Figure 15A shows the structure of SeriMab-May conjugate with a non-cleavable linker. Dotted lines indicate the location of cleavage sites which lead to the observed target cell catabolites. Figure 15B shows scheme for incubation, purification, and isolation of catabolites from SeriMab-May conjugate formed in KB cervical cancer cells in vitro. The two catabolites identified by LC-MS are shown along with the calculated and observed m/z ratios.
[33] Figure 16 shows the results of bystander killing assay for SeriMab-sDGN462 and the corresponding Lys-linked conjugated Ab-sSPDB-sDGN462.
[34] Figure 17 shows an exemplary scheme for synthesizing the huCD123-sD8 conjugate using engineered N-terminal Ser-containing humanized monoclonal antibody.
[35] Figure 18 shows an exemplary scheme for synthesizing the huCD123-6-SeriMab-sDl conjugate bearing a Linker 1 residue.
[36] Figure 19 shows an exemplary scheme for synthesizing the huMOV19NTS2S3- SeriMab-DGN462 or -sDGN462 conjugate with 4 DAR (huMovl9NTS2S3-SeriMab- sDGN462), which bears a Linker 1 residue.
[37] Figure 20 shows Q-ToF Mass Spectrometry (MS) data of huMOV19NTS2S3- SeriMab-sDGN462 conjugate with 4 DAR (huMovl9NTS2S3-SeriMab-sDGN462).
[38] FIG. 21A shows an exemplary scheme for synthesizing the huMOV19NTS2S3- SeriMab-MayNMA conjugate with 4 DAR. Figure 21B shows Q-ToF Mass Spectrometry (MS) data of the Ser-linked huMOV19-SeriMab-MayNMA conjugate with 4 DAR.
[39] Figures 22A-22C show that SeriMab of huCD123-6 (huCD123-6Rvl.lS2-SeriMab- D8, filled black circle) is at least as active as the lysine-linked conjugate (huCD123-6Rvl.l- D2, filled downward black triangle) of the same antibody in AML cell lines SHI-1 (FIG. 22A) and HNT-34 (FIG. 22B), as well as the CML cell line MOLM-1 (FIG. 22C). The dotted curves connecting open data points in each figure represent activity of the respective conjugates (i.e., open circle for huCD123-6Rvl.lS2-SeriMab-D8, and open downward triangle for huCD123-6Rvl. l-D2) in the presence of blocking concentration (500 nM) of the unconjugated huCD 123-6 antibody. See Example 28 for structure of Lys-linked antibody-D2 conjugate (shown is the huMOV19-D2 structure, but huCD123-6Rvl.l-D2 conjugate has the same structure).
[40] Figure 23 shows N-terminal Ser- specific modification or conjugation does not noticeably affect antibody binding to antigen. Wild-type anti-FRa huMOV19 antibody, its N-terminal Ser modified version huMOV19-NTS2 ("huMOV19-SeriMab antibody") and its conjugate to the cytotoxic compound D8 (huMOV19-SeriMab-D8) all have essentially the same binding affinity to the FRa-bearing T47D cells, as measured by FACS.
[41] Figure 24 shows that huCD123-6Gv4.7S3-SeriMab-sDl conjugate (see Figure 18) shows similar potency as the huCD123-6Gv4.7S2(or S3)-SeriMab-D8 conjugate in EOL-1 cells. Results for the Lys-linked huCD123-6Gv4.7S3-sSPDB-Dl and huCD123-6Gv4.7S3- D2 conjugates are also shown.
[42] Figure 25 shows Ser- linked DGN462 compound with huCD123 antibody has 3-fold higher antigen- specific potency against EOL-1 cells than lysine linked version with higher DAR.
[43] Figures 26A-26C show that SeriMab-D8 (huMOV19-NTS#2-SeriMab-D8) conjugate has comparable antigen- specific potency and target binding as the lysine conjugate
(huMOV19-D2).
[44] Figure 27 shows the results of bystander killing assay for huMOV19-SeriMab-D8 and the corresponding Lys-linked conjugated huMOV19-D2.
[45] Figure 28 shows in vivo stability of the oxime linkage in huMOV19-NTS#2- aminooxy-acetyl-MayNMA conjugate.
[46] Figure 29 shows individual body weight percent change of female CD-I mice treated with 100 μg/kg or 150 μg/kg of lysine-linked huMOV19-D2 conjugate or 200 μg/kg huMOV19-SeriMab-D8.
[47] Figure 30 shows an exemplary scheme for synthesizing the conjugate of the present invention.
[48] Figures 31A and 3 IB shown exemplary schemes for synthesizing the conjugate of the present invention.
DETAILED DESCRIPTION OF THE INVENTION
[49] Reference will now be made in detail to certain embodiments of the invention, examples of which are illustrated in the accompanying structures and formulae. While the invention will be described in conjunction with the enumerated embodiments, it will be understood that they are not intended to limit the invention to those embodiments. On the contrary, the invention is intended to cover all alternatives, modifications, and equivalents which may be included within the scope of the present invention as defined by the claims. One skilled in the art will recognize many methods and materials similar or equivalent to those described herein, which could be used in the practice of the present invention.
[50] It should be understood that any of the embodiments described herein, including those described under different aspects of the invention (e.g., compounds, conjugates,
compositions, methods of making and using) and different parts of the specification
(including embodiments described only in the Examples) can be combined with one or more other embodiments of the invention, unless explicitly disclaimed or improper. Combination of embodiments are not limited to those specific combinations claimed via the multiple dependent claims.
DEFINITIONS
[51] "Linear or branched alkyl" as used herein refers to a saturated linear or branched- chain monovalent hydrocarbon radical of one to twenty carbon atoms. Examples of alkyl include, but are not limited to, methyl, ethyl, 1 -propyl, 2-propyl, 1 -butyl, 2-methyl-l -propyl, - CH2CH(CH3)2), 2-butyl, 2-methyl-2-propyl, 1-pentyl, 2-pentyl 3-pentyl, 2-methyl-2-butyl, 3- methyl-2-butyl, 3-methyl-l -butyl, 2-methyl-l -butyl, 1-hexyl), 2-hexyl, 3-hexyl, 2-methyl-2- pentyl, 3-methyl-2-pentyl, 4-methyl-2-pentyl, 3-methyl-3-pentyl, 2-methyl-3-pentyl, 2,3- dimethyl-2-butyl, 3,3-dimethyl-2-butyl, 1-heptyl, 1-octyl, and the like. Preferably, the alkyl has one to ten carbon atoms. More preferably, the alkyl has one to four carbon atoms.
[52] "Linear or branched alkenyl" refers to linear or branched-chain monovalent hydrocarbon radical of two to twenty carbon atoms with at least one site of unsaturation, i.e., a carbon-carbon, double bond, wherein the alkenyl radical includes radicals having "cis" and "trans" orientations, or alternatively, "E" and "Z" orientations. Examples include, but are not limited to, ethylenyl or vinyl (-CH=CH2), allyl (-CH2CH=CH2), and the like. Preferably, the alkenyl has two to ten carbon atoms. More preferably, the alkyl has two to four carbon atoms.
[53] "Linear or branched alkynyl" refers to a linear or branched monovalent
hydrocarbon radical of two to twenty carbon atoms with at least one site of unsaturation, i.e., a carbon-carbon, triple bond. Examples include, but are not limited to, ethynyl, propynyl, 1- butynyl, 2-butynyl, 1-pentynyl, 2-pentynyl, 3-pentynyl, hexynyl, and the like. Preferably, the alkynyl has two to ten carbon atoms. More preferably, the alkynyl has two to four carbon atoms.
[54] The term "carbocycle," "carbocyclyl" and "carbocyclic ring" refer to a monovalent non-aromatic, saturated or partially unsaturated ring having 3 to 12 carbon atoms as a monocyclic ring or 7 to 12 carbon atoms as a bicyclic ring. Bicyclic carbocycles having 7 to 12 atoms can be arranged, for example, as a bicyclo [4,5], [5,5], [5,6], or [6,6] system, and bicyclic carbocycles having 9 or 10 ring atoms can be arranged as a bicyclo [5,6] or [6,6] system, or as bridged systems such as bicyclo[2.2.1]heptane, bicyclo[2.2.2]octane and bicyclo[3.2.2]nonane. Examples of monocyclic carbocycles include, but are not limited to, cyclopropyl, cyclobutyl, cyclopentyl, 1-cyclopent-l-enyl, l-cyclopent-2-enyl, l-cyclopent-3- enyl, cyclohexyl, 1-cyclohex-l-enyl, l-cyclohex-2-enyl, l-cyclohex-3-enyl, cyclohexadienyl, cycloheptyl, cyclooctyl, cyclononyl, cyclodecyl, cycloundecyl, cyclododecyl, and the like.
[55] The terms "cyclic alkyl" and "cycloalkyl" can be used interchangeably. They refer to a monovalent saturated carbocyclic ring radical. Preferably, the cyclic alkyl is 3 to 7 membered monocyclic ring radical. More preferably, the cyclic alkyl is cyclohexyl.
[56] The term "cyclic alkenyl" refers to a carbocyclic ring radical having at least one double bond in the ring structure.
[57] The term "cyclic alkynyl" refers to a carbocyclic ring radical having at least one triple bond in the ring structure.
[58] "Aryl" means a monovalent aromatic hydrocarbon radical of 6-18 carbon atoms derived by the removal of one hydrogen atom from a single carbon atom of a parent aromatic ring system. Some aryl groups are represented in the exemplary structures as "Ar." Aryl includes bicyclic radicals comprising an aromatic ring fused to a saturated, partially unsaturated ring, or aromatic carbocyclic or heterocyclic ring. Typical aryl groups include, but are not limited to, radicals derived from benzene (phenyl), substituted benzenes, naphthalene, anthracene, indenyl, indanyl, 1,2-dihydronapthalene, 1,2,3,4-tetrahydronapthyl, and the like. Preferably, aryl is phenyl group.
[59] The terms "heterocycle," "heterocyclyl," and "heterocyclic ring" are used interchangeably herein and refer to a saturated or a partially unsaturated (i.e., having one or more double and/or triple bonds within the ring) carbocyclic radical of 3 to 18 ring atoms in which at least one ring atom is a heteroatom selected from nitrogen, oxygen, phosphorus, and sulfur, the remaining ring atoms being C, where one or more ring atoms is optionally substituted independently with one or more substituents described below. A heterocycle may be a monocycle having 3 to 7 ring members (2 to 6 carbon atoms and 1 to 4 heteroatoms selected from N, O, P, and S) or a bicycle having 7 to 10 ring members (4 to 9 carbon atoms and 1 to 6 heteroatoms selected from N, O, P, and S), for example: a bicyclo [4,5], [5,5], [5,6], or [6,6] system. Heterocycles are described in Paquette, Leo A.; "Principles of Modern Heterocyclic Chemistry" (W. A. Benjamin, New York, 1968), particularly Chapters 1, 3, 4, 6, 7, and 9; "The Chemistry of Heterocyclic Compounds, A series of Monographs" (John Wiley & Sons, New York, 1950 to present), in particular Volumes 13, 14, 16, 19, and 28; and J. Am. Chem. Soc. (1960) 82:5566. "Heterocyclyl" also includes radicals where heterocycle radicals are fused with a saturated, partially unsaturated ring, or aromatic carbocyclic or heterocyclic ring. Examples of heterocyclic rings include, but are not limited to, pyrrolidinyl, tetrahydrofuranyl, dihydrofuranyl, tetrahydrothienyl, tetrahydropyranyl, dihydropyranyl, tetrahydrothiopyranyl, piperidino, morpholino, thiomorpholino, thioxanyl, piperazinyl, homopiperazinyl, azetidinyl, oxetanyl, thietanyl, homopiperidinyl, oxepanyl, thiepanyl, oxazepinyl, diazepinyl, thiazepinyl, 2-pyrrolinyl, 3-pyrrolinyl, indolinyl, 2H-pyranyl, 4H- pyranyl, dioxanyl, 1,3-dioxolanyl, pyrazolinyl, dithianyl, dithiolanyl, dihydropyranyl, dihydrothienyl, dihydrofuranyl, pyrazolidinylimidazolinyl, imidazolidinyl, 3- azabicyco[3.1.0]hexanyl, 3-azabicyclo[4.1.0]heptanyl, and azabicyclo[2.2.2]hexanyl. Spiro moieties are also included within the scope of this definition. Examples of a heterocyclic group wherein ring atoms are substituted with oxo (=0) moieties are pyrimidinonyl and 1, 1- dioxo-thiomorpholinyl.
[60] The term "heteroaryl" refers to a monovalent aromatic radical of 5- or 6-membered rings, and includes fused ring systems (at least one of which is aromatic) of 5- 18 atoms, containing one or more heteroatoms independently selected from nitrogen, oxygen, and sulfur. Examples of heteroaryl groups are pyridinyl (including, for example, 2- hydroxypyridinyl), imidazolyl, imidazopyridinyl, pyrimidinyl (including, for example, 4- hydroxypyrimidinyl), pyrazolyl, triazolyl, pyrazinyl, tetrazolyl, furyl, thienyl, isoxazolyl, thiazolyl, oxazolyl, isothiazolyl, pyrrolyl, quinolinyl, isoquinolinyl, indolyl, benzimidazolyl, benzofuranyl, cinnolinyl, indazolyl, indolizinyl, phthalazinyl, pyridazinyl, triazinyl, isoindolyl, pteridinyl, purinyl, oxadiazolyl, triazolyl, thiadiazolyl, furazanyl, benzofurazanyl, benzothiophenyl, benzothiazolyl, benzoxazolyl, quinazolinyl, quinoxalinyl, naphthyridinyl, and furopyridinyl.
[61] The heterocycle or heteroaryl groups may be carbon (carbon-linked) or nitrogen (nitrogen-linked) attached where such is possible. By way of example and not limitation, carbon bonded heterocycles or heteroaryls are bonded at position 2, 3, 4, 5, or 6 of a pyridine, position 3, 4, 5, or 6 of a pyridazine, position 2, 4, 5, or 6 of a pyrimidine, position 2, 3, 5, or 6 of a pyrazine, position 2, 3, 4, or 5 of a furan, tetrahydrofuran, thiofuran, thiophene, pyrrole or tetrahydropyrrole, position 2, 4, or 5 of an oxazole, imidazole or thiazole, position 3, 4, or 5 of an isoxazole, pyrazole, or isothiazole, position 2 or 3 of an aziridine, position 2, 3, or 4 of an azetidine, position 2, 3, 4, 5, 6, 7, or 8 of a quinoline or position 1, 3, 4, 5, 6, 7, or 8 of an isoquinoline.
[62] By way of example and not limitation, nitrogen bonded heterocycles or heteroaryls are bonded at position 1 of an aziridine, azetidine, pyrrole, pyrrolidine, 2-pyrroline, 3- pyrroline, imidazole, imidazolidine, 2-imidazoline, 3-imidazoline, pyrazole, pyrazoline, 2- pyrazoline, 3-pyrazoline, piperidine, piperazine, indole, indoline, IH-indazole, position 2 of a isoindole, or isoindoline, position 4 of a morpholine, and position 9 of a carbazole, or O- carboline.
[63] The heteroatoms present in heteroaryl or heterocyclcyl include the oxidized forms such as NO, SO, and S02.
[64] The term "halo" or "halogen" refers to F, CI, Br or I.
[65] The alkyl, alkenyl, alkynyl, cyclic alkyl, cyclic alkenyl, cyclic alkynyl, carbocyclyl, aryl, heterocyclyl and heteroaryl described above can be optionally substituted with one more (e.g. , 2, 3, 4, 5, 6 or more) substituents.
[66] If a substituent is described as being "substituted," a non-hydrogen substituent is in the place of a hydrogen substituent on a carbon, oxygen, sulfur or nitrogen of the substituent. Thus, for example, a substituted alkyl substituent is an alkyl substituent wherein at least one non-hydrogen substituent is in the place of a hydrogen substituent on the alkyl substituent. To illustrate, monofluoroalkyl is alkyl substituted with a fluoro substituent, and difluoroalkyl is alkyl substituted with two fluoro substituents. It should be recognized that if there is more than one substitution on a substituent, each non-hydrogen substituent may be identical or different (unless otherwise stated).
[67] If a substituent is described as being "optionally substituted," the substituent may be either (1) not substituted, or (2) substituted. If a carbon of a substituent is described as being optionally substituted with one or more of a list of substituents, one or more of the hydrogens on the carbon (to the extent there are any) may separately and/or together be replaced with an independently selected optional substituent. If a nitrogen of a substituent is described as being optionally substituted with one or more of a list of substituents, one or more of the hydrogens on the nitrogen (to the extent there are any) may each be replaced with an independently selected optional substituent. One exemplary substituent may be depicted as - NR'R", wherein R' and R" together with the nitrogen atom to which they are attached, may form a heterocyclic ring. The heterocyclic ring formed from R' and R' ' together with the nitrogen atom to which they are attached may be partially or fully saturated. In one embodiment, the heterocyclic ring consists of 3 to 7 atoms. In another embodiment, the heterocyclic ring is selected from the group consisting of pyrrolyl, imidazolyl, pyrazolyl, triazolyl, tetrazolyl, isoxazolyl, pyridyl and thiazolyl.
[68] This specification uses the terms "substituent," "radical," and "group"
interchangeably.
[69] If a group of substituents are collectively described as being optionally substituted by one or more of a list of substituents, the group may include: (1) unsubstitutable substituents, (2) substitutable substituents that are not substituted by the optional substituents, and/or (3) substitutable substituents that are substituted by one or more of the optional substituents.
[70] If a substituent is described as being optionally substituted with up to a particular number of non-hydrogen substituents, that substituent may be either (1) not substituted; or (2) substituted by up to that particular number of non-hydrogen substituents or by up to the maximum number of substitutable positions on the substituent, whichever is less. Thus, for example, if a substituent is described as a heteroaryl optionally substituted with up to 3 non- hydrogen substituents, then any heteroaryl with less than 3 substitutable positions would be optionally substituted by up to only as many non-hydrogen substituents as the heteroaryl has substitutable positions. Such substituents, in non-limiting examples, can be selected from a linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, aryl, heteroaryl, heterocycyclyl, halogen, guanidinium [-NH(C=NH)NH2] , -OR100, NR101R102, - N02, -NR101COR102, -SR100, a sulfoxide represented by -SOR101, a sulfone represented by - S02R101, a sulfonate -SO3M, a sulfate -OSO3M, a sulfonamide represented by - SO2NR101R102, cyano, an azido, -COR101, -OCOR101, -OCONR101R102 and a polyethylene glycol unit (-OCH2CH2)nR101 wherein M is H or a cation (such as Na+ or K+); R101, R102 and
103
R are each independently selected from H, linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, a polyethylene glycol unit (-OCH2CH2)n-R104, wherein n is an integer from 1 to 24, an aryl having from 6 to 10 carbon atoms, a heterocyclic ring having from 3 to 10 carbon atoms and a heteroaryl having 5 to 10 carbon atoms; and R104 is H or a linear or branched alkyl having 1 to 4 carbon atoms, wherein the alkyl, alkenyl, alkynyl, aryl, heteroaryl and heterocyclcyl in the groups represented by R100, R101, R102, R103 and R104 are optionally substituted with one or more (e.g. , 2, 3, 4, 5, 6 or more) substituents independently selected from halogen, -OH, -CN, -N02 and unsubstituted linear or branched alkyl having 1 to 4 carbon atoms. Preferably, the substituents for the optionally substituted alkyl, alkenyl, alkynyl, cyclic alkyl, cyclic alkenyl, cyclic alkynyl, carbocyclyl, aryl, heterocyclyl and heteroaryl described above include halogen, -CN, -NR102R103, -CF3, -OR101, aryl, heteroaryl, heterocycycl, -SR101, -SOR101, -S02R101 and -SO3M.
[71] The term "compound" or "cytotoxic compound," "cytotoxic dimer" and "cytotoxic dimer compound" are used interchangeably. They are intended to include compounds for which a structure or formula or any derivative thereof has been disclosed in the present invention or a structure or formula or any derivative thereof that has been incorporated by reference. The term also includes, stereoisomers, geometric isomers, tautomers, solvates, metabolites, salts (e.g. , pharmaceutically acceptable salts) and prodrugs, and prodrug salts of a compound of all the formulae disclosed in the present invention. The term also includes any solvates, hydrates, and polymorphs of any of the foregoing. The specific recitation of "stereoisomers," "geometric isomers," "tautomers," "solvates," "metabolites," "salt"
"prodrug," "prodrug salt," "conjugates," "conjugates salt," "solvate," "hydrate," or
"polymorph" in certain aspects of the invention described in this application shall not be interpreted as an intended omission of these forms in other aspects of the invention where the term "compound" is used without recitation of these other forms.
[72] The term "immunoconjugate" or "conjugate" as used herein refers to a compound or a derivative thereof that is linked to a cell binding agent (i.e. , an anti-CD 123/IL-3Ra antibody or an anti-FRa antibody, or fragments thereof) and is defined by a generic formula: A-L-C, wherein C = cyto toxin, L = linker, and A = cell binding agent (CBA), such as anti-CD 123/IL- 3Ra or an anti-FRa antibody or antibody fragment. Immunoconjugates can also be defined by the generic formula in reverse order: C-L-A.
[73] The term "linkable to a cell binding agent" as used herein refers to the compounds described herein or derivates thereof comprising at least one linking group or a precursor thereof suitable to bond these compounds or derivatives thereof to a cell binding agent.
[74] The term "precursor" of a given group refers to any group which may lead to that group by any deprotection, a chemical modification, or a coupling reaction.
[75] The term "linked to a cell binding agent" refers to a conjugate molecule comprising at least one of the cytotoxic agent compounds or cytotoxic agent-linker compounds described herein (e.g. , compounds of formulas (D1')-(D29') and cytotoxic agent-linker compounds of formula (II)), or derivative thereof bound to a cell binding agent via a suitable linking group or a precursor thereof.
[76] The term "chiral" refers to molecules which have the property of non- superimposability of the mirror image partner, while the term "achiral" refers to molecules which are superimposable on their mirror image partner.
[77] The term "stereoisomer" refers to compounds which have identical chemical constitution and connectivity, but different orientations of their atoms in space that cannot be interconverted by rotation about single bonds.
[78] "Diastereomer" refers to a stereoisomer with two or more centers of chirality and whose molecules are not mirror images of one another. Diastereomers have different physical properties, e.g. melting points, boiling points, spectral properties, and reactivities. Mixtures of diastereomers may separate under high resolution analytical procedures such as crystallization, electrophoresis and chromatography. [79] "Enantiomers" refer to two stereoisomers of a compound which are non- superimposable mirror images of one another.
[80] Stereochemical definitions and conventions used herein generally follow S. P. Parker, Ed., McGraw-Hill Dictionary of Chemical Terms (1984) McGraw-Hill Book Company, New York; and Eliel, E. and Wilen, S., "Stereochemistry of Organic Compounds," John Wiley & Sons, Inc., New York, 1994. The compounds of the invention may contain asymmetric or chiral centers, and therefore exist in different stereoisomeric forms. It is intended that all stereoisomeric forms of the compounds of the invention, including but not limited to, diastereomers, enantiomers and atropisomers, as well as mixtures thereof such as racemic mixtures, form part of the present invention. Many organic compounds exist in optically active forms, i.e., they have the ability to rotate the plane of plane-polarized light. In describing an optically active compound, the prefixes D and L, or R and S, are used to denote the absolute configuration of the molecule about its chiral center(s). The prefixes d and I or (+) and (-) are employed to designate the sign of rotation of plane-polarized light by the compound, with (-) or 1 meaning that the compound is levorotatory. A compound prefixed with (+) or d is dextrorotatory. For a given chemical structure, these stereoisomers are identical except that they are mirror images of one another. A specific stereoisomer may also be referred to as an enantiomer, and a mixture of such isomers is often called an enantiomeric mixture. A 50:50 mixture of enantiomers is referred to as a racemic mixture or a racemate, which may occur where there has been no stereoselection or stereospecificity in a chemical reaction or process. The terms "racemic mixture" and "racemate" refer to an equimolar mixture of two enantiomeric species, devoid of optical activity.
[81] The term "tautomer" or "tautomeric form" refers to structural isomers of different energies which are interconvertible via a low energy barrier. For example, proton tautomers (also known as prototropic tautomers) include interconversions via migration of a proton, such as keto-enol and imine-enamine isomerizations. Valence tautomers include
interconversions by reorganization of some of the bonding electrons.
[82] The term "prodrug" as used in this application refers to a precursor or derivative form of a compound of the invention that is capable of being enzymatically or hydrolytically activated or converted into the more active parent form. See, e.g., Wilman, "Prodrugs in Cancer Chemotherapy," Biochemical Society Transactions, 14:375-382, 615th Meeting Belfast (1986); and Stella et al., "Prodrugs: A Chemical Approach to Targeted Drug
Delivery," Directed Drug Delivery, Borchardt et al., (eds.), pp. 247-267, Humana Press (1985). The prodrugs of this invention include, but are not limited to, ester-containing prodrugs, phosphate-containing prodrugs, thiophosphate-containing prodrugs, sulfate- containing prodrugs, peptide-containing prodrugs, D-amino acid-modified prodrugs, glycosylated prodrugs, β-lactam-containing prodrugs, optionally substituted
phenoxyacetamide-containing prodrugs, optionally substituted phenylacetamide-containing prodrugs, 5-fluorocytosine and other 5-fluorouridine prodrugs which can be converted into the more active cytotoxic free drug. Examples of cytotoxic drugs that can be derivatized into a prodrug form for use in this invention include, but are not limited to, compounds of the invention and chemotherapeutic agents such as described above.
[83] The term "prodrug" is also meant to include a derivative of a compound that can hydrolyze, oxidize, or otherwise react under biological conditions (in vitro or in vivo) to provide a compound of this invention. Prodrugs may only become active upon such reaction under biological conditions, or they may have activity in their unreacted forms. Examples of prodrugs contemplated in this invention include, but are not limited to, analogs or derivatives of compounds of any one of the formulae disclosed herein that comprise biohydrolyzable moieties such as biohydrolyzable amides, biohydrolyzable esters, biohydrolyzable carbamates, biohydrolyzable carbonates, biohydrolyzable ureides, and biohydrolyzable phosphate analogues. Other examples of prodrugs include derivatives of compounds of any one of the formulae disclosed herein that comprise -NO, -N02, -ONO, or -ON02 moieties. Prodrugs can typically be prepared using well-known methods, such as those described by Burger's Medicinal Chemistry and Drug Discovery (1995) 172-178, 949-982 (Manfred E. Wolff ed., 5th ed.); see also Goodman and Gilman's, The Pharmacological basis of
Therapeutics, 8th ed., McGraw-Hill, Int. Ed. 1992, "Biotransformation of Drugs."
[84] One preferred form of prodrug of the invention includes compounds (with or without any linker groups) and conjugates of the invention comprising an adduct formed between an imine bond of the compounds / conjugates and an imine reactive reagent. Another preferred form of prodrug of the invention includes compounds such as those of formula (I) - (IV), wherein when the double line =■= between N and C represents a single bond, X is H or an amine protecting group, and the compound becomes a prodrug. A prodrug of the invention may contain one or both forms of prodrugs described herein (e.g., containing an adduct formed between an imine bond of the compounds / conjugates and an imine reactive reagent, and/or containing a Y leaving group when X is -H).
[85] The term "imine reactive reagent" refers to a reagent that is capable of reacting with an imine group. Examples of imine reactive reagent includes, but is not limited to, sulfites (H2S03, H2S02 or a salt of HS03 ", S03 2" or HS02 " formed with a cation), metabisulfite (H2S2O5 or a salt of S2O5 " formed with a cation), mono, di, tri, and tetra- thiophosphates (PO3SH3, PO2S2H3, POS3H3, PS4H3 or a salt of P03S3", P02S2 3", POS3 3" or PS4 3~ formed with a cation), thio phosphate esters ((RiO)2PS(ORi), R'SH, R'SOH, R'SC^H, R'SOSH), various amines (hydroxyl amine (e.g., NH2OH), hydrazine (e.g., NH2NH2), ΝΗ20-^, R^NH-R', NH2-R'), NH2-CO-NH2, NH2-C(=S)-NH2' thiosulfate (H2S203 or a salt of S203 2" formed with a cation), dithionite (H2S204 or a salt of S204 " formed with a cation), phosphorodithioate (P(=S)(ORk)(SH)(OH) or a salt thereof formed with a cation), hydroxamic acid
(RkC(=0)NHOH or a salt formed with a cation), hydrazide (RkCONHNH2), formaldehyde sulfoxylate (HOCH2S02H or a salt of HOCH2S02 " formed with a cation, such as HOCH2S02 " Na+), glycated nucleotide (such as GDP-mannose), fludarabine or a mixture thereof, wherein R1 and R1 are each independently a linear or branched alkyl having 1 to 10 carbon atoms and are substituted with at least one substituent selected from -N(RJ)2, -CO2H, -SO3H, and -PO3H; R1 and R1 can be further optionally substituted with a substituent for an alkyl described herein; Rj is a linear or branched alkyl having 1 to 6 carbon atoms; and Rk is a linear, branched or cyclic alkyl, alkenyl or alkynyl having 1 to 10 carbon atoms, aryl, heterocyclyl or heteroaryl (preferably, Rk is a linear or branched alkyl having 1 to 4 carbon atoms; more preferably, Rk is methyl, ethyl or propyl). Preferably, the cation is a monovalent cation, such as Na+ or K+. Preferably, the imine reactive reagent is selected from sulfites, hydroxyl amine, urea and hydrazine. More preferably, the imine reactive reagent is NaHS03 or KHSO3.
[86] As used herein and unless otherwise indicated, the terms "biohydrolyzable amide," "biohydrolyzable ester," "biohydrolyzable carbamate," "biohydrolyzable carbonate," "biohydrolyzable ureide" and "biohydrolyzable phosphate analogue" mean an amide, ester, carbamate, carbonate, ureide, or phosphate analogue, respectively, that either: 1) does not destroy the biological activity of the compound and confers upon that compound advantageous properties in vivo, such as uptake, duration of action, or onset of action; or 2) is itself biologically inactive but is converted in vivo to a biologically active compound.
Examples of biohydrolyzable amides include, but are not limited to, lower alkyl amides, a- amino acid amides, alkoxyacyl amides, and alkylaminoalkylcarbonyl amides. Examples of biohydrolyzable esters include, but are not limited to, lower alkyl esters, alkoxyacyloxy esters, alkyl acylamino alkyl esters, and choline esters. Examples of biohydrolyzable carbamates include, but are not limited to, lower alkylamines, substituted ethylenediamines, amino acids, hydroxyalkylamines, heterocyclic and heteroaromatic amines, and polyether amines. Particularly favored prodrugs and prodrug salts are those that increase the bioavailability of the compounds of this invention when such compounds are administered to a mammal.
[87] The phrase "pharmaceutically acceptable salt" as used herein, refers to
pharmaceutically acceptable organic or inorganic salts of a compound of the invention.
Exemplary salts include, but are not limited, to sulfate, citrate, acetate, oxalate, chloride, bromide, iodide, nitrate, bisulfate, phosphate, acid phosphate, isonicotinate, lactate, salicylate, acid citrate, tartrate, oleate, tannate, pantothenate, bitartrate, ascorbate, succinate, maleate, gentisinate, fumarate, gluconate, glucuronate, saccharate, formate, benzoate, glutamate, methanesulfonate "mesylate," ethanesulfonate, benzenesulfonate, p-toluenesulfonate, pamoate (i.e. , l, l '-methylene-bis-(2-hydroxy-3-naphthoate)) salts, alkali metal (e.g. , sodium and potassium) salts, alkaline earth metal (e.g. , magnesium) salts, and ammonium salts. A pharmaceutically acceptable salt may involve the inclusion of another molecule such as an acetate ion, a succinate ion or other counter ion. The counter ion may be any organic or inorganic moiety that stabilizes the charge on the parent compound. Furthermore, a pharmaceutically acceptable salt may have more than one charged atom in its structure.
Instances where multiple charged atoms are part of the pharmaceutically acceptable salt can have multiple counter ions. Hence, a pharmaceutically acceptable salt can have one or more charged atoms and/or one or more counter ion.
[88] If the compound of the invention is a base, the desired pharmaceutically acceptable salt may be prepared by any suitable method available in the art, for example, treatment of the free base with an inorganic acid, such as hydrochloric acid, hydrobromic acid, sulfuric acid, nitric acid, methanesulfonic acid, phosphoric acid and the like, or with an organic acid, such as acetic acid, maleic acid, succinic acid, mandelic acid, fumaric acid, malonic acid, pyruvic acid, oxalic acid, glycolic acid, salicylic acid, a pyranosidyl acid, such as glucuronic acid or galacturonic acid, an alpha hydroxy acid, such as citric acid or tartaric acid, an amino acid, such as aspartic acid or glutamic acid, an aromatic acid, such as benzoic acid or cinnamic acid, a sulfonic acid, such as p-toluenesulfonic acid or ethanesulfonic acid, or the like.
[89] If the compound of the invention is an acid, the desired pharmaceutically acceptable salt may be prepared by any suitable method, for example, treatment of the free acid with an inorganic or organic base, such as an amine (primary, secondary or tertiary), an alkali metal hydroxide or alkaline earth metal hydroxide, or the like. Illustrative examples of suitable salts include, but are not limited to, organic salts derived from amino acids, such as glycine and arginine, ammonia, primary, secondary, and tertiary amines, and cyclic amines, such as piperidine, morpholine and piperazine, and inorganic salts derived from sodium, calcium, potassium, magnesium, manganese, iron, copper, zinc, aluminum and lithium.
[90] As used herein, the term "solvate" means a compound which further includes a stoichiometric or non- stoichiometric amount of solvent such as water, isopropanol, acetone, ethanol, methanol, DMSO, ethyl acetate, acetic acid, and ethanolamine dichloromethane, 2- propanol, or the like, bound by non-covalent intermolecular forces. Solvates or hydrates of the compounds are readily prepared by addition of at least one molar equivalent of a hydroxylic solvent such as methanol, ethanol, 1-propanol, 2-propanol or water to the compound to result in solvation or hydration of the imine moiety.
[91] The terms "abnormal cell growth" and "proliferative disorder" are used interchangeably in this application. "Abnormal cell growth," as used herein, unless otherwise indicated, refers to cell growth that is independent of normal regulatory
mechanisms (e.g. , loss of contact inhibition). This includes, for example, the abnormal growth of: (1) tumor cells (tumors) that proliferate by expressing a mutated tyrosine kinase or overexpression of a receptor tyrosine kinase; (2) benign and malignant cells of other proliferative diseases in which aberrant tyrosine kinase activation occurs; (3) any tumors that proliferate by receptor tyrosine kinases; (4) any tumors that proliferate by aberrant serine/threonine kinase activation; and (5) benign and malignant cells of other proliferative diseases in which aberrant serine/threonine kinase activation occurs.
[92] The terms "cancer" and "cancerous" refer to or describe the physiological condition in mammals that is typically characterized by unregulated cell growth. A "tumor" comprises one or more cancerous cells, and/or benign or pre-cancerous cells.
[93] A "therapeutic agent" encompasses both a biological agent such as an antibody, a peptide, a protein, an enzyme or a chemotherapeutic agent.
[94] A "chemotherapeutic agent" is a chemical compound useful in the treatment of cancer.
[95] A "metabolite" is a product produced through metabolism in the body of a specified compound, a derivative thereof, or a conjugate thereof, or salt thereof. Metabolites of a compound, a derivative thereof, or a conjugate thereof, may be identified using routine techniques known in the art and their activities determined using tests such as those described herein. Such products may result for example from the oxidation, hydroxylation, reduction, hydrolysis, amidation, deamidation, esterification, deesterification, enzymatic cleavage, and the like, of the administered compound. Accordingly, the invention includes metabolites of compounds, a derivative thereof, or a conjugate thereof, of the invention, including compounds, a derivative thereof, or a conjugate thereof, produced by a process comprising contacting a compound, a derivative thereof, or a conjugate thereof, of this invention with a mammal for a period of time sufficient to yield a metabolic product thereof.
[96] The phrase "pharmaceutically acceptable" indicates that the substance or composition must be compatible chemically and/or toxicologically, with the other ingredients comprising a formulation, and/or the mammal being treated therewith.
[97] The term "protecting group" or "protecting moiety" refers to a substituent that is commonly employed to block or protect a particular functionality while reacting other functional groups on the compound, a derivative thereof, or a conjugate thereof. For example, an "amine-protecting group" or an "amino-protecting moiety" is a substituent attached to an amino group that blocks or protects the amino functionality in the compound. Such groups are well known in the art (see for example P. Wuts and T. Greene, 2007, Protective Groups in Organic Synthesis, Chapter 7, J. Wiley & Sons, NJ) and exemplified by carbamates such as methyl and ethyl carbamate, FMOC, substituted ethyl carbamates, carbamates cleaved by l,6-P-elimination (also termed "self immolative"), ureas, amides, peptides, alkyl and aryl derivatives. Suitable amino-protecting groups include acetyl, trifluoroacetyl, t-butoxycarbonyl (BOC), benzyloxycarbonyl (CBZ) and 9- fluorenylmethylenoxycarbonyl (Fmoc). For a general description of protecting groups and their use, see P. G.M. Wuts & T. W. Greene, Protective Groups in Organic Synthesis, John Wiley & Sons, New York, 2007.
[98] The term "leaving group" refers to an group of charged or uncharged moiety that departs during a substitution or displacement. Such leaving groups are well known in the art and include, but not limited to, halogens, esters, alkoxy, hydroxyl, tosylates, triflates, mesylates, nitriles, azide, carbamate, disulfides, thioesters, thioethers and diazonium compounds.
[99] The term "bifunctional crosslinking agent," "bifunctional linker" "crosslinking agents" or "linker compound" refers to modifying agents that possess two reactive groups; one of which is capable of reacting with a cell binding agent while the other one reacts with the cytotoxic compound to link the two moieties together. Such bifunctional crosslinkers are well known in the art (see, for example, Isalm and Dent in Bioconjugation, chapter 5, p218- 363, Groves Dictionaries Inc. New York, 1999). For example, bifunctional crosslinking agents that enable linkage via a thioether bond include N-succinimidyl-4-(N- maleimidomethyl)-cyclohexane-l-carboxylate (SMCC) to introduce maleimido groups, or with N-succinimidyl-4-(iodoacetyl)-aminobenzoate (SIAB) to introduce iodoacetyl groups. Other bifunctional crosslinking agents that introduce maleimido groups or haloacetyl groups on to a cell binding agent are well known in the art (see US Patent Applications
2008/0050310, 20050169933, available from Pierce Biotechnology Inc. P.O. Box 117, Rockland, IL 61105, USA) and include, but not limited to, bis-maleimidopolyethyleneglycol (BMPEO), BM(PEO)2, BM(PEO)3, N-( -maleimidopropyloxy)succinimide ester (BMPS), γ- maleimidobutyric acid N-succinimidyl ester (GMBS), ε-maleimidocaproic acid N- hydroxysuccinimide ester (EMCS), 5 -maleimido valeric acid NHS, HBVS, N-succinimidyl-4- (N-maleimidomethyl)-cyclohexane-l-carboxy-(6-amidocaproate), which is a "long chain" analog of SMCC (LC-SMCC), m-maleimidobenzoyl-N-hydroxysuccinimide ester (MBS), 4- (4-N-maleimidophenyl)-butyric acid hydrazide or HC1 salt (MPBH), N-succinimidyl 3- (bromoacetamido)propionate (SBAP), N-succinimidyl iodoacetate (SIA), K- maleimidoundecanoic acid N-succinimidyl ester (KMUA), N-succinimidyl 4-(p- maleimidophenyl)-butyrate (SMPB), succinimidyl-6-( -maleimidopropionamido)hexanoate (SMPH), succinimidyl-(4-vinylsulfonyl)benzoate (SVSB), dithiobis-maleimidoethane (DTME), 1,4-bis-maleimidobutane (BMB), 1,4 bismaleimidyl-2,3-dihydroxybutane
(BMDB), bis-maleimidohexane (BMH), bis-maleimidoethane (BMOE), sulfosuccinimidyl 4- (N-maleimido-methyl)cyclohexane-l-carboxylate (sulfo-SMCC), sulfosuccinimidyl(4-iodo- acetyl)aminobenzoate (sulfo-SIAB), m-maleimidobenzoyl-N-hydroxysulfosuccinimide ester (sulfo-MBS), N-(y-maleimidobutryloxy)sulfosuccinimde ester (sulfo-GMBS), Ν-(ε- maleimidocaproyloxy)sulfosuccimido ester (sulfo-EMCS), Ν-(κ- maleimidoundecanoyloxy)sulfosuccinimide ester (sulfo-KMUS), and sulfosuccinimidyl 4-(p- maleimidophenyl)butyrate (sulfo-SMPB).
[100] Heterobifunctional crosslinking agents are bifunctional crosslinking agents having two different reactive groups. Heterobifunctional crosslinking agents containing both an amine-reactive iV-hydroxysuccinimide group (NHS group) and a carbonyl-reactive hydrazine group can also be used to link the cytotoxic compounds described herein with a cell-binding agent (e.g., antibody). Examples of such commercially available heterobifunctional crosslinking agents include succinimidyl 6-hydrazinonicotinamide acetone hydrazone (SANH), succinimidyl 4-hydrazidoterephthalate hydrochloride (SHTH) and succinimidyl hydrazinium nicotinate hydrochloride (SHNH). Conjugates bearing an acid-labile linkage can also be prepared using a hydrazine-bearing benzodiazepine derivative of the present invention. Examples of bifunctional crosslinking agents that can be used include
succinimidyl-p-formyl benzoate (SFB) and succinimidyl-p-formylphenoxyacetate (SFPA). [101] Bifunctional crosslinking agents that enable the linkage of cell binding agent with cytotoxic compounds via disulfide bonds are known in the art and include N-succinimidyl-3- (2-pyridyldithio)propionate (SPDP), N-succinimidyl-4-(2-pyridyldithio)pentanoate (SPP), N- succinimidyl-4-(2-pyridyldithio)butanoate (SPDB), N-succinimidyl-4-(2-pyridyldithio)2- sulfo butanoate (sulfo-SPDB) to introduce dithiopyridyl groups. Other bifunctional crosslinking agents that can be used to introduce disulfide groups are known in the art and are disclosed in U.S. Patents 6,913,748, 6,716,821 and US Patent Publications 20090274713 and 20100129314, all of which are incorporated herein by reference. Alternatively, crosslinking agents such as 2-iminothiolane, homocysteine thiolactone or S-acetylsuccinic anhydride that introduce thiol groups can also be used.
[102] A "linker," "linker moiety," or "linking group" as defined herein refers to a moiety that connects two groups, such as a cell binding agent and a cytotoxic compound, together. Typically, the linker is substantially inert under conditions for which the two groups it is connecting are linked. A bifunctional crosslinking agent may comprise two reactive groups, one at each ends of a linker moiety, such that one reactive group can be first reacted with the cytotoxic compound to provide a compound bearing the linker moiety and a second reactive group, which can then react with a cell binding agent. Alternatively, one end of the bifunctional crosslinking agent can be first reacted with the cell binding agent to provide a cell binding agent bearing a linker moiety and a second reactive group, which can then react with a cytotoxic compound. The linking moiety may contain a chemical bond that allows for the release of the cytotoxic moiety at a particular site. Suitable chemical bonds are well known in the art and include disulfide bonds, thioether bonds, acid labile bonds, photolabile bonds, peptidase labile bonds and esterase labile bonds (see for example US Patents
5,208,020; 5,475,092; 6,441,163; 6,716,821; 6,913,748; 7,276,497; 7,276,499; 7,368,565; 7,388,026 and 7,414,073). Preferred are disulfide bonds, thioether and peptidase labile bonds. Other linkers that can be used in the present invention include non-cleavable linkers, such as those described in are described in detail in U.S. publication number 20050169933, or charged linkers or hydrophilic linkers and are described in US 2009/0274713, US
2010/01293140 and WO 2009/134976, each of which is expressly incorporated herein by reference, each of which is expressly incorporated herein by reference.
[103] The term "amino acid" refers to naturally occurring amino acids or non-naturally occurring amino acid. They may be represented by NH2-C(Raa Raa)-C(=0)OH, wherein and Raa are each independently H, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having 1 to 10 carbon atoms, aryl, heteroaryl or heterocyclyl, or R^ and the N-terminal nitrogen atom, can together form a heterocyclic ring (e.g. , in proline). The term "amino acid residue" refers to the corresponding residue when one hydrogen atom is removed from the amine and/or carboxy end of the amino acid, such as -NH-C(Raa R3 )- C(=0)0-.
[104] The term "cation" refers to an ion with positive charge. The cation can be monovalent (e.g., Na+, K+, etc.), bi-valent (e.g. , Ca2+, Mg2+, etc.) or multi-valent (e.g. , Al3+ etc.). Preferably, the cation is monovalent.
[105] The term "therapeutically effective amount" means that amount of active compound or conjugate that elicits the desired biological response in a subject. Such response includes alleviation of the symptoms of the disease or disorder being treated, prevention, inhibition or a delay in the recurrence of symptom of the disease or of the disease itself, an increase in the longevity of the subject compared with the absence of the treatment, or prevention, inhibition or delay in the progression of symptom of the disease or of the disease itself. Determination of the effective amount is well within the capability of those skilled in the art, especially in light of the detailed disclosure provided herein. Toxicity and therapeutic efficacy of compound I can be determined by standard pharmaceutical procedures in cell cultures and in experimental animals. The effective amount of compound or conjugate of the present invention or other therapeutic agent to be administered to a subject will depend on the stage, category and status of the multiple myeloma and characteristics of the subject, such as general health, age, sex, body weight and drug tolerance. The effective amount of compound or conjugate of the present invention or other therapeutic agent to be administered will also depend on administration route and dosage form. Dosage amount and interval can be adjusted individually to provide plasma levels of the active compound that are sufficient to maintain desired therapeutic effects.
[106] The term "humanized antibody" refers to forms of non-human (e.g. , murine) antibodies that are specific immunoglobulin chains, chimeric immunoglobulins, or fragments thereof that contain minimal non-human (e.g. , murine) sequences. Typically, humanized antibodies are human immunoglobulins in which residues from the complementary determining region (CDR) are replaced by residues from the CDR of a non-human species (e.g. , mouse, rat, rabbit, hamster) that have the desired specificity, affinity, and capability (Jones et al, Nature 321 :522-525, 1986; Riechmann et al, Nature 332:323-327, 1988;
Verhoeyen et al, Science 239: 1534- 1536, 1988).
[107] In some instances, the Fv framework region (FR) residues of a human
immunoglobulin are replaced with the corresponding residues in an antibody from a non- human species that has the desired specificity, affinity, and capability. The humanized antibody can be further modified by the substitution of additional residues either in the Fv framework region and/or within the replaced non-human residues to refine and optimize antibody specificity, affinity, and/or capability. In general, the humanized antibody will comprise substantially all of at least one, and typically two or three, variable domains containing all or substantially all of the CDR regions that correspond to the non-human immunoglobulin whereas all or substantially all of the FR regions are those of a human immunoglobulin consensus sequence. The humanized antibody can also comprise at least a portion of an immunoglobulin constant region or domain (Fc), typically that of a human immunoglobulin. Examples of methods used to generate humanized antibodies are described in U.S. Pats. 5,225,539 and 5,639,641, Roguska et al, Proc. Natl. Acad. Sci. USA 91(3):969- 973, 1994; and Roguska et al, Protein Eng. 9(10):895-904, 1996 (all incorporated herein by reference). In some embodiments, a "humanized antibody" is a resurfaced antibody. In some embodiments, a "humanized antibody" is a CDR-grafted antibody.
CELL-BINDING AGENT-CYTOTOXIC AGENT CONJUGATES
[108] The present invention provides cell-binding agent-cytotoxic agent conjugates comprising a cell-binding agent described herein covalently linked to one or more molecules of the cytotoxic agent of the present invention via a variety of linkers, including, but not limited to, disulfide linkers, thioether linkers, amide bonded linkers, acid-labile linkers, and esterase-labile linkers.
[109] In a first embodiment, the present invention provides a cell-binding agent-cytotoxic agent conjugate of structural formula (I):
Figure imgf000028_0001
or a pharmaceutically acceptable salt thereof, wherein:
CBA is a cell-binding agent covalently linked to the JCB' group;
JCB' is a moiety formed by reacting an aldehyde group on the CBA and an aldehyde reactive group connected to the group L, wherein the aldehyde is derived from oxidation of a 2-hydroxyethylamine moiety represented by the following structural formula:
Figure imgf000029_0001
wherein the 2-hydroxyethylamine moiety being part of a serine, threonine, hydroxylysine, 4-hydroxyornithine or 2,4-diamino-5-hydroxy valeric acid residue;
L is a spacer or a bond;
JD' is a linking moiety connecting the cytotoxic agent D with the group L;
D is a cytotoxic agent covalently linked to L through the linking moiety JD' or to CBA through JCB' when L is a bond; and w is 1, 2, 3 or 4.
[110] Any aldehyde reactive group can be used in the present invention. Exemplary aldehyde reactive groups include, but are not limited to, those described in R.C. Larock,
1999, Comprehensive Organic Transformations, 2nd Ed. Wiley- VCH.
[I l l] In one embodiment, the aldehyde reactive group is a hydrazine, a hydrazide or a hydroxylamine.
[112] In another embodiment, the aldehyde reactive group is selected from:
Figure imgf000029_0002
wherein: Xa is CH2, O or NCH3; U' is NH, O, S or CH2; U is H or an electron
Z Z' donating group; X and X ' are each independently -OH, -SH or -NH2; R and R are each independently H or an alkyl (preferably -Me); Rz" is H or an alkyl; and Xc is N or CH. More
specifically, the aldehyde reactive group
Figure imgf000030_0001
[113] In a 1st specific embodiment, for conjugates of structural formula (I) or a
pharmaceutically acceptable salt thereof, JCB' is represented by one of the following structural formulas:
Figure imgf000030_0002
; or sl
Figure imgf000031_0001
wherein: XA is CH2, O or NCH3; U' is NH, O, S or CH2; U is H or an electron donating group; tly Z Z'
XM and XM' are each independen -0-, -S- or -NH-; R and R are each independently H or an alkyl (preferably -Me); and R " is H or an alkyl; sl is the site covalently linked to the cell-binding agent; and s2 is the site covalently linked to the group
Figure imgf000031_0002
[114] In a 2n specific embodiment, for conjugates of formula (I) or a pharmaceutically acceptable salt thereof, -L-JD'- is represented by the following structural formula:
Figure imgf000031_0003
wherein:
s3 is the site covalently linked to the group JCB' ;
s4 is the site covalently linked to the group D;
Zai is absent, -S02NR9-, -NR9S02-, -C(=0)-NR9-, -NR9-C(=0)-, -(CH2CH2)p. NR9- C(=0)-,-C(=0)-NR9(CH2CH2)p., -(CH2CH2)P -C(=0)NR9-, -NR9C(=0)(CH2CH2)P -, -C(=0)- 0-, or -0-C(=0)-;
Za2 is absent, -S02NR9-, -NR9S02-, -C(=0)-NR9-, -NR9-C(=0)-, -C(=0)-0-, - 0-C(=0)-, -C(=0)-NR9-(CH2CH20)P-, -NR9-
C(=0)-(CH2CH20)p-, -(OCH2CH2)p-C(=0)NR9-, or -(OCH2CH2)p-NR9-C(=0)-;
R9 is H or an optionally substituted alkyl; p and p' are each independently an integer from 1 to 10;
Q is H, a charged substituent or an ionizable group;
Rai , Ra2, Ra3, Ra4, for each occurrence, are independently H or an optionally substituted alkyl;
ql and rl are each independently an integer from 0 to 10, provided that ql and rl are not both 0; and the remaining variables are as described above in the first embodiment or the 1st specific embodiment or any more specific embodiments described therein.
[115] In one embodiment, Q is i) H; ii) -S03H, -Z'-S03H, -OP03H2, -Z'-OP03H2, -P03H2, - Z'-P03H2, -C02H, -Z'-C02H, -NRnRi2, or -Z'-NRnRi2, or a pharmaceutically acceptable salt thereof; or, iii) -N+Ri4Ri5Ri6X or -Z'-N+Ri4RisRi6X ; Z' is an optionally substituted alkylene, an optionally substituted cycloalkylene or an optionally substituted phenylene; Ri4 to Ri6 are each independently an optionally substituted alkyl; X" is a pharmaceutically acceptable anion; and the remaining variables are as described above in the 2nd specific embodiment. More specifically, Q is -S03H or -C02H or a pharmaceutically acceptable salt thereof.
[116] In another embodiment, Zal is absent; Za2 is
Figure imgf000032_0001
and the remaining variables are as described above in any embodiments of the 2nd specific
embodiment. More specifically, R9 is H.
[117] In yet another embodiment, Zal and Z^ are both absent; and the remaining variables are as described above in any embodiments of the 2nd specific embodiment.
[118] In another embodiment, Ral, R^, R^ and Ra4 are all -H; q and r are each
independently an integer from 0 to 4; and the remaining variables are as described above in any embodiments of the 2nd specific embodiment.
[119] In yet another embodiment, for conjugates of formula (I) or a pharmaceutically acceptabl
Figure imgf000032_0002
or a pharmaceutically acceptable salt thereof; and the remaining variables are as described above in the first embodiment or the 1st specific embodiment or any more specific
embodiments described therein. [120] In a 3r specific embodiment, for conjugates of formula (I) or a pharmaceutically acceptable salt thereof, -L-JD'- is represented by the following structural formula:
Figure imgf000033_0001
wherein:
s3 is the site covalently linked to the group JCB' group;
s4 is the site covalently linked to the group D;
Z i and Z 2 are each independently absent, -S02NRg-, -NRgS02-,
Figure imgf000033_0002
-NR9-C(=0)-, -C(=0)-0-, -0-C(=0)-, -CH2-0-, -0-CH2-, -(CH2CH20)p- or -(OCH2CH2)p -, -NR9-C(=0)-CH2-, or
Figure imgf000033_0003
wherein p and p' are independently an integer from 1 to 1000;
one of Ei and E2 is -C(=0)-, and the other is -NR9-; or one of Ei and E2 is -C(=0)- or -NR9-, and the other is absent;
R9 is H or an optionally substituted alkyl;
P is [XX] 1-10, in which each XX is a residue of an independently selected amino acid, or P is -(NRm-CH2CH2)s-;
s is an integer from 1 to 5;
Rmis H, or alkyl optionally substituted with a charged substituent or an ionizable group;
Rbi, ¾2, ¾3, Rb4, Rb5 and Rb6, for each occurrence, are each independently H or an optionally substituted alkyl;
ml and nl, for each occurrence, are independently an integer from 0 to 10; and the remaining variables are as described above in the first embodiment or the 1st specific embodiment or any more specific embodiments described therein.
[121] In one embodiment, for conjugates of formula (I) or a pharmaceutically acceptable salt thereof, -L-JD'- is represented by the following structural formula:
Figure imgf000033_0004
wherein:
Zbl and Zb2 are both absent, or one of Zbl and Zb2 is absent and the other is -CH2- O- or -0-CH2-;
nl is an integer from 1 to 6; and the remaining variables are as described above in the first embodiment or the 1st specific embodiment or any more specific embodiments described therein. More specifically, RM and Rb2 are both H.
[122] In another embodiment, for conjugates of formula (I) or a pharmaceutically acceptable salt thereof, -L-JD'- is represented by the following structural formula:
Figure imgf000034_0001
wherein:
Zbi and Zb2 are each independently absent, -CH2-0- , -0-CH2-, -NR9-C(=0)-CH2-, or -CH2- C(=0)-NR9-;
nl and ml are each independently an integer from 1 to 6; and the remaining variables are as described above in the first embodiment or the 1st specific embodiment or any more specific embodiments described therein.
[123] In a more specific embodiment, for formula (L2) described in any embodiments above, ZM and Zb2 are both absent. In yet another more specific embodiment, for formula (L2) described above, ZM is -CH2-0-; and Zb2 is absent. Alternatively, for formula (L2) described above, ZM is
Figure imgf000034_0002
and Zb2 is -0-CH2- or absent. Even more specifically, R9 is-H.
[124] In one embodiment, for formula (L2) described in any embodiments above, P is
[XX]2_4. In yet another specific embodiment, for formula (L2) described in any embodiments above, P is [XX] 2 or [XX] 3. Each XX as used herein is a residue of an independently selected amino acid.
[125] In another embodiment, for formula (L2) described in any embodiments above, P is a peptide cleavable by a protease. More specifically, P is a peptide cleavable by a protease expressed in tumor tissue. In yet another more specific embodiment, P is a peptide cleavable by a lysosomal protease.
[126] In yet another embodiment, for formula (L2) described in any embodiments above, P is selected from the group consisting of: Val-Cit, Val-Lys, Phe-Lys, Lys-Lys, Ala-Lys, Phe- Cit, Leu-Cit, Lle-Cit, Trp, Cit, Phe-Ala, Phe-N -tosyl-Arg, Phe-N -nitro-Arg, Phe-Phe-Lys, D-Phe-Phe-Lys, Gly-Phe-Lys, Leu-Ala-Leu, Ile-Ala-Leu, Val-Ala-Val, Ala-Leu-Ala-Leu (SEQ ID NO: 17), β-Ala-Leu- Ala-Leu (SEQ ID NO: 18), Gly-Phe-Leu-Gly (SEQ ID NO: 19), Val-Arg, Arg-Val, Arg-Arg, Val-D-Cit, Val-D-Lys, Val-D-Arg, D-Val-Cit, D-Val-Lys, D-Val-Arg, D- Val-D-Cit, D-Val-D-Lys, D- Val-D-Arg, D-Arg-D-Arg, Ala-Ala, Ala-D-Ala, D-Ala-Ala, and D- Ala-D-Ala., Gly-Gly-Gly, Ala- Ala- Ala, d- Ala- Ala- Ala, Ala-d-Ala-Ala, Ala-Ala-d-Ala, Ala-Val-Cit, and Ala-Val-Ala. More specifically, P is Gly-Gly-Gly, Ala- Ala- Ala, d- Ala- Ala- Ala, Ala-d-Ala-Ala, Ala-Val-Ala, Gly-Gly or Ala- Ala.
[127] In another embodiment, for conjugates of formula (I) or a pharmaceutically accept
Figure imgf000035_0001
and the remaining variables are as described in the first embodiment or the 1st specific embodiment or any more specific embodiments described therein.
[128] In a 4th specific embodiment, for conjugates of formula (I) or a pharmaceutically acceptable salt thereof, -L-JD'- is represented by the following structural formula: s3 ZC1-A— Q-L'-f Q')-A'— JD'— ¾ s4
k (L4);
s3 is the site covalently linked to the group JCB' ;
s4 is the site covalently linked to the group D;
Zci is absent, -S02NR9-, -NR9S02-, -C(=0)-NR9-, -NR9-C(=0)-, -C(=0)-0-, -0-C(=0)-, -CH2-0-, -0-CH2-, -(CH2CH20)p- or -(OCH2CH2)p -,
wherein p and p' are independently an integer from 1 to 1000;
Figure imgf000036_0001
the site covalently linked to the cytotoxic agent D, s2' is the site covalently linked to the group A';
A and A' are each independently an optionally substituted alkylene, an optionally substituted alkenylene, an optionally substituted alkynylene, an optionally substituted cycloalkylene, an optionally substituted cycloalkenylene or an optionally substituted cycloalkynylene;
Q is -ZrP-Z2-;
Q' is -Zi'-P'-Z^-;
one of Zi and Z2 is -C(=0)-, and the other is -NRh-;
one of Zi' and Z2' is -C(=0)-, and the other is -NRh -;
P and P' are each independently absent, an optionally substituted alkylene, -(CH2- CH2-0)j-, -(0-CH2-CH2)j-, or [XX]i_i0, in which each XX is a residue of an independently selected amino acid;
j is an integer between 1 and 500;
k is 0 or 1 ;
L is -(CR5R6)v-, -(CR7R8)q-N(Rg)-(CR9R10)r-, -(CR7R8)q-C(Ra)(Rg)-(CR9R10)r or -(CRiiRi2)s-N(Rg)-(CRi3Ri4)t-N(Rg')-(CRi5Ri6)u-,;
Rg and Rg' are each independently -(CRi7Ris)p-Z-V;
p is an integer between 1 and 5;
V is H, a charged substituent or an ionizable group;
Z is absent, -C(=0)NRh-alkylene- or -NRh-C(=0)-alkylene-;
Rh and Rh', for each occurrence, are independently H or an optionally substituted alkyl;
R5 to Rig, for each occurrence, are independently H or an optionally substituted alkyl; q, r, s, t, u and v are each independently an integer between 0 and 10; and the remaining variables are as described above in the first embodiment or the Is specific embodiment or any more specific embodiments described therein.
[129] In one embodiment, for conjugates of formula (I) or a pharmaceutically acceptable salt thereof, -L-JD'- is represented by the following structural formula:
■(C R19R20)m-Q-L-fQ')— (CR21 R22)n_j ■ £ s4
(L5);
Figure imgf000037_0001
wherein:
Ri9 to R22, for each occurrence, are independently H or an optionally substituted alkyl; m and n are each independently 0 to 10; and the remaining variables are as described above in the first embodiment or the 1st specific embodiment. More specifically, R19 to R22 are each H; R5 and R6 are each H; R7 to Rio are each H; and Rn to Ri6 are each H.
[130] In one embodiment, for formulas (L4)-(L11), P and P', for each occurrence, are independently [XX] 1-10. More specifically, P and P', for each occurrence, are independently [XX]2_5; and the remaining variables are as described above.
[131] In another embodiment, for formulas (L4)-(L11), P and P' are each a peptide cleavable by a protease. In yet another embodiment, P and P' are each a peptide cleavable by a protease expressed in tumor tissue. Alternatively, P and P' are each a peptide cleavable by a lysosomal protease.
[132] In yet another embodiment, for formulas (L4)-(L1 1), P and P' are each selected from the group consisting of: Val-Cit, Val-Lys, Phe-Lys, Lys-Lys, Ala-Lys, Phe-Cit, Leu-Cit, Lle- Cit, Trp, Cit, Phe-Ala, Phe-N9-tosyl-Arg, Phe-N9-nitro-Arg, Phe-Phe-Lys, D-Phe-Phe-Lys, Gly-Phe-Lys, Leu-Ala-Leu, Ile-Ala-Leu, Val-Ala-Val, Ala-Leu-Ala-Leu (SEQ ID NO: 17), β-Ala-Leu-Ala-Leu (SEQ ID NO: 18), Gly-Phe-Leu-Gly (SEQ ID NO: 19), Val-Arg, Arg- Val, Arg-Arg, Val-D-Cit, Val-D-Lys, Val-D-Arg, D-Val-Cit, D- Val-Lys, D- Val-Arg, D-Val- D-Cit, D-Val-D-Lys, D- Val-D-Arg, D-Arg-D-Arg, Ala-Ala, Ala-D-Ala, D-Ala-Ala, and D- Ala-D-Ala., Gly-Gly-Gly, Ala- Ala- Ala, D- Ala- Ala- Ala, Ala-D-Ala-Ala, Ala-Ala-D-Ala, Ala-Val-Cit, Ala-Val-Ala, and β-Ala-Gly-Gly-Gly. More specifically, P and P' are each Gly- Gly-Gly, Ala- Ala- Ala, D- Ala-Ala-Ala, Ala-D- Ala-Ala, Ala-Val-Ala, or β-Ala-Gly-Gly-Gly.
[133] In certain embodiments, [XX] in any embodiments described above, for each occurrence, is the residue of an independently selected amino acid selected from: a naturally occurring amino acid, a synthetic amino acid, an amino acid analog, or an amino acid mimetic that functions in a manner similar to the naturally occurring amino acids.
[134] In certain embodiments, [XX] in any embodiments described above, for each occurrence, is the residue of an independently selected amino acid selected from the group consisting of: Histidine, Alanine, Isoleucine, Arginine, Leucine, Asparagine, Lysine, Aspartic acid, Methionine, Cysteine, Phenylalanine, Glutamic acid, Threonine, Glutamine,
Tryptophan, Glycine, Valine, Proline, Serine, Tyrosine, N-methyl-Histidine, N-methyl- Alanine, N-methyl-Isoleucine, N-methyl-Arginine, N-methyl-Leucine, N-methyl-Asparagine, N-methyl-Lysine, N-methyl-Aspartic acid, N-methyl-Methionine, N-methyl-Cysteine, N- methyl-Phenylalanine, N-methyl-Glutamic acid, N-methyl-Threonine, N-methyl-Glutamine, N-methyl-Tryptophan, N-methyl-Glycine, N-methyl-Valine, N-methyl-Proline, N-methyl- Serine, N-methyl-Tyrosine, hydroxyproline, γ-carboxyglutamate, selinocysteine, O- phosphoserine, homoserine, norleucine, methionine sulfoxide, methionine methyl sulfonium, citrulline, Ornithine, cysteine sulfonic acid, cysteine sulfinic acid, 3-aminoalanine, 3- dimethylaminoalanine, 2-amino-4-(dimethylamino)butanoic acid, 2,4-diaminobutanoic acid, 2-amino-6-(dimethylamino)hexanoic acid, 2-amino-5-(dimethylamino)pentanoic acid, and β- alanine, each independently as an L or D isomer. More specifically, each XX is
independently the residue of a glycine or an alanine.
[135] In a 5th specific embodiment, for conjugates of formula (I), D is a maytansinoid; and the remaining variables are as described above in the first embodiment or the 1st, 2nd, 3rd or 4fl embodiment or any more specific embodiments describe therein.
[136] In a more specific embodiment, D is a maytansinoid represented by the following structural formula:
Figure imgf000039_0001
wherein:
RM, RM\ and RM'\ for each occurrence, are independently H or an optionally substituted alkyl;
Ri', R2', R3' and R4' for each occurrence, are independently H, an optionally substituted an optionally substituted alkyl, an optionally substituted alkenyl, an optionally substituted cycloalkyl, an optionally substituted heterocyclyl, an optionally substituted aryl, or an optionally substituted heteroaryl;
i is an integer between 0 and 15; and
s5 is the site covalently linked to the group JD';
-L-JD'- are as described above in the first embodiment, or the 2nd or 4th specific embodiment or more specific embodiments described therein.. [137] More specifically, D is represented by the following structural formula:
or
Figure imgf000040_0001
[138] In yet another specific embodiment, D is a represented by the following structural formula:
Figure imgf000040_0002
wherein: RM, and RM", for each occurrence, are independently H or an optionally substituted alkyl; s5 is the site covalently linked to the group JD'; and -L-JD'- are as described above in the first embodiment, or the 3rd specific embodiment or any more specific embodiments described therein.
[139] More specifically, D is represented by the following structural formula:
Me
\
O N N- A [140] In a 6 specific embodiment, D is a benzodiazepine compound; and the remaining variables are as described above in the first embodiment or the 1st, 2nd, 3rd or 4th embodiment or any more specific embodiments describe therein. Exemplary benzodiazepine compounds include, but are not limited those described in US Patent Nos. 8,765,740, 8,426,402, US2014/0088089, WO2011/130613, WO2011/130616, WO2010/091150, and
WO2009/016516. The entire teachings of these references are incorporated herein by reference.
[141] In a more specific embodiment, D is a benzodiazepine compound represented by the following structural formula:
Figure imgf000041_0001
(D9);
Figure imgf000042_0001
wherein:
the double line ="= between N and C represents a single bond or a double bond, provided that when it is a double bond, X is absent and Y is -H, and when it is a single bond, X is selected from -H, the linking group with the reactive group bonded thereto, or an amine protecting group (preferably X is -H);
Y is selected from -H, -OR, -OCOR', -SR, -NR'R," -S03M, -S02M or -OS03M, wherein M is -H or a cation such as Na+ or K+; R is -H, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms or a PEG group -(CH2CH20)n-Rc, wherein n is an integer from 1 to 24, and Rc is a linear or branched alkyl having 1 to 4 carbon atoms;
R' and R" are the same or different, and are selected from -H, -OH, -OR, -NRRg , - COR, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, an optionally substituted aryl having from 6 to 18 carbon atoms, an optionally substituted 3- to 18-membered heterocyclic ring having 1 to 6 heteroatoms selected from O, S, N and P, a PEG group -(CH2CH20)n-Rc, wherein n is an integer from 1 to 24, preferably n is 2, 4 or 8; and Rg is -H, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms or a PEG group -(CH2CH20)n-Rc;
X' is selected from the group consisting of -H, -OH, a substituted or unsubstituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, phenyl, and an amine-protecting group;
Y' is selected from the group consisting of -H, an oxo group, a substituted or unsubstituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms;
A and A' are selected from -O- and -S-;
W is absent, or selected from -0-, -N(Re)-, -N(Re)-C(=0)-, -N(C(=0)Re)-, -S- or - CH2-S-, -CH2NRe-;
Rx is absent or selected from a linear, branched or cyclic alkyl having 1 to 10 carbon atoms;
Re is -H, a linear, branched or cyclic alkyl, alkenyl or alkynyl having 1 to 10 carbon atoms or -(CH2-CH2-0)n-Rk, wherein Rk is a -H, a linear, branched cyclic alkyl having 1 to 6 carbon atoms, optionally bearing a secondary amino (e.g. , -NHR101) or tertiary amino (- NR101R102) group or a 5- or 6-membered nitrogen containing heterocycle, such as piperidine or morpholine, wherein R101 and R102 are each independently a linear, branched, or cyclic alkyl, alkenyl or alkynyl having 1 to 10 carbon atoms; and
G is selected from -CH- or -N-;
X" and X'" are the same or different, and are independently selected
from -((¾)„-, -NR'-, -CO-, -BH-, -SO- or -S02-;
Y" and Y'" are the same or different, and are independently selected
from -O, -((¾)„-, -NR'- or -S-;
Z" and Z' " are the same or different, and are independently selected
from -((¾)„-, -CR7'R8'-, -NR9'-, -0-, and -S-; n' is selected from 0, 1, 2 and 3;
R7' and R8' are the same or different, and are each independently selected
from -H, -OH, -SH, -COOH, -NHR' , a polyethylene glycol unit -(OCH2CH2)N-, an amino acid, a peptide unit bearing 2 to 6 amino acids, an optionally substituted linear, branched or cyclic alkyl having from 1 to 10 carbon atoms;
R9' is independently selected from -H, an optionally substituted linear, branched or cyclic alkyl having from 1 to 10 carbon atoms, a polyethylene glycol unit -(OCH2CH2)N-;
RA, RA', RB and RB- are the same or different, and are independently selected from the group consisting of -H, halide, or an optionally substituted branched, linear or cyclic alkyl having 1 to 10 carbon atoms; or RA and RA- and/or RB and RB- together form a double bond containing group =B and =B' respectively;
=B and =B' are the same or different and independently selected from an optionally substituted branched or linear alkenyl or a carbonyl group;
Figure imgf000044_0001
QAI and QAI' are each independently absent, a linear, branched or cyclic alkyl from 1 to 6 carbon atoms or a -CH=CH unit;
Ar and Ar' are each independently absent, or represent an aryl group;
QA2 and QA2' are each independently selected from -H, the linking group with the reactive group bonded thereto, a substituted or unsubstituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, a polyethylene glycol unit -RC - (OCH2CH2)N-RC, or a substituent selected from a halogen, guanidinium [-NH(C=NH)NH2] , - OR, -NR'R" , -N02, -NCO, -NR'COR" , -SR, a sulfoxide represented by -SOR' , a sulfone represented by -S02R' , a sulfonate -SO3M, a sulfate -OSO3M, a sulfonamide represented by S02NR'R" , cyano, an azido, -COR' , -OCOR' or -OCONR'R" ; and
RC is absent or selected from linear or branched alkyl, alkenyl or alkynyl having 1 to 5 carbon atoms.
[142] In yet another more specific embodiment, D is represented by the following structural formula:
Figure imgf000044_0002
(D15);
Figure imgf000045_0001
or a pharmaceutically acceptable salt thereof, wherein RA" and RB" are the same or different, and are selected from -H and -Me; and the remaining variables are as described above.
[143] In certain embodiments, for formulas (D6)-(D17), the double line =■= between N and C represents a single bond or a double bond, provided that when it is a double bond X is absent and Y is -H, and when it is a single bond, X is -H; Y is -OH or -SO3M;
M is -H or a pharmaceutically acceptable cation (e.g., Na+);
X' and Y' are both -H;
A and A' are both -0-;
R6 is -OMe; and
Rx is a linear or branched alkyl having 1 to 6 carbon atoms.
[144] In a more specific embodiment, D is represented by the following structural formula:
Figure imgf000045_0002
Figure imgf000046_0001
or a pharmaceutically acceptable salt thereof, wherein Y is -H or -SO3M, and M is H+ or a cation. Even more specifically, Y is -SO3M, and M is H+, Na+ or K+.
[145] In a 7th specific embodiment, for the conjugates of formula (I), -L-JD'- is a bond; and D is represented by the following structural formula:
Figure imgf000046_0002
Figure imgf000047_0001
or a pharmaceutically acceptable salt thereof, wherein:
one of L', L", and L' " is represented by the following formula: s5 — NR5-P-C(=0)-(CRaRb)r-Zdl-(CRaRb)r^ s6
< (A) and the other two are the same or different, and are independently selected from -H, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, a polyethylene glycol unit -(OCH2CH2)n-Rc, halogen, guanidinium [- NH(C=NH)NH2], -OR, -NR'R", -N02, -NR'COR", -SR, -SOR', -S02R', -S03H, -OS03H, -S02NR'R", cyano, an azido, -COR', -OCOR', and -OCONR'R" ;
Zdi is absent, -C(=0)-NR9- or -NR9-C(=0)-;
P is an amino acid residue or a peptide containing between 2 to 20 amino acid residues;
Ra and Rb, for each occurrence, are independently -H, (Ci-C3)alkyl or a charged substituent or an ionizable group Q;
r and r' are independently an integer from 1 to 6;
the double line =■= between N and C represents a single bond or a double bond, provided that when it is a double bond X is absent and Y is -H, or a linear or branched alkyl having 1 to 4 carbon atoms, and when it is a single bond, X is -H or an amine protecting moiety;
Y is a leaving group selected from -OR, -OCOR', -OCOOR', -OCONR'R", -NR'R", -NR'COR", -NR'NR'R", an optionally substituted 5- or 6-membered nitrogen-containing heterocycle (e.g., piperidine, tetrahydropyrrole, pyrazole, morpholine, etc. attached through the nitrogen atom), a guanidinum represented by -NR'(C=NH)NR'R", an amino acid, or a peptide represented by -NRCOP', -SR, -SOR', halogen, cyano, azido, -OSO3H, sulfite (- SO3H or -SO2H), metabisulfite (H2S2O5), mono-, di-, tri-, and tetra- thiophosphate (PO3SH3, PO2S2H2, POS3H2, PS4H2), thio phosphate ester (R'O^PSCOR1), R;S-, R;SO, ^02, R'SOa, thiosulfate (HS203), dithionite (HS204), phosphorodithioate (P(=S)(ORk')(S)(OH)), hydroxamic acid (Rk C(=0)NOH), and formaldehyde sulfoxylate (HOCH2SO2 ) or a mixture thereof, wherein R1 is a linear or branched alkyl having 1 to 10 carbon atoms and is substituted with at least one substituent selected from -N(Rj)2, -C02H, -SO3H, and -P03H; R1 can be further optionally substituted with a substituent for an alkyl described herein; RJ is a linear or branched alkyl having 1 to 6 carbon atoms; Rk is a linear, branched or cyclic alkyl, alkenyl or alkynyl having 1 to 10 carbon atoms, aryl, heterocyclyl or heteroaryl;
P' is an amino acid residue or a polypeptide containing between 2 to 20 amino acid residue,
R, for each occurrence, is independently selected from the group consisting of -H, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, a polyethylene glycol unit -(CH2CH20)n-Rc, an optionally substituted aryl having 6 to 18 carbon atoms, an optionally substituted 5- to 18-membered heteroaryl ring containing one or more heteroatoms independently selected from nitrogen, oxygen, and sulfur, or an optionally substituted 3- to 18-membered heterocyclic ring containing 1 to 6 heteroatoms independently selected from O, S, N and P;
R' and R" are each independently selected from -H, -OH, -OR, -NHR, -NR2, -COR, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, a polyethylene glycol unit -(CH2CH20)n-Rc, and an optionally substituted 3- to 18-membered heterocyclic ring having 1 to 6 heteroatoms independently selected from O, S, N and P;
Rc is -H or an optionally substituted linear or branched alkyl having 1 to 4 carbon atoms;
n is an integer from 1 to 24;
X' is selected from -H, an amine-protecting group, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, a polyethylene glycol unit -(CH2CH20)n-Rc, an optionally substituted aryl having 6 to 18 carbon atoms, an optionally substituted 5- to 18-membered heteroaryl ring containing one or more heteroatoms independently selected from nitrogen, oxygen, and sulfur, and an optionally substituted 3- to 18-membered heterocyclic ring containing 1 to 6 heteroatoms independently selected from O, S, N and P;
Y' is selected from -H, an oxo group, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, an optionally substituted 6- to 18-membered aryl, an optionally substituted 5- to 18-membered heteroaryl ring containing one or more heteroatoms independently selected from nitrogen, oxygen, and sulfur, an optionally substituted 3- to 18-membered heterocyclic ring having 1 to 6 heteroatoms;
Ri, R2, R3, R4, Ri', R2', R3' and R4' are each independently selected from the group consisting of -H, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, a polyethylene glycol unit -(OCH2CH2)n-Rc, halogen, guanidinium [-NH(C=NH)NH2] , -OR, -NR'R", -N02, -NCO, -NR'COR", -SR, -SOR', - S02R', -S03 "H, -OS03H, -S02NR'R", cyano, an azido, -COR', -OCOR', and - OCONR'R" ;
R6 is -H, -R, -OR, -SR, -NR'R", -N02, or halogen;
A and A' are the same or different, and are independently selected from -0-, oxo (- C(=0)-), -CRR'O-, -CRR'-, -S-, -CRR'S-, -NR5 and -CRR'N(R5)-; and
R5 and R9 are each independently -H or an optionally substituted linear or branched alkyl having 1 to 10 carbon atoms; and the remaining variables are as described above in the first embodiment or the 1st specific embodiment or any more specific embodiments described therein.
[146] In a more specific embodiment, for formulas (D18)-(D23), L' is represented by formula (A) and L" and L'" are both -H.
[147] In another more specific embodiment, for formulas (D18)-(D23):
the double line =■= between N and C represents a single bond or double bond, provided that when it is a double bond X is absent and Y is -H, and when it is a single bond, X is -H, Y is -OH or -S03M;
Ri, R2, R3, R4, Ri', R2', R3' and R4' are all -H;
R6 is -OMe;
X' and Y' are both -H; A and A' are -0-; and
M is H+, Na+ or K+; and the remaining variables are as described above in the 7th specific embodiment or any more specific embodiments described above.
[148] In yet another more specific embodiment, for formulas (D18)-(D23), Ra and Rb are both H; and the remaining variables are as described above in the 7th specific embodiment or any more specific embodiments described above.
[149] In another more specific embodiment, for formulas (D18)-(D23), R5 and Rg are each independently H or Me; and the remaining variables are as described above in the 7th specific embodiment or any more specific embodiments described above. More specifically, R5 and R9 are both H.
[150] In another more specific embodiment, for formulas (D18)-(D23), P is a peptide containing 2 to 10 amino acid residues; and the remaining variables are as described above in the 7th specific embodiment or any more specific embodiments described above. More specifically, P is a peptide containing 2 to 5 amino acid residues. Even more specifically, P is elected from Gly-Gly-Gly, Ala-Val, Val-Ala, Val-Cit, Val-Lys, Phe-Lys, Lys-Lys, Ala-Lys, Phe-Cit, Leu-Cit, Lle-Cit, Trp, Cit, Phe-Ala, Phe-N9-tosyl-Arg, Phe-N9-nitro-Arg, Phe-Phe- Lys, D-Phe-Phe-Lys, Gly-Phe-Lys, Leu- Ala-Leu, He- Ala-Leu, Val- Ala-Val, Ala-Leu- Ala- Leu (SEQ ID NO: 17), β-Ala-Leu-Ala-Leu (SEQ ID NO: 18) and Gly-Phe-Leu-Gly (SEQ ID NO: 19), Val-Arg, Arg-Val, Arg-Arg, Val-D-Cit, Val-D-Lys, Val-D-Arg, D- Val-Cit, D-Val- Lys, D-Val-Arg, D-Val-D-Cit, D-Val-D-Lys, D- Val-D-Arg, D-Arg-D-Arg, Ala-Ala, Ala-D- Ala, D-Ala-Ala, and D-Ala-D-Ala.
[151] In another more specific embodiment, for the conjugates of formula (I), -L-JD'-D is represented by the following structural formula:
Figure imgf000051_0001
Figure imgf000051_0002
or a pharmaceutically acceptable salt thereof, wherein Y is H or -S03M and M is H+, Na+ or K+.
[152] In a 8th specific embodiment, the conjugates of formula (I) is represented by the following structural formulas:
Figure imgf000051_0003
Figure imgf000052_0001
Figure imgf000053_0001
Figure imgf000054_0001
Figure imgf000054_0002
Figure imgf000055_0001
55
Figure imgf000056_0001
Figure imgf000057_0001

Figure imgf000058_0001

Figure imgf000059_0001

Figure imgf000060_0001
Figure imgf000061_0001
Figure imgf000062_0001
Figure imgf000062_0002
Figure imgf000063_0001
Figure imgf000063_0002
Figure imgf000063_0003
Figure imgf000063_0004
(66); 63
Figure imgf000064_0001
Figure imgf000064_0002
64
Figure imgf000065_0001
Figure imgf000065_0002
65
Figure imgf000066_0001
Figure imgf000067_0001
Figure imgf000067_0002
Figure imgf000067_0003
Figure imgf000067_0004
(82).
[153] The CBA in the conjugates of any one of the embodiments described above, such as the first embodiment or the 1 t to 8th specific embodiments or any more specific embodiments described therein, may be any cell-binding agents described herein, such as those described in the second embodiment below. [154] In certain embodiment, the conjugates of any one of the embodiments described above, such as the first embodiment or the 1st to 8th specific embodiments or any more specific embodiments described therein, may comprise 1-4 cytotoxic agent molecules bound per cell-binding agent (e.g. , antibody) molecule. In certain embodiment, the conjugates may comprise 2 or 4 cytotoxic agent molecules per cell-binding agent molecule. The number of cytotoxic agent molecules bound per cell-binding agent (e.g. , antibody) molecule can be determined spectroscopically by measuring the ratio of the absorbance at 280 nm and 252 nm for maytansinoid compounds, and the ratio of the absorbance at 280 nm and 330 nm for benzodiazepine compounds. Alternatively, the number of cytotoxic agent molecule bound per cell-binding agent (e.g. , antibody) molecule can be determined by mass spectrometry.
[155] The present invention further provides a composition comprising the conjugates of any one of the embodiments described above, such as the first embodiment or the 1st to 8th specific embodiments or any more specific embodiments described therein. In certain embodiments, at least about 50%, 60%, 70%, 80%, 90%, 95%, 99%, 99.5%, 99.9% or more of the conjugates in the composition have 2 or 4 cytotoxic agents covalently linked to each CBA. In certain embodiments, in the composition described above, no more than about 20%, 15%, 10% , 9%, 8%, 7%, 6%, 5%, 4%, 3%, 2%, 1%, 0.5% or 0.1% of the conjugates have only 1 cytotoxic agent covalently linked to each CBA.
CELL BINDING AGENT
[156] In a second embodiment, the invention provides a cell-binding agent (CBA) for preparing the cell-binding agent-cytotoxic agent conjugates described herein. Such CBA may be a protein (e.g. , a protein found in nature, or an engineered or recombinant protein), such as an antibody, an antigen-binding portion thereof (which may include an antibody derivative), or an antibody mimetic protein. The N-terminus of such proteinaceous CBA may comprise a 2-hydroxyethylamine moiety that may be part of a serine, threonine,
hydroxylysine, 4-hydroxyornithine or 2,4-diamino-5-hydroxy valeric acid residue. The 2- hydroxyethylamine moiety can be oxidized using the methods of the invention to become an aldehyde group, which can then react with an aldehyde reactive group to form the subject conjugates.
[157] In a related aspect, the invention also provides certain engineered proteinaceous CBA, such as engineered antibody, antigen-binding portion thereof (or antibody derivative), or antibody mimetic protein, which may have a Ser or Thr as the N-terminal residue, as opposed to a non-Ser, non-Thr natural sequence of such antibody, antigen-binding portion thereof (or antibody derivative), or antibody mimetic protein.
[158] The N-terminal Ser / Thr can be added by inserting a Ser / Thr codon immediately after a signal peptide sequence. Such signal peptide sequence may be the natural signal peptide for the antibody, antigen-binding portion thereof (or antibody derivative), or antibody mimetic protein, or may be a heterologous signal peptide fused N-terminal to the mature processed sequence of the antibody, antigen-binding portion thereof (or antibody derivative), or antibody mimetic protein.
[159] Here, "mature processed sequence (e.g. , of recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof)" refers to the processed sequence of certain secreted proteins - such as the recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof - which secreted proteins are synthesized with an N- terminal signal peptide (either a naturally occurring one, or a heterologous one fused N- terminal using recombinant technology). After the normal maturation process, including cleavage of the signal peptide, the resulting mature processed sequence generally lacks all signal peptide sequences.
[160] SEQ ID NOs: 1 and 6 may be used as such natural or heterologous signal peptides. Additional sequence changes to the N-terminal residues in the mature processed sequence of the antibody, antigen-binding portion thereof (or antibody derivative), or antibody mimetic protein may be present, so long as the N-terminal residue, after signal peptide cleavage, is Ser/Thr.
[161] Specifically, the N-terminal Ser / Thr can be added by using a specific signal peptide sequence obtained from the light chain signal peptide of a murine anti-FOLRl antibody FR1- 2.1 (produced by the hybridoma deposited with the ATCC on April 16, 2013 and having ATCC deposit no. PTA- 120197), which signal peptide is represented by SEQ ID NO: 1. It was surprisingly found that this signal peptide sequence is uniquely processed to leave behind its last Ser as the N-terminal residue of the mature processed sequence of the protein.
[162] Regardless of whether the N-terminal Ser/Thr is naturally existing in the CBA, or is engineered using any of the recombinant technology described herein, another aspect of the invention further provides a modified CBA (e.g., a modified antibody, antigen-binding portion thereof (or antibody derivative), or antibody mimetic protein) in which its N-terminal Ser/Thr has been oxidized to an aldehyde group. In certain embodiments, the aldehyde is derived from the oxidation of N-terminal Ser/Thr on the heavy chain of an antibody or an antigen-binding portion thereof. The oxidation can be done using any of the methods of the invention described herein. Such modified CBA can react with a linker bearing an aldehyde reactive group (such as those described herein) to form the conjugates of the invention.
[163] Thus the invention also provides a method of making a conjugate of the invention described herein, using a modified CBA of the invention (e.g. , an antibody, antigen-binding portion thereof (or antibody derivative), or antibody mimetic protein). The invention further provides a polynucleotide encoding any of the engineered CBA (e.g. , an antibody, antigen- binding portion thereof (or antibody derivative), or antibody mimetic protein) that produces a mature processed sequence of the CBA with an N-terminal Ser/Thr.
[164] In certain embodiments, the aldehyde group is located at the N-terminus of the proteinaceous CBA (e.g., antibody or antigen-binding portion thereof). For example, the N- terminal aldehyde group can be derived from oxidation of an N-terminal serine or threonine.
[165] In one embodiment, the N-terminal serine or threonine may be naturally existing in the proteinaceous CBA (e.g. , antibody or antigen-binding portion thereof). For example, the antibody or antigen-binding portion thereof may comprise a light chain sequence of SEQ ID NO: 3, or a light chain sequence derived from the same mouse germ line sequence that encodes the signal peptide of SEQ ID NO: 1. In a related embodiment, the antibody or antigen-binding portion thereof is a chimeric, humanized, or human antibody or antigen- binding portion thereof of a murine antibody or antigen-binding portion thereof comprising a light chain sequence of SEQ ID NO: 3, or a light chain sequence derived from the same mouse germ line sequence that encodes the signal peptide of SEQ ID NO: 1.
[166] Similarly, the antibody or antigen-binding portion thereof may comprise a light chain sequence derived from the murine IGKV6-32*01 sequence (i.e. , S IVMTQTPKFLLVS AGDRVT I TCKAS Q SVSNDVAWYQQKP GQ SPKLL I YYASNRYTGVPDRF TGS GYGTDF TF T I S TVQAEDLAVYFCQQDY S SP , SEQ ID NO: 20). In a related embodiment, the antibody or antigen-binding portion thereof is a chimeric, humanized, or human antibody or antigen- binding portion thereof of a murine antibody or antigen-binding portion thereof comprising a light chain sequence derived from the murine IGKV6-32*01 sequence of SEQ ID NO: 20.
[167] In addition, the antibody or antigen-binding portion thereof may comprise a light chain sequence derived from any one of the human Lambda V3 family of V gene sequences listed below (i.e. , SEQ ID NOs: 21-41). In a related embodiment, the antibody or antigen- binding portion thereof is a chimeric, humanized, or human antibody or antigen-binding portion thereof of a murine antibody or antigen-binding portion thereof comprising a light chain sequence derived from any one of the human Lambda V3 family of V gene sequences listed below.
Human Lambda V3 family of V gene sequences
IGLV3-1*01
SYELTQPPSVSVSPGQTAS ITCSGDKLGDKYACWYQQKPGQSPVLVIYQDSKRPSGIPERFS GSNSGNTATLTI SGTQAMDEADYYCQAWDSSTA (SEQ ID NO: 21)
IGLV3- 10*01
SYELTQPPSVSVSPGQTARITCSGDALPKKYAYWYQQKSGQAPVLVIYEDSKRPSGIPERFS GSSSGTMATLTISGAQVEDEADYYCYSTDSSGNHX (SEQ ID NO: 22)
IGLV3- 10*02
SYELTQPPSVSVSPGQTARITCSGDALPKKYAYWYQQKSGQAPVLVIYKDSKRPSGIPERFS GSSSGTMATLTI SGAQVEDEDDYYCYSADYSGN (SEQ ID NO: 23)
IGLV3- 12*01
SYELTQPHSVSVATAQMARITCGGNNIGSKAVHWYQQKPGQDPVLVIYSDSNRPSGIPERFS GSNPGNTTTLTI SRIEAGDEADYYCQVWDSSSDHP (SEQ ID NO: 24)
IGLV3- 12*02
SYELTQPHSVSVATAQMARITCGGNNIGSKAVHWYQQKPGQDPVLVIYSDSNRPSGIPERFS
GSNPGNTATLTI SRIEAGDEADYYCQVWDSSSDHP (SEQ ID NO: 25)
IGLV3-13*01
SYELTQPPAVSVSPGQTARI SCSGDVLRDNYADWYPQKPGQAPVLVIYKDGERPSGIPERFS GSTSGNTTALTI SRVLTKGGADYYCFSGD*NNL (SEQ ID NO: 26)
IGLV3- 16*01
SYELTQPPSVSVSLGQMARITCSGEALPKKYAYWYQQKPGQFPVLVIYKDSERPSGIPERFS GSSSGTIVTLTISGVQAEDEADYYCLSADSSGTYP (SEQ ID NO: 27)
IGLV3- 19*01
SSELTQDPAVSVALGQTVRITCQGDSLRSYYASWYQQKPGQAPVLVIYGKNNRPSGIPDRFS
GSSSGNTASLTITGAQAEDEADYYCNSRDSSGNHL (SEQ ID NO: 28)
IGLV3-21*01
SYVLTQPPSVSVAPGKTARITCGGNNIGSKSVHWYQQKPGQAPVLVIYYDSDRPSGIPERFS
GSNSGNTATLTI SRVEAGDEADYYCQVWDSSSDHP (SEQ ID NO: 29)
IGLV3-21*02
SYVLTQPPSVSVAPGQTARITCGGNNIGSKSVHWYQQKPGQAPVLVVYDDSDRPSGIPERFS GSNSGNTATLTI SRVEAGDEADYYCQVWDSSSDHP (SEQ ID NO: 30)
IGLV3-21*03
SYVLTQPPSVSVAPGKTARITCGGNNIGSKSVHWYQQKPGQAPVLVVYDDSDRPSGIPERFS
GSNSGNTATLTI SRVEAGDEADYYCQVWDSSSDHP (SEQ ID NO: 31)
IGLV3-22*01
SYELTQLPSVSVSPGQTARITCSGDVLGENYADWYQQKPGQAPELVIYEDSERYPGIPERFS GSTSGNTTTLTI SRVLTEDEADYYCLSGDEDNP (SEQ ID NO: 32)
IGLV3-25*01
SYELMQPPSVSVSPGQTARITCSGDALPKQYAYWYQQKPGQAPVLVIYKDSERPSGIPERFS
GSSSGTTVTLTISGVQAEDEADYYCQSADSSGTYP (SEQ ID NO: 33)
IGLV3-25*02
SYELTQPPSVSVSPGQTARITCSGDALPKQYAYWYQQKPGQAPVLVIYKDSERPSGIPERFS
GSSSGTTVTLTISGVQAEDEADYYCQSADSSGTYP (SEQ ID NO: 34)
IGLV3-25*03
SYELTQPPSVSVSPGQTARITCSGDALPKQYAYWYQQKPGQAPVLVIYKDSERPSGIPERFS
GSSSGTTVTLTISGVQAEDEADYYCQSADSSG (SEQ ID NO: 35)
IGLV3-27*01
SYELTQPSSVSVSPGQTARITCSGDVLAKKYARWFQQKPGQAPVLVIYKDSERPSGIPERFS
GSSSGTTVTLTI SGAQVEDEADYYCYSAADNNL (SEQ ID NO: 36)
IGLV3-31*01
SSELSQEPAVSVALG*TARITCQGDSIEDSVVNWYKQKPSQAPGLVI *LNSVQSSGIPKKFS
GSSSGNMATLTITGIQVEDKADYYCQSWDSSRTHS (SEQ ID NO: 37)
IGLV3-31*02
SSELSQEPAVSVSLG*TARITCQGDSIEDSVVNWYKQKPSQAPGLVI *LNSVQSSGIPKKFS
GSSSGNMATLTITGIQVEDKADYYCQSWDSSRTHS (SEQ ID NO: 38)
IGLV3-32*01
SSGPTQVPAVSVALGQMARITCQGDSMEGSYEHWYQQKPGQAPVLVIYDSSDRPSRIPERFS GSKSGNTTTLTITGAQAEDEADYYYQLIDNHAT (SEQ ID NO: 39)
IGLV3-9*01
SYELTQPLSVSVALGQTARITCGGNNIGSKNVHWYQQKPGQAPVLVIYRDSNRPSGIPERFS GSNSGNTATLTI SRAQAGDEADYYCQVWDSSTA (SEQ ID NO: 40) IGLV3-9*02
S YELTQP L SVSVALGQAARI TCGGNNLGYKSVHWYQQKP GQAPVLVI YRDNNRP S G I PERF S GSNS GNTATLT I SRAQAGDEADYYCQVWD S S TAHP (SEQ ID NO: 41)
[168] The humanized antibody or antigen-binding portion thereof may be resurfaced or CDR grafted antibody or antigen-binding portion thereof.
[169] In another embodiment, the N-terminal serine or threonine may be engineered into the proteinaceous CBA (e.g., antibody or antigen-binding portion thereof). For example, the antibody or antibody-binding portion thereof may be any one of the recombinant antibody of the invention described herein (see below).
[170] In certain embodiments, the N-terminal aldehyde group is located on one or both heavy chains of the antibody or antigen-binding portion thereof, or on one or both light chains of the antibody or antigen-binding portion thereof, or a combination thereof.
[171] In certain embodiments, the CBA is an antibody or an antigen-binding portion thereof. In certain embodiments, the antigen-binding portion may be Fab, F(ab)2, F(ab'), F(ab')2, F(ab')3, Fd, Fv, disulfide linked Fv, dAb or sdAb (or nanobody), CDR, scFv, (scFv)2, di-scFv, bi-scFv, tascFv (tandem scFv), AVIBODY (e.g., diabody, triabody, tetrabody), T- cell engager (BiTE), scFv-Fc, Fcab, mAb2, small modular immunopharmaceutical (SMIP), Genmab / unibody or duobody, V-NAR domain, IgNAR, minibody, IgGACH2, DVD-Ig, probody, intrabody, or a multispecificity antibody. In certain specific embodiments, the antigen-binding portion may be a single domain antibody (sdAb) or a nanobody.
[172] In certain embodiments, the CBA is an antibody mimetic, such as a DARPin, a Centyrin, an affibody, an affilin, an affitin, an anticalin, an avimer, a Fynomer, a Kunitz domain peptide, a monobody (or adnectin), a tribody, or a nanofitin. In certain specific embodiments, the CBA is a DARPin. In other specific embodiments, the CBA is a Centyrin. In yet another specific embodiments, the CBA is a monobody or adnectin. In certain embodiments, the CBA is a dual receptor retargeting (DART) molecule (P. A. Moore et al, Blood, 2011; 117(17):4542-4551; Veri MC et al, Arthritis Rheum., 2010 Mar 30;
62(7): 1933-43; Johnson, S et al, J. Mol. Biol, 2010 Apr 9;399(3):436-49) or a cell penetrating supercharged proteins (Methods in Enzymol. 502, 293-319 (2012).
[173] In another aspect, the invention provides a recombinant antibody heavy chain (HC), light chain (LC), or an antigen-binding portion thereof, comprising a heterologous signal peptide having an amino acid sequence of SEQ ID NO: 1.
[174] This aspect of the invention is partly based on the surprising finding that, SEQ ID NO: 1, the light chain signal peptide of antibody FRl-2.1, can be cleaved naturally just before the last Ser in SEQ ID NO: 1, thus leaving an N-terminal serine in the resulting processed polypeptide (e.g. , recombinant antibody heavy chain (HC), light chain (LC), or an antigen- binding portion thereof expressed with SEQ ID NO: 1 as the signal peptide). Thus the signal peptide of SEQ ID NO: 1 can be recombinantly fused to a heterologous polypeptide (e.g. , recombinant antibody heavy chain (HC), light chain (LC), or an antigen-binding portion thereof), and used in a general approach to produce polypeptides having an N-terminal Ser.
[175] In certain embodiments, the heterologous signal peptide is fused to the N-terminus of the mature processed sequence of the recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof.
[176] In certain embodiments, the heterologous signal peptide is fused to the 2nd amino acid residue of the N-terminus of the mature processed sequence of the recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof. Thus in this embodiment, the processed polypeptide does not have one extra amino acid residue due to the N-terminal Ser from SEQ ID NO: 1. In other related embodiments, the heterologous signal peptide is fused to the any residue (e.g. , the 3rd, 4th, 5th, etc.) of the N-terminal portion of the mature processed sequence of the recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof, resulting in "deletion" of one or more N-terminal residues, so long as the binding ability of the antibody or antigen-binding portion thereof is not substantially affected. Alternatively or in addition, one or more additional residues can be added after the N-terminal Ser, so long as the N-terminal residue is a Ser, such as the Ser from the last residue of SEQ ID NO: 1.
[177] In a related aspect, the invention provides a recombinant antibody heavy chain (HC), light chain (LC), or an antigen-binding portion thereof, comprising a Ser or Thr residue immediately C-terminal to the last residue of the (natural) signal peptide of the heavy chain (HC), light chain (LC), or antigen-binding portion thereof. This can be accomplished by inserting a codon for Ser or Thr immediately after the coding sequence for the natural signal peptide. For example, a Ser residue can be inserted immediately after the natural signal peptide sequence of the monoclonal antibody huMovl9 light chain or heavy chain, to create the sequence MGWS C I I LFLVATATGVH S S (SEQ ID NO: 42). After natural processing (cleavage) of the natural signal peptide sequence, the resulting N-terminal residue is expected to be Ser.
[178] For example, in certain embodiments, the Ser or Thr residue may be immediately N- terminal to the first residue of the mature processed sequence of the recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof.
[179] In another embodiment, the Ser or Thr residue replaces one or more N-terminal amino acid residue(s) of the mature processed sequence of the recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof. Alternatively or in addition, additional amino acid residues can be added, deleted, or replaced, so long as the 1st residue of the resulting polypeptide after signal peptide processing is Ser/Thr.
[180] Exemplary recombinant antibody heavy chain (HC), light chain (LC), or an antigen- binding portion thereof, may have a sequence of: SEQ ID NOs: 10 or 14. Others may include those comprising SEQ ID NO: 42.
[181] Yet another aspect of the invention provide a recombinant antibody comprising a mature processed sequence of the heavy chain, light chain, or antigen-binding portion thereof, derived from any one of the subject recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof described herein.
[182] For example, the recombinant antibody may be or may comprise an Fab, F(ab)2, F(ab'), F(ab')2, F(ab')3, Fd, Fv, disulfide linked Fv, dAb or sdAb (or nanobody), CDR, scFv, (scFv)2, di-scFv, bi-scFv, tascFv (tandem scFv), AVIBODY (e.g., diabody, triabody, tetrabody), T-cell engager (BiTE), scFv-Fc, Fcab, mAb2, small modular immu- nopharmaceutical (SMIP), Genmab / unibody or duobody, V-NAR domain, IgNAR, minibody, IgGACH2, DVD-Ig, probody, intrabody, or a multispecificity antibody. In certain specific embodiments, the antigen-binding portion may be a single domain antibody (sdAb) or a nanobody.
[183] In certain embodiments, the recombinant antibody may comprise 1, 2, 3, or 4 of the mature processed sequence of the heavy chain, light chain, or antigen-binding portion thereof, each derived from any one of the subject recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof described herein.
[184] In certain embodiments, the recombinant antibody may be a heterodimeric antibody comprising a first heavy chain polypeptide and a second heavy chain polypeptide, wherein the Fc region of the first heavy chain polypeptide and the Fc region of the second heavy chain polypeptide meet at an interface, and the interface of the Fc region of the second heavy chain polypeptide comprises a protuberance which is positionable in a cavity in the interface of the Fc region of the first heavy chain polypeptide. In certain embodiments, the knob-into-hole technology to promote specific pairing of heavy chains in the bi- specific antibody may be further improved based on, for example, the CrossMab technology of Genentech / Roche, e.g. , by swapping CHI and Kappa constant regions to further reduce or eliminate light chain mis-pairing.
[185] Alternatively, similar results can also be achieved using LC heterodimers, such as Zymeworks AZYMETRIC™ heterodimeric IgGi light chain platform technology that fully complements multiple other biologies approaches, including common light chain, domain antibody, and single chain formats, in the development of fully bi-specific antibodies.
[186] In certain embodiments, the Fc region of the second heavy chain polypeptide has been altered from a template/original polypeptide to encode the protuberance, or the Fc region of the first heavy chain polypeptide has been altered from a template/original polypeptide to encode the cavity, or both.
[187] In certain embodiments, the protuberance and the cavity each comprises a naturally occurring amino acid residue.
[188] In certain embodiments, the Fc region of the second heavy chain polypeptide comprising the protuberance is generated by replacing an original residue from the interface of a template/original polypeptide with an import residue having a larger side chain volume than the original residue.
[189] In certain embodiments, the Fc region of the second heavy chain polypeptide comprising the protuberance is generated by a method comprising a step wherein nucleic acids encoding an original residue from the interface of said polypeptide is replaced with nucleic acids encoding an import residue having a larger side chain volume than the original.
[190] Yet another aspect of the invention provides a modified antibody oxidized from an antibody having an N-terminal Ser or Thr on a mature processed sequence of the heavy chain, light chain, or antigen-binding portion thereof, wherein the N-terminal Ser or Thr has been oxidized to an aldehyde group in the modified antibody.
[191] In certain embodiments, the antibody is derived from a recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof comprising: (1) a
heterologous signal peptide having an amino acid sequence of SEQ ID NO: 1 ; (2) a Ser or Thr residue immediately N-terminal to the first residue of the mature processed sequence of the recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof; or (3) a Ser or Thr residue replacing one or more N-terminal amino acid residue(s) of the mature processed sequence of the recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof.
[192] In certain embodiments, the antibody is a murine antibody or antigen-binding portion thereof comprising a light chain sequence of SEQ ID NO: 3. [193] In certain embodiments, the antibody is a chimeric, humanized, or human antibody or antigen-binding portion thereof of a murine antibody or antigen-binding portion thereof comprising a light chain sequence of SEQ ID NO: 3. The humanized antibody or antigen- binding portion thereof may be resurfaced or CDR grafted antibody or antigen-binding portion thereof.
[194] Another aspect of the invention provides a polynucleotide encoding a subject recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof described herein.
[195] In certain embodiments, the polynucleotide is codon-optimized for expression in a mammalian expression system.
[196] Another aspect of the invention provides a method of producing a subject
recombinant antibody heavy chain (HC), light chain (LC), or an antigen-binding portion thereof, the method comprising expressing the subject polynucleotide described herein in an expression system, such as a mammalian expression system.
[197] As used herein, the term "cell-binding agent" or "CBA" refers to a compound that can bind a cell (e.g., on a cell-surface ligand) or bind a ligand associated with or proximate to the cell, preferably in a specific manner. In certain embodiments, binding to the cell or a ligand on or near the cell is specific. The CBA may include peptides and non-peptides. For CBA of proteinaceous nature, if the natural N-terminal residue is not Ser or Thr, the N- terminal residue can be engineered using any of the recombinant methods described herein, e.g., by using a heterologous signal peptide of SEQ ID NO: 1, or by inserting a Ser/Thr codon to code for the N-terminal residue.
[198] Selection of the appropriate cell-binding agent is a matter of choice that partly depends upon the particular cell population that is to be targeted, but in many (but not all) cases, humanized monoclonal antibodies are a good choice if an appropriate one is available. For example, the monoclonal antibody MY9 is a murine IgGi antibody that binds specifically to the CD33 Antigen (J.D. Griffin et ah, Leukemia Res., 8:521 (1984)), and can be used if the target cells express CD33 as in the disease of acute myelogenous leukemia (AML).
[199] In certain embodiments, the cell-binding agent is not a protein. For example, in certain embodiments, the cell binding agent may be a vitamin that binds to a vitamin receptor, such as a cell- surface receptor. In this regard, vitamin A binds to retinol-binding protein (RBP) to form a complex, which complex in turn binds the STRA6 receptor with high affinity and increases vitamin A in-take. In another example, folic acid / folate / vitamin B9 binds the cell-surface folate receptor (FR), for example, FRa, with high affinity. Folic acid or antibodies that bind to FRa can be used to target the folate receptor expressed on ovarian and other tumors, including solid tumors that over-express FRa, including non-small cell lung cancer (NSCLC). In addition, vitamin D and its analog bind to vitamin D receptor.
[200] In other embodiments, the cell-binding agent is a protein or a polypeptide, or a compound comprising a protein or polypeptide, including antibody, non-antibody protein, or polypeptide.
[201] For instance, GM-CSF, a ligand / growth factor which binds to myeloid cells can be used as a cell-binding agent to diseased cells from acute myelogenous leukemia. IL-2 which binds to activated T-cells can be used for prevention of transplant graft rejection, for therapy and prevention of graft-versus-host disease, and for treatment of acute T-cell leukemia.
MSH, which binds to melanocytes, can be used for the treatment of melanoma, as can antibodies directed towards melanomas. Epidermal growth factor can be used to target squamous cancers, such as lung and head and neck. Somatostatin can be used to target neuroblastomas and other tumor types. Estrogen (or estrogen analogues) can be used to target breast cancer. Androgen (or androgen analogues) can be used to target testes.
[202] Thus in certain embodiments, the cell-binding agent can be a lymphokine, a hormone, a growth factor, a colony stimulating factor, or a nutrient-transport molecule.
[203] In certain embodiments, the cell-binding agent is an antibody mimetic, such as an ankyrin repeat protein, a Centyrin, or an adnectin / monobody.
[204] In other embodiments, the cell-binding agent is an antibody, a single chain antibody, an antibody fragment that specifically binds to the target cell, a monoclonal antibody, a single chain monoclonal antibody, a monoclonal antibody fragment (or "antigen-binding portion") that specifically binds to a target cell, a chimeric antibody, a chimeric antibody fragment (or "antigen-binding portion") that specifically binds to the target cell, a domain antibody (e.g. , sdAb), or a domain antibody fragment that specifically binds to the target cell. In certain embodiments, the cell-binding agent is a humanized antibody, a humanized single chain antibody, or a humanized antibody fragment (or "antigen-binding portion").
[205] In another embodiment, the cell-binding agent is an anti-CD33 antibody or fragement thereof, such as the antibodies or fragements thereof described in U.S. Patent Nos. 7,557,189, 7,342, 110, 8,119,787 and 8,337,855 and WO2004/043344, herein incorporated by reference. In a specific embodiment, the humanized antibody is huMy9-6 or another related antibody, which is described in U.S. Pat. Nos. 7,342, 110 and 7,557, 189. In another embodiment, the anti-CD33 antibody is huMy9-6 antibody. [206] As used herein, double underlined sequences represent the variable regions (i.e., heavy chain variable region or HCVR, and light chain variable region or LCVR) of the heavy or light chain sequences, while bold sequences represent the CDR regions (i.e., from N- terminal to C-terminal, CDR1, CDR2, and CDR3, respectively, of the heavy chain or light chain sequences).
[207] In one embodiment, the anti-CD33 antibody comprises an immunoglobulin heavy chain region having the amino acid sequence of
OVOLOOPGAEVVKPGASVKMSCKASGYTFTSYYIHWIKOTPGOGLEWVGVIYPGN DDISYNOKFOGKATLTADKSSTTAYMOLSSLTSEDSAVYYCAREVRLRYFDVWGO GTTVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGV HTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCDKTHT CPPCPAPELLGGPSVFLFPPKPKDTLMISRTPEVTCVVVDVSHEDPEVKFNWYVDGV EVHNAKTKPREEQYNSTYRVVSVLTVLHQDWLNGKEYKCKVSNKALPAPIEKTISK AKGQPREPQVYTLPPSRDELTKNQVSLTCLVKGFYPSDIAVEWESNGQPENNYKTTP PVLDSDGSFFLYSKLTVDKSRWQQGNVFSCSVMHEALHNHYTQKSLSLSPG (SEQ ID NO:43), and an immunoglobulin light chain region having the amino acid sequence of
EIVLTOSPGSLAVSPGERVTMSCKSSOSVFFSSSOKNYLAWYOOIPGOSPRLLIYWAS TRESGVPDRFTGSGSGTDFTLTISSVOPEDLAIYYCHOYLSSRTFGOGTKLEIKRTVA APSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDS KDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC (SEQ ID NO:44).
[208] In yet another embodiment, the anti-CD33 antibody comprises the heavy chain CDR1-CDR3 of SEQ ID NO: 43, and/or the light chain CDR1-CDR3 of SEQ ID NO: 44, and preferably specifically binds CD33.
[209] In yet another embodiment, the anti-CD33 antibody comprises a heavy chain variable region (HCVR) sequence at least about 90%, 95%, 97%, 99%, or 100% identical to SEQ ID NO: 43, and/or a light chain variable region (LCVR) sequence at least about 90%, 95%, 97%, 99%, or 100% identical to SEQ ID NO: 44, and preferably specifically binds CD33.
[210] In another specific embodiment, the humanized antibody is an anti-folate receptor antibody described herein. In another specific embodiment the antibody is an anti-folate receptor antibody described in U.S. Patent No. 8,577,966). More specifically, the anti-folate receptor antibody is a humanized antibody or antigen binding fragment thereof that specifically binds a human folate receptor 1. The terms "human folate receptor 1,"
"FOLR1," or "folate receptor alpha (FR-a)", as used herein, refers to any native human FOLR1, unless otherwise indicated. Thus, all of these terms can refer to either a protein or nucleic acid sequence as indicated herein. The term "F0LR1 " encompasses "full-length," unprocessed FOLR1 as well as any form of FOLR1 that results from processing within the cell. The FOLR1 antibody comprises: (a) a heavy chain CDRl comprising GYFMN (SEQ ID NO: 45); a heavy chain CDR2 comprising RIHP YDGDTF YNQXaa i FXaa2Xaa3 (SEQ ID NO: 46); and a heavy chain CDR3 comprising YDGSRAMDY (SEQ ID NO: 47); and (b) a light chain CDRl comprising KASQSVSFAGTSLMH (SEQ ID NO: 48); a light chain CDR2 comprising RASNLEA (SEQ ID NO: 49); and a light chain CDR3 comprising QQSREYPYT (SEQ ID NO: 50); wherein Xaai is selected from K, Q, H, and R; Xaa2 is selected from Q, H, N, and R; and Xaa3 is selected from G, E, T, S, A, and V. Preferably, the heavy chain CDR2 sequence comprises RIHPYDGDTFYNQKFQG (SEQ ID NO: 51).
[211] In another embodiment, the anti-folate receptor antibody is a humanized antibody or antigen binding fragment thereof that specifically binds the human folate receptor 1 comprising the heavy chain having the amino acid sequence of
QVQLVQSGAEVVKPGASVKISCKASGYTFTGYFMNWVKQSPGQSLEWIGRIHPYD
GDTFYNQKFQGKATLTVDKSSNTAHMELLSLTSEDFAVYYCTRYDGSRAMDYWG
QGTTVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSG
VHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCDKT
HTCPPCPAPELLGGPSVFLFPPKPKDTLMISRTPEVTCVVVDVSHEDPEVKFNWYVD
GVEVHNAKTKPREEQYNSTYRVVSVLTVLHQDWLNGKEYKCKVSNKALPAPIEKTI
SKAKGQPREPQVYTLPPSRDELTKNQVSLTCLVKGFYPSDIAVEWESNGQPENNYKT
TPPVLDSDGSFFLYSKLTVDKSRWQQGNVFSCSVMHEALHNHYTQKSLSLSPGK
(SEQ ID NO: 52).
[212] In another embodiment, the anti-folate receptor antibody is a humanized antibody or antigen binding fragment thereof encoded by the plasmid DNA deposited with the ATCC on April 7, 2010 and having ATCC deposit nos. PTA-10772 and PTA-10773 or PTA-10774.
[213] In another embodiment, the anti-folate receptor antibody is a humanized antibody or antigen binding fragment thereof that specifically binds the human folate receptor 1 comprising the light chain having the amino acid sequence of
DrVLTQSPLSLAVSLGQPAIISCKASQSVSFAGTSLMHWYHQKPGQQPRLLIYRASN LEAGVPDRFSGSGSKTDFTLNISPVEAEDAATYYCQQSREYPYTFGGGTKLEIKRTV AAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQD SKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC (SEQ ID NO: 53); or DIVLTQSPLSLAVSLGQPAIISCKASQSVSFAGTSLMHWYHQKPGQQPRLLIYRASN LEAGVPDRFSGSGSKTDFTLTISPVEAEDAATYYCQQSREYPYTFGGGTKLEIKRTV AAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQD SKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC (SEQ ID NO: 54).
[214] In another embodiment the anti-folate receptor antibody is a humanized antibody or antigen binding fragment thereof that specifically binds the human folate receptor 1 comprising the heavy chain having the amino acid sequence of SEQ ID NO: 52, and the light chain having the amino acid sequence of SEQ ID NO: 53 or SEQ ID NO: 54. Preferably, the antibody comprises the heavy chain having the amino acid sequence of SEQ ID NO: 52 and the light chain having the amino acid sequence of SEQ ID NO: 54 (hu FOLR1).
[215] In another embodiment, the anti-folate receptor antibody is a humanized antibody or antigen binding fragment thereof encoded by the plasmid DNA deposited with the ATCC on April 7, 2010 and having ATCC deposit nos. PTA- 10772 and PTA- 10773 or 10774.
[216] In another embodiment, the anti-folate receptor antibody is a humanized antibody or antigen binding fragment thereof that specifically binds the human folate receptor 1, and comprising a heavy chain variable domain at least about 90%, 95%, 99% or 100% identical to
QVQLVQSGAEVVKPGASVKISCKASGYTFTGYFMNWVKQSPGQSLEWIGRIHPYDG DTFYNQKFQGKATLTVDKSSNTAHMELLSLTSEDFAVYYCTRYDGSRAMDYWGQG TTVTVSS (SEQ ID NO: 55), and a light chain variable domain at least about 90%, 95%, 99% or 100% identical to
DIVLTQSPLSLAVSLGQPAIISCKASQSVSFAGTSLMHWYHQKPGQQPRLLIYRASNL EAGVPDRFSGSGSKTDFTLNISPVEAEDAATYYCQQSREYPYTFGGGTKLEIKR (SEQ ID NO: 56); or
DIVLTQSPLSLAVSLGQPAIISCKASQSVSFAGTSLMHWYHQKPGQQPRLLIYRASNL EAGVPDRFSGSGSKTDFTLTISPVEAEDAATYYCQQSREYPYTFGGGTKLEIKR (SEQ ID NO: 57).
[217] In another embodiment, the anti-folated receptor antibody is huMovl9 or M9346A (see, for example, U.S. Patent No. 8,709,432, U.S. Patent No. 8,557,966, and
WO2011106528, all incorporated herein by reference).
[218] In certain embodiments the humanized antibody is an anti-CD37 antibody (e.g., anti- CD37-3) described in U.S. Patent No. 8,765,917. In another embodiment, the cell-binding agent is an anti-CD37 antibody or an antibody fragment thereof, such as those described in US Patent No. 8,765,917 and WO 2011/112978 , herein incorporated by reference. In one embodiment, the anti-CD37 antibody is huCD37-3 antibody.
[219] In one embodiment, the anti-CD37 antibody comprises an immunoglobulin light chain region having the amino acid sequence of
DIOMTOSPSSLSVSVGERVTITCRASENIRSNLAWYOOKPGKSPKLLVNVATNLADG
VPSRFSGSGSGTDYSLKINSLOPEDFGTYYCOHYWGTTWTFGOGTKLEIKRTVAAPS
VFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDS
TYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC (SEQ ID NO: 58) and an immunoglobulin heavy chain region having the amino acid sequence of
OVOVOESGPGLVAPSOTLSITCTVSGFSLTTSGVSWVROPPGKGLEWLGVIWGDGS
TNYHPSLKSRLSIKKDHSKSOVFLKLNSLTAADTATYYCAKGGYSLAHWGOGTLVT
VSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPA
VLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCDKTHTCPPCP
APELLGGPSVFLFPPKPKDTLMISRTPEVTCVVVDVSHEDPEVKFNWYVDGVEVHNA
KTKPREEQYNSTYRVVSVLTVLHQDWLNGKEYKCKVSNKALPAPIEKTISKAKGQP
REPQVYTLPPSRDELTKNQVSLTCLVKGFYPSDIAVEWESNGQPENNYKTTPPVLDS
DGSFFLYSKLTVDKSRWQQGNVFSCSVMHEALHNHYTQKSLSLSPG (SEQ ID NO:
59), or an immunoglobulin heavy chain region having the amino acid sequence of
OVOVOESGPGLVAPSOTLSITCTVSGFSLTTSGVSWVROPPGKGLEWLGVIWGDGS
TNYHSSLKSRLSIKKDHSKSOVFLKLNSLTAADTATYYCAKGGYSLAHWGOGTLVT
VSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPA
VLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCDKTHTCPPCP
APELLGGPSVFLFPPKPKDTLMISRTPEVTCVVVDVSHEDPEVKFNWYVDGVEVHNA
KTKPREEQYNSTYRVVSVLTVLHQDWLNGKEYKCKVSNKALPAPIEKTISKAKGQP
REPQVYTLPPSRDELTKNQVSLTCLVKGFYPSDIAVEWESNGQPENNYKTTPPVLDS
DGSFFLYSKLTVDKSRWQQGNVFSCSVMHEALHNHYTQKSLSLSPG (SEQ ID NO:
60)
[220] In another embodiment, the anti-CD37 antibody comprises an immunoglobulin light chain region having the amino acid sequcence set forth in SEQ ID NO: 58 and an
immunoglobulin heavy chain region having the amino acid sequcence set forth in SEQ ID NO: 59.
[221] In yet another embodiment, the anti-CD37 antibody comprises an immunoglobulin light chain region having the amino acid sequcence set forth in SEQ ID NO: 58 and an immunoglobulin heavy chain region having the amino acid sequcence set forth in SEQ ID NO: 60.
[222] In yet another embodiment, the anti-CD37 antibody comprises the heavy chain CDR1-CDR3 of SEQ ID NO: 59 or 60, and/or the light chain CDR1-CDR3 of SEQ ID NO: 58, and preferably specifically binds CD37.
[223] In yet another embodiment, the anti-CD37 antibody comprises a heavy chain variable region (HCVR) sequence at least about 90%, 95%, 97%, 99%, or 100% identical to SEQ ID NO: 59 or 60, and/or a light chain variable region (LCVR) sequence at least about 90%, 95%, 97%, 99%, or 100% identical to SEQ ID NO: 58, and preferably specifically binds CD37.
[224] In yet another embodiment, the anti-CD37 antibody comprises an immunoglobulin light chain region having the amino acid sequence of
EIVLTOSPATMSASPGERVTMTCSATSSVTYMHWYOOKPGOSPKRWIYDTSNLPYG
VPARFSGSGSGTSYSLTISSMEAEDAATYYCOOWSDNPPTFGOGTKLEIKRTVAAPS
VFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDS
TYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC (SEQ ID NO: 61) and an immunoglobulin heavy chain region having the amino acid sequence of
OVOLOESGPGLLKPSOSLSLTCTVSGYSITSGFAWHWIROHPGNKLEWMGYILYSGS
TVYSPSLKSRISITRDTSKNHFFLOLNSVTAADTATYYCARGYYGYGAWFAYWGOG
TLVTVSAASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGV
HTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCDKTHT
CPPCPAPELLGGPSVFLFPPKPKDTLMISRTPEVTCVVVDVSHEDPEVKFNWYVDGV
EVHNAKTKPREEQYNSTYRVVSVLTVLHQDWLNGKEYKCKVSNKALPAPIEKTISK
AKGQPREPQVYTLPPSRDELTKNQVSLTCLVKGFYPSDIAVEWESNGQPENNYKTTP
PVLDSDGSFFLYSKLTVDKSRWQQGNVFSCSVMHEALHNHYTQKSLSLSPG (SEQ ID
NO: 62).
[225] In yet another embodiment, the anti-CD37 antibody comprises the heavy chain CDR1-CDR3 of SEQ ID NO: 62, and/or the light chain CDR1-CDR3 of SEQ ID NO: 61, and preferably specifically binds CD37.
[226] In yet another embodiment, the anti-CD37 antibody comprises a heavy chain variable region (HCVR) sequence at least about 90%, 95%, 97%, 99%, or 100% identical to SEQ ID NO: 62, and/or a light chain variable region (LCVR) sequence at least about 90%, 95%, 97%, 99%, or 100% identical to SEQ ID NO: 61, and preferably specifically binds CD37.
[227] In yet another embodiment, the anti-CD37 antibody is huCD37-50 antibody. [228] In certain embodiments, the humanized antibody is an anti-EGFR antibody described in U.S. Patent No. 8,790,649. In another embodiment, the antibody is an anti-EGFR antibody. In one embodiment, the anti-EGFR antibody is a non-antagonist antibody, including, for example, the antibodies described in WO2012058592, herein incorporated by reference. In another embodiment, the anti-EGFR antibody is a non-functional antibody, for example, humanized ML66 or EGFR-8. More specifically, the anti-EGFR antibody is huML66. The teachings of all these applications are incorporated herein by reference in its entirety.
[229] In yet another embodiment, the anti-EGFR antibody comprising the heavy chain having the amino acid sequence of SEQ ID NO: 63, and the light chain having the amino acid sequence of SEQ ID NO: 64.
Figure imgf000084_0001
[230] In yet another embodiment, the anti-EGFR antibody comprises the heavy chain CDR1-CDR3 of SEQ ID NO: 63, and/or the light chain CDR1-CDR3 of SEQ ID NO: 64, and preferably specifically binds EGFR.
[231] In yet another embodiment, the anti-EGFR antibody comprises a heavy chain variable region (HCVR) sequence at least about 90%, 95%, 97%, 99%, or 100% identical to SEQ ID NO: 63, and/or a light chain variable region (LCVR) sequence at least about 90%, 95%, 97%, 99%, or 100% identical to SEQ ID NO: 64, and preferably specifically binds EGFR.
[232] In another embodiment, the anti-EGFR antibody are antibodies described in
8,790,649 and WO 2012/058588, herein incorporated by reference. In one embodiment, the anti-EGFR antibody is huEGFR-7R antiboby.
[233] In one embodiment, the anti-EGFR antibody comprises an immunoglobulin heavy chain region having the amino acid sequence of
OVOLVOSGAEVAKPGASVKLSCKASGYTFTSYWMOWVKORPGOGLECIGTIYPGD GDTTYTOKFOGKATLTADKSSSTAYMOLSSLRSEDSAVYYCARYDAPGYAMDYW
GOGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTS
GVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCDK
THTCPPCPAPELLGGPSVFLFPPKPKDTLMISRTPEVTCVVVDVSHEDPEVKFNWYVD
GVEVHNAKTKPREEQYNSTYRVVSVLTVLHQDWLNGKEYKCKVSNKALPAPIEKTI
SKAKGQPREPQVYTLPPSRDELTKNQVSLTCLVKGFYPSDIAVEWESNGQPENNYKT
TPPVLDSDGSFFLYSKLTVDKSRWQQGNVFSCSVMHEALHNHYTQKSLSLSPG
(SEQ ID NO: 65) and an immunoglobulin light chain region having the amino acid sequence of
DIOMTOSPSSLSASVGDRVTITCRASODINNYLAWYOHKPGKGPKLLIHYTSTLHPG IPSRFSGSGSGRDYSFSISSLEPEDIATYYCLOYDNLLYTFGOGTKLEIKRTVAAPSVFI FPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY SLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC (SEQ ID NO: 66), or an immunoglobulin light chain region having the amino acid sequence of
DIOMTOSPSSLSASVGDRVTITCKASODINNYLAWYOHKPGKGPKLLIHYTSTLHPG IPSRFSGSGSGRDYSFSISSLEPEDIATYYCLOYDNLLYTFGOGTKLEIKRTVAAPSVFI FPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY SLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC (SEQ ID NO: 67).
[234] In another embodiment, the anti-EGFR antibody comprises an immunoglobulin heavy chain region having the amino acid sequence set forth in SEQ ID NO: 65 and an immunoglobulin light chain region having the amino acid sequence set forth in SEQ ID NO: 66.
[235] In another embodiment, the anti-EGFR antibody comprises an immunoglobulin heavy chain region having the amino acid sequence set forth in SEQ ID NO: 65 and an
immunoglobulin light chain region having the amino acid sequence set forth in SEQ ID NO: 67.
[236] In yet another embodiment, the anti-EGFR antibody comprises the heavy chain CDR1-CDR3 of SEQ ID NO: 65, and/or the light chain CDR1-CDR3 of SEQ ID NO: 66 or 67, and preferably specifically binds EGFR.
[237] In yet another embodiment, the anti-EGFR antibody comprises a heavy chain variable region (HCVR) sequence at least about 90%, 95%, 97%, 99%, or 100% identical to SEQ ID NO: 65, and/or a light chain variable region (LCVR) sequence at least about 90%, 95%, 97%, 99%, or 100% identical to SEQ ID NO: 66 or 67, and preferably specifically binds EGFR. [238] In another embodiment, the cell-binding agent is an anti-CD19 antibody, such as those described in U.S. Patent No. 8,435,528 and WO2004/ 103272, hereinin incorporated by reference. In one embodiment, the anti-CD 19 antibody comprises an immunoglobulin heavy chain region having the amino acid sequence of
QVQLVQPGAEVVKPGASVKLSCKTSGYTFTSNWMHWVKQAPGQGLEWIGEIDPSD
SYTNYNQNFQGKAKLTVDKSTSTAYMEVSSLRSDDTAVYYCARGSNPYYYAMDY
WGQGTSVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL
TSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCD
KTHTCPPCPAPELLGGPSVFLFPPKPKDTLMISRTPEVTCVVVDVSHEDPEVKFNWYV
DGVEVHNAKTKPREEQYNSTYRVVSVLTVLHQDWLNGKEYKCKVSNKALPAPIEK
TISKAKGQPREPQVYTLPPSRDELTKNQVSLTCLVKGFYPSDIAVEWESNGQPENNY
KTTPPVLDSDGSFFLYSKLTVDKSRWQQGNVFSCSVMHEALHNHYTQKSLSLSPGK
(SEQ ID NO: 68) and an immunoglobulin light chain region having the amino acid sequence of
EIVLTQSPAIMSASPGERVTMTCSASSGVNYMHWYQQKPGTSPRRWIYDTSKLASG VPARFSGSGSGTDYSLTISSMEPEDAATYYCHQRGSYTFGGGTKLEIKRTVAAPSVFI FPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY SLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC (SEQ ID NO: 69).
[239] In another embodiment, the anti-CD 19 antibody is huB4 antibody.
[240] In yet another embodiment, the anti-CD 19 antibody comprises the heavy chain CDR1-CDR3 of SEQ ID NO: 68, and/or the light chain CDR1-CDR3 of SEQ ID NO: 69, and preferably specifically binds CD 19.
[241] In yet another embodiment, the anti-CD 19 antibody comprises a heavy chain variable region (HCVR) sequence at least about 90%, 95%, 97%, 99%, or 100% identical to SEQ ID NO: 68, and/or a light chain variable region (LCVR) sequence at least about 90%, 95%, 97%, 99%, or 100% identical to SEQ ID NO: 69, and preferably specifically binds CD19.
[242] In yet another embodiment, the cell-binding agent is an anti-Mucl antibody, such as those described in U.S. Patent No. 7,834,155, WO 2005/009369 and WO 2007/024222, herein incorporated by reference. In one embodiment, the anti-Mucl antibody comprises an immunoglobulin heavy chain region having the amino acid sequence of
OAOLVOSGAEVVKPGASVKMSCKASGYTFTSYNMHWVKOTPGOGLEWIGYIYPG NGATNYNOKFOGKATLTADTSSSTAYMOISSLTSEDSAVYFCARGDSVPFAYWGO GTLVTVSAASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSG VHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCDKT HTCPPCPAPELLGGPSVFLFPPKPKDTLMISRTPEVTCVVVDVSHEDPEVKFNWYVD
GVEVHNAKTKPREEQYNSTYRVVSVLTVLHQDWLNGKEYKCKVSNKALPAPIEKTI
SKAKGQPREPQVYTLPPSRDELTKNQVSLTCLVKGFYPSDIAVEWESNGQPENNYKT
TPPVLDSDGSFFLYSKLTVDKSRWQQGNVFSCSVMHEALHNHYTQKSLSLSPGK
(SEQ ID NO: 70) and an immunoglobulin light chain region having the amino acid sequence of
EIVLTOSPATMSASPGERVTrrCSAHSSVSFMHWFOOKPGTSPKLWIYSTSSLASGVP ARFGGSGSGTSYSLTISSMEAEDAATYYCOORSSFPLTFGAGTKLELKRTVAAPSVFI FPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY SLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC (SEQ ID NO:71).
[243] In another embodiment, the anti-Mucl antibody is huDS6 antibody.
[244] In yet another embodiment, the anti-Mucl antibody comprises the heavy chain CDR1-CDR3 of SEQ ID NO: 70, and/or the light chain CDR1-CDR3 of SEQ ID NO: 71, and preferably specifically binds Mucl .
[245] In yet another embodiment, the anti-Mucl antibody comprises a heavy chain variable region (HCVR) sequence at least about 90%, 95%, 97%, 99%, or 100% identical to SEQ ID NO: 70, and/or a light chain variable region (LCVR) sequence at least about 90%, 95%, 97%, 99%, or 100% identical to SEQ ID NO: 71, and preferably specifically binds Mucl .
[246] In certain embodiments, the cell-binding agent is a resurfaced antibody, a resurfaced single chain antibody, a resurfaced antibody fragment (or "antigen-binding portion"), or a bispecific antibody.
[247] In certain embodiments, the cell-binding agent is a minibody, an avibody, a diabody, a tribody, a tetrabody, a nanobody, a probody, a domain antibody, or an unibody.
[248] In other words, an exemplary cell binding agent may include an antibody, a single chain antibody, an antibody fragment that specifically binds to the target cell, a monoclonal antibody, a single chain monoclonal antibody, a monoclonal antibody fragment that specifically binds to a target cell, a chimeric antibody, a chimeric antibody fragment that specifically binds to the target cell, a bispecific antibody, a domain antibody, a domain antibody fragment that specifically binds to the target cell, an interferon, a lymphokine (e.g., IL-2, IL-3, IL-4, and IL-6), a hormone (e.g. , insulin, thyrotropin releasing hormone, melanocyte-stimulating hormone, and a steroid hormone (e.g., androgen and estrogen)), a vitamin (e.g. , folate), a growth factor (e.g. , EGF, TGF-alpha, FGF, VEGF), a colony stimulating factor, a nutrient-transport molecule (e.g., transferrin; see O'Keefe et al. (1985) J. Biol. Chem. 260:932-937, incorporated herein by reference), a Centyrin (a protein scaffold based on a consensus sequence of fibronectin type III (FN3) repeats; see U.S. Patent
Publication 2010/0255056, 2010/0216708 and 2011/0274623 incorporated herein by reference), an Ankyrin Repeat Protein (e.g., a designed ankyrin repeat protein, known as DARPin; see U.S. Patent Publication Nos. 2004/0132028, 2009/0082274, 2011/0118146, and 2011/0224100, incorporated herein by reference, and also see C. Zahnd et al., Cancer Res. (2010) 70: 1595-1605; Zahnd et al, J. Biol. Chem. (2006) 281(46):35167-35175; and Binz, H.K., Amstutz, P. & Pluckthun, A., Nature Biotechnology (2005) 23: 1257-1268, incorporated herein by reference), an ankyrin-like repeats protein or synthetic peptide (see e.g., U.S. Patent Publication No. 2007/0238667; U.S. Patent No. 7,101,675; WO 2007/147213; and
WO 2007/062466, incorporated herein by reference), an Adnectin (a fibronectin domain scaffold protein; see US Patent Publication Nos. 2007/0082365; 2008/0139791, incorporated herein by reference), Avibody (including diabodies, triabodies, and tetrabodies; see U.S. Publication Nos. 2008/0152586 and 2012/0171115), and other cell-binding molecules or substances.
[249] In certain embodiments, the cell-binding agent may be a ligand that binds to a moiety on the target cell, such as a cell- surface receptor. For example, the ligand may be a growth factor or a fragment thereof that binds to a growth factor receptor; or may be a cytokine or a fragment thereof that binds to a cytokine receptor. In certain embodiments, the growth factor receptor or cytokine receptor is a cell-surface receptor.
[250] In certain embodiments, wherein the cell-binding agent is an antibody or an antigen- binding portion thereof (including antibody derivatives), or certain antibody mimetics, the CBA may bind to a ligand on the target cell, such as a cell- surface ligand, including cell- surface receptors.
[251] Specific exemplary antigens or ligands may include renin; a growth hormone (e.g., human growth hormone and bovine growth hormone); a growth hormone releasing factor; a parathyroid hormone; a thyroid stimulating hormone; a lipoprotein; alpha- 1- antitrypsin; insulin A-chain; insulin B-chain; proinsulin; a follicle stimulating hormone; calcitonin; a luteinizing hormone; glucagon; a clotting factor (e.g., factor vmc, factor IX, tissue factor, and von Willebrands factor); an anti-clotting factor (e.g., Protein C); an atrial natriuretic factor; a lung surfactant; a plasminogen activator (e.g., a urokinase, a human urine or tissue-type plasminogen activator); bombesin; a thrombin; hemopoietic growth factor; tumor necrosis factor- alpha and -beta; an enkephalinase; RANTES (i.e., the regulated on activation normally T-cell expressed and secreted); human macrophage inflammatory protein- 1 -alpha; a serum albumin (human serum albumin); Muellerian-inhibiting substance; relaxin A-chain; relaxin B-chain; prorelaxin; a mouse gonadotropin-associated peptide; a microbial protein (beta- lactamase); DNase; IgE; a cytotoxic T-lymphocyte associated antigen (e.g. , CTLA-4);
inhibin; activin; a vascular endothelial growth factor; a receptor for hormones or growth factors; protein A or D; a rheumatoid factor; a neurotrophic factor(e.g. , bone-derived neurotrophic factor, neurotrophin-3, -4, -5, or -6), a nerve growth factor (e.g. , NGF-β); a platelet-derived growth factor; a fibroblast growth factor (e.g. , aFGF and bFGF); fibroblast growth factor receptor 2; an epidermal growth factor; a transforming growth factor (e.g. , TGF-alpha, TGF-βΙ, TGF- 2, TGF- 3, TGF- 4, and TGF- 5); insulin-like growth factor-I and -II; des(l-3)-IGF-I (brain IGF-I); an insulin-like growth factor binding protein;
melanotransferrin; EpCAM; GD3; FLT3; PSMA; PSCA; MUC1 ; MUC16; STEAP; CEA; TENB2; an EphA receptor; an EphB receptor; a folate receptor; FOLR1 ; mesothelin; cripto; an alphavbeta6; integrins; VEGF; VEGFR; EGFR; transferrin receptor; IRTA1 ; IRTA2; IRTA3; IRTA4; IRTA5; CD proteins (e.g. , CD2, CD3, CD4, CD5, CD6, CD8, CD11, CD14, CD19, CD20, CD21, CD22, CD25, CD26, CD28, CD30, CD33, CD36, CD37, CD38, CD40, CD44, CD52, CD55, CD56, CD59, CD70, CD79, CD80. CD81, CD103, CD105, CD123, CD134, CD137, CD138, and CD152), one or more tumor- associated antigens or cell-surface receptors (see US Publication No. 20080171040 or US Publication No. 20080305044, incorporated in their entirety by reference); erythropoietin; an osteoinductive factor; an immunotoxin; a bone morphogenetic protein; an interferon (e.g. , interferon- alpha, -beta, and -gamma); a colony stimulating factor (e.g., M-CSF, GM-CSF, and G-CSF); interleukins (e.g., IL- 1 to IL- 10); a superoxide dismutase; a T-cell receptor; a surface membrane protein; a decay accelerating factor; a viral antigen s(e.g. , a portion of the HIV envelope); a transport protein, a homing receptor; an addressin; a regulatory protein; an integrin (e.g. , CD1 la, CDl lb, CDl lc, CD18, an ICAM, VLA-4, and VCAM;) a tumor associated antigen (e.g. , HER2, HER3 and HER4 receptor); endoglin; c-Met; c-kit; 1GF1R; PSGR; NGEP; PSMA; PSCA; TMEFF2; LGR5; B7H4; and fragments of any of the above-listed polypeptides.
[252] As used herein, the term "antibody" includes immunoglobulin (Ig) molecules. In certain embodiments, the antibody is a full-length antibody that comprises four polypeptide chains, namely two heavy chains (HC) and two light chains (LC) inter-connected by disulfide bonds. Each heavy chain is comprised of a heavy chain variable region (HCVR or VH) and a heavy chain constant region (CH). The heavy chain constant region is comprised of three domains, CHI, CH2, and CH3. Each light chain is comprised of a light chain variable region (LCVR or VL) and a light chain constant region, which is comprised of one domain, CL. The VH and VL regions can be further subdivided into regions of hypervariability, termed complementarity determining regions (CDRs). Interspersed with such regions are the more conserved framework regions (FRs). Each VH and VL is composed of three CDRs and four FRs, arranged from amino-terminus to carboxy- terminus in the following order: FRl, CDRl, FR2, CDR2, FR3, CDR3, and FR4.
[253] In certain embodiments, the antibody is IgG, IgA, IgE, IgD, or IgM. In certain embodiments, the antibody is IgGl, IgG2, IgG3, or IgG4; or IgAl or IgA2.
[254] In certain embodiments, the cell-binding agent is an "antigen-binding portion" of a monoclonal antibody, sharing sequences critical for antigen-binding with an antibody (such as huMy9-6 or its related antibodies described in U.S. Pat. Nos. 7,342,110 and 7,557,189, incorporated herein by reference).
[255] As used herein, the term "antigen-binding portion" of an antibody (or sometimes interchangeably referred to as "antibody fragments"), include one or more fragments of an antibody that retain the ability to specifically bind to an antigen. It has been shown that the antigen-binding function of an antibody can be performed by certain fragments of a full- length antibody. Examples of binding fragments encompassed within the term "antigen- binding portion" of an antibody include (without limitation): (i) a Fab fragment, a monovalent fragment consisting of the VL, VH, CL and CHI domains (e.g., an antibody digested by papain yields three fragments: two antigen-binding Fab fragments, and one Fc fragment that does not bind antigen); (ii) a F(ab')2 fragment, a bivalent fragment comprising two Fab fragments linked by a disulfide bridge at the hinge region (e.g. , an antibody digested by pepsin yields two fragments: a bivalent antigen-binding F(ab')2 fragment, and a pFc' fragment that does not bind antigen) and its related F(ab') monovalent unit; (iii) a Fd fragment consisting of the VH and CHI domains (i.e. , that portion of the heavy chain which is included in the Fab); (iv) a Fv fragment consisting of the VL and VH domains of a single arm of an antibody, and the related disulfide linked Fv; (v) a dAb (domain antibody) or sdAb (single domain antibody) fragment (Ward et ah , Nature 341 :544-546, 1989), which consists of a VH domain; and (vi) an isolated complementarity determining region (CDR). In certain embodiments, the antigen-binding portion is a sdAb (single domain antibody).
[256] In certain embodiments, antigen-binding portion also include certain engineered or recombinant derivatives (or "derivative antibodies") that also include one or more fragments of an antibody that retain the ability to specifically bind to an antigen, in addition to elements or sequences that may not be found in naturally existing antibodies. [257] For example, although the two domains of the Fv fragment, VL and VH, are coded for by separate genes, they can be joined, using standard recombinant methods, by a synthetic linker that enables them to be made as a single protein chain in which the VL and VH regions pair to form monovalent molecules (known as single chain Fv (scFv); see, e.g., Bird et al. Science 242:423-426, 1988: and Huston et al, Proc. Natl. Acad. Sci. USA 85:5879-5883, 1988).
[258] In all embodiments described herein, the N-terminum of an scFv may be a VH domain {i.e., N-VH-VL-C), or a VL domain {i.e., N-VL-VH-C).
[259] Divalent (or bivalent) single-chain variable fragments (di-scFvs, bi-scFvs) can be engineered by linking two scFvs. This produces a single peptide chain with two VH and two VL regions, yielding a tandem scFvs (tascFv). More tandem repeats, such as tri-scFv, may be similarly produced by linking three or more scFv in a head-to-tail fashion.
[260] In certain embodiments, scFvs may be linked through linker peptides that are too short (about five amino acids) for the two variable regions to fold together, forcing scFvs to dimerize, and form diabodies (see, e.g., Holliger et al., Proc. Natl. Acad. Sci. USA 90:6444- 6448, 1993; Poljak ei a/., Structure 2: 1121-1123, 1994). Diabodies may be bi-specific or monospecific. Diabodies have been shown to have dissociation constants up to 40-fold lower than corresponding scFvs, i.e., having a much higher affinity to the target.
[261] Still shorter linkers (one or two amino acids) lead to the formation of trimers, or so- called triabodies or tribodies. Tetrabodies have also been produced similarly. They exhibit an even higher affinity to their targets than diabodies. Diabodies, triabodies, and tetrabodies are sometimes collectively called "AVIBODY " cell binding agents (or "AVIBODY" in short). That is, AVIBODY having two, three, or four Target Binding Regions (TBRs) are commonly known as Dia-, Tria- and Tetra-bodies. See, for example, U.S. Publication Nos. 2008/0152586 and 2012/0171115 for details, the entire teachings of which are incorporated herein by reference.
[262] All of these formats can be composed from variable fragments with specificity for two or more different antigens, in which case they are types of bi- or multi- specific antibodies. For example, certain bispecific tandem di-scFvs, are known as bi-specific T-cell engagers (BiTEs).
[263] In certain embodiments, each scFv in the tandem scFv or diabody / triabody / tetrabody may have the same or different binding specificity, and each may independently have an N-terminal VH or N-terminal VL. [264] Single chain Fv (scFv) can also be fused to an Fc moiety, such as the human IgG Fc moiety to obtain IgG-like properties, but nevertheless they are still encoded by a single gene. As transient production of such scFv-Fc proteins in mammalians can easily achieve milligram amounts, this derivative antibody format is particularly suitable for many research applications.
[265] Fcabs are antibody fragments engineered from the Fc constant region of an antibody. Fcabs can be expressed as soluble proteins, or they can be engineered back into a full-length antibody, such as IgG, to create mAb2. A mAb2 is a full-length antibody with an Fcab in place of the normal Fc region. With these additional binding sites, mAb2 bispecific monoclonal antibodies can bind two different targets at the same time.
[266] In certain embodiments, the engineered antibody derivatives have reduced size of the antigen-binding Ig-derived recombinant proteins ("miniaturized" full-size mAbs), produced by removing domains deemed non-essential for function. One of the best examples is SMIPs.
[267] A Small modular immunopharmaceutical, or SMIP, is an artificial protein largely built from parts of antibodies (immunoglobulins), and is intended for use as a pharmaceutical drug. SMIPs have similar biological half-life as antibodies, but are smaller than antibodies and hence may have better tissue penetration properties. SMIPs are single-chain proteins that comprise one binding region, one hinge region as a connector, and one effector domain. The binding region comprises a modified single-chain variable fragment (scFv), and the rest of the protein can be constructed from the Fc (such as CH2, and CH3 as the effector domain) and the hinge region of an antibody, such as IgGl. Genetically modified cells produce SMIPs as antibody-like dimers that are about 30% smaller than real antibodies.
[268] Another example of such engineered miniaturized antibody is "unibody," in which the hinge region has been removed from IgG4 molecules. IgG4 molecules are unstable and can exchange light-heavy chain heterodimers with one another. Deletion of the hinge region prevents heavy chain-heavy chain pairing entirely, leaving highly specific monovalent light / heavy heterodimers, while retaining the Fc region to ensure stability and half-life in vivo.
[269] A single-domain antibody (sdAb, including but not limited to those called
nanobody by Ablynx) is an antibody fragment consisting of a single monomeric variable antibody domain. Like a whole antibody, it is able to bind selectively to a specific antigen, but is much smaller due to its molecular weight of only 12-15 kDa. In certain embodiments, the single-domain antibody is engineered from heavy-chain antibodies (hcIgG). The first such sdAb was engineered based on an hcIgG found in camelids, called VHH fragments. In certain embodiments, the single-domain antibody is engineered from IgNAR ("immunoglobulin new antigen receptor," see below) using a VNAR fragment. Cartilaginous fishes (such as shark) have such heavy-chain IgNAR antibodies. In certain embodiments, the sdAb is engineered by splitting the dimeric variable domains from common immunoglobulin G (IgG), such as those from humans or mice, into monomers. In certain embodiments, a nanobody is derived from a heavy chain variable domain. In certain embodiments, a nanobody is derived from light chain variable domain. In certain embodiments, the sdAb is obtained by screening libraries of single domain heavy chain sequences (e.g., human single domain HCs) for binders to a target antigen.
[270] The single variable new antigen receptor domain antibody fragments (VNARS, or VNAR domains) are derived from cartilaginous fish (e.g., shark) immunoglobulin new antigen receptor antibodies (IgNARs). Being one of the smallest known immunoglobulin-based protein scaffolds, such single domain proteins demonstrate favorable size and cryptic epitope recognition properties. Mature IgNAR antibodies consist of homodimers of one variable new antigen receptor (VNAR) domain and five constant new antigen receptor (CNAR) domains. This molecule is highly stable, and possesses efficient binding characteristics. Its inherent stability can likely be attributed to both (i) the underlying Ig scaffold, which presents a considerable number of charged and hydrophilic surface exposed residues compared to the conventional antibody VH and VL domains found in murine antibodies; and (ii) stabilizing structural features in the complementary determining region (CDR) loops including inter- loop disulphide bridges, and patterns of intra-loop hydrogen bonds.
[271] A minibody is an engineered antibody fragment comprising an scFv linked to a CH domain, such as the CH3yl (CH3 domain of IgGl) or CH48 (CH4 domain of IgE). For example, an scFv specific for carcinoembryonic antigen (CEA) has been linked to the CH3yl to create a minibody, which has previously been demonstrated to possess excellent tumor targeting coupled with rapid clearance in vivo (Hu et ah, Cancer Res. 56:3055-3061, 1996). The scFv may have a N-terminal VH or VL. The linkage may be a short peptide (e.g., two amino acid linker, such as ValGlu) that results in a non-covalent, hingeless minibody.
Alternatively, the linkage may be an IgGl hinge and a GlySer linker peptide that produces a covalent, hinge-minibody.
[272] Natural antibodies are mono-specific, but bivalent, in that they express two identical antigen -binding domains. In contrast, in certain embodiments, certain engineered antibody derivatives are bi- or multi- specific molecules possess two or more different antigen-binding domains, each with different target specificity. Bispecific antibodies can be generated by fusing two antibody-producing cells, each with distinct specificity. These "quadromas" produced multiple molecular species, as the two distinct light chains and two distinct heavy chains were free to recombine in the quadromas in multiple configurations. Since then, bispecific Fabs, scFvs and full-size mAbs have been generated using a variety of technologies (see above).
[273] The dual variable domain immunoglobulin (DVD-Ig) protein is a type of dual- specific IgG that simultaneously target two antigens / epitopes (DiGiammarino et al., Methods Mol Biol. 899: 145-56, 2012). The molecule contains an Fc region and constant regions in a configuration similar to a conventional IgG. However, the DVD-Ig protein is unique in that each arm of the molecule contains two variable domains (VDs). The VDs within an arm are linked in tandem and can possess different binding specificities.
[274] A DuoBody® is a bispecific modified IgGl antibody heterodimer.IgGl hinge region that generally includes (i) a stable hinge region that contains a CPPC sequence and is non- permissive for Fab arm exchange in vivo and (ii) an IgG4-like CH3 domain that is modified to contain F405L and K409R residues, which renders it permissive for Fab arm exchange in vivo. (See, for example, WO2008119353 and WO2011131746).
[275] Trispecific antibody derivative molecules can also been generated by, for example, expressing bispecific antibodies with two distinct Fabs and an Fc. One example is a mouse IgG2a anti-Ep-CAM, rat IgG2b anti-CD3 quadroma, called BiUII, which is thought to permit the co-localization of tumor cells expressing Ep-CAM, T cells expressing CD3, and macrophages expressing FCyRI, thus potentiating the costimulatory and anti-tumor functions of the immune cells.
[276] Probodies are fully recombinant, masked monoclonal antibodies that remain inert in healthy tissue, but are activated specifically in the disease microenvironment {e.g., through protease cleavage by a protease enriched or specific in a disease microenvironment). See Desnoyers et ah, Sci. Transl. Med., 5:207ral44, 2013. Similar masking techniques can be used for any of the antibodies or antigen-binding portions thereof described herein.
[277] An intrabody is an antibody that has been modified for intracellular localization, for working within the cell to bind to an intracellular antigen. The intrabody may remain in the cytoplasm, or may have a nuclear localization signal, or may have a KDEL sequence for ER targeting. The intrabody may be a single-chain antibody (scFv), modified immunoglobulin VL domains with hyperstability, selected antibody resistant to the more reducing intracellular environment, or expressed as a fusion protein with maltose binding protein or other stable intracellular proteins. Such optimizations have improved the stability and structure of intrabodies, and may have general applicability to any of the antibodies or antigen-binding portions thereof described herein.
[278] The antigen-binding portions or derivative antibodies of the invention may have substantially the same or identical (1) light chain and/or heavy chain CDR3 regions; (2) light chain and/or heavy chain CDR1, CDR2, and CDR3 regions; or (3) light chain and/or heavy chain regions, compared to an antibody from which they are derived / engineered. Sequences within these regions may contain conservative amino acid substitutions, including
substitutions within the CDR regions. In certain embodiments, there is no more than 1, 2, 3, 4, or 5 conservative substitutions. In an alternative, the antigen-binding portions or derivative antibodies have a light chain region and/or a heavy chain region that is at least about 90%, 95%, 99% or 100% identical to an antibody from which they are derived / engineered. These antigen-binding portions or derivative antibodies may have substantially the same binding specificity and/or affinity to the target antigen compared to the antibody. In certain embodiments, the ¾ and/or Rvalues of the antigen-binding portions or derivative antibodies are within 10-fold (either higher or lower), 5-fold (either higher or lower), 3-fold (either higher or lower), or 2-fold (either higher or lower) of an antibody described herein.
[279] In certain embodiments, the antigen-binding portions or derivative antibodies may be derived / engineered from fully human antibodies, humanized antibodies, or chimeric antibodies, and may be produced according to any art-recognized methods.
[280] Monoclonal antibody techniques allow for the production of extremely specific cell- binding agents in the form of specific monoclonal antibodies. Particularly well known in the art are techniques for creating monoclonal antibodies produced by immunizing mice, rats, hamsters or any other mammal with the antigen of interest such as the intact target cell, antigens isolated from the target cell, whole virus, attenuated whole virus, and viral proteins such as viral coat proteins. Sensitized human cells can also be used. Another method of creating monoclonal antibodies is the use of phage libraries of scFv (single chain variable region), specifically human scFv (see e.g., Griffiths et al., U.S. Patent Nos. 5,885,793 and 5,969,108; McCafferty et al., WO 92/01047; Liming et al., WO 99/06587). In addition, resurfaced antibodies disclosed in U.S. Patent No. 5,639,641 may also be used, as may chimeric antibodies and humanized antibodies.
[281] Cell-binding agent can also be peptides derived from phage display (see, for example, Wang et al, Proc. Natl. Acad. Sci. USA (2011) 108(17), 6909-6914) or peptide library techniques (see, for example, Dane et al, Mol. Cancer. Ther. (2009) 8(5): 1312-1318). [282] In certain embodiments, the CBA of the invention also includes an antibody mimetic, such as a DARPin, an affibody, an affilin, an affitin, an anticalin, an avimer, a Fynomer, a Kunitz domain peptide, a monobody, or a nanofitin.
[283] As used herein, the terms "DARPin" and "(designed) ankyrin repeat protein" are used interchangeably to refer to certain genetically engineered antibody mimetic proteins typically exhibiting preferential (sometimes specific) target binding. The target may be protein, carbohydrate, or other chemical entities, and the binding affinity can be quite high. The DARPins may be derived from natural ankyrin repeat-containing proteins, and preferably consist of at least three, usually four or five ankyrin repeat motifs (typically about 33 residues in each ankyrin repeat motif) of these proteins. In certain embodiments, a DARPin contains about four- or five-repeats, and may have a molecular mass of about 14 or 18 kDa, respectively. Libraries of DARPins with randomized potential target interaction residues with diversities of over 10 12 variants can be generated at the DNA level, for use in selecting DARPins that bind desired targets (e.g., acting as receptor agonists or antagonists, inverse agonists, enzyme inhibitors, or simple target protein binders) with picomolar affinity and specificity, using a variety of technologies such as ribosome display or signal recognition particle (SRP) phage display. See, for example, U.S. Patent Publication Nos. 2004/0132028, 2009/0082274, 2011/0118146, and 2011/0224100, WO 02/20565 and WO 06/083275 for DARPin preparation (the entire teachings of which are incorporated herein by reference), and also see C. Zahnd et al. (2010) Cancer Res., 70: 1595-1605; Zahnd et al. (2006) J. Biol.
Chem., 281(46):35167-35175; and Binz, H.K., Amstutz, P. & Pluckthun, A. (2005) Nature Biotechnology, 23:1257-1268 (all incorporated herein by reference). Also see U.S. Patent Publication No. 2007/0238667; U.S. Patent No. 7,101,675; WO 2007/147213; and
WO 2007/062466 (the entire teachings of which are incorporated herein by reference), for the related ankyrin-like repeats protein or synthetic peptide.
[284] Affibody molecules are small proteins engineered to bind to a large number of target proteins or peptides with high affinity, thus imitating monoclonal antibodies. An Affibody consists of three alpha helices with 58 amino acids and has a molar mass of about 6 kDa. They have been shown to withstand high temperatures (90 °C) or acidic and alkaline conditions (pH 2.5 or pH 11), and binders with an affinity of down to sub-nanomolar range have been obtained from naive library selections, and binders with picomolar affinity have been obtained following affinity maturation. In certain embodiments, affibodies are conjugated to weak electrophiles for binding to targets covalently. [285] Monobodies (also known as Adnectins), are genetically engineered antibody mimetic proteins capable of binding to antigens. In certain embodiments, monobodies consist of 94 amino acids and have a molecular mass of about 10 kDa. They are based on the structure of human fibronectin, more specifically on its tenth extracellular type III domain, which has a structure similar to antibody variable domains, with seven beta sheets forming a barrel and three exposed loops on each side corresponding to the three complementarity determining regions. Monobodies with specificity for different proteins can be tailored by modifying the loops BC (between the second and third beta sheets) and FG (between the sixth and seventh sheets).
[286] A tribody is a self-assembly antibody mimetic designed based on the C-terminal coiled-coil region of mouse and human cartilage matrix protein (CMP), which self-assembles into a parallel trimeric complex. It is a highly stable trimeric targeting ligand created by fusing a specific target-binding moiety with the trimerization domain derived from CMP. The resulting fusion proteins can efficiently self-assemble into a well-defined parallel homotrimer with high stability. Surface plasmon resonance (SPR) analysis of the trimeric targeting ligands demonstrated significantly enhanced target-binding strength compared with the corresponding monomers. Cellular-binding studies confirmed that such tribodies have superior binding strength toward their respective receptors.
[287] A Centyrin is another antibody mimetic that can be obtained using a library built upon the framework of a consensus FN3 domain sequence (Diem et ah, Protein Eng. Des. SeL, 2014). This library employs diversified positions within the C-strand, CD-loop, F-strand and FG-loop of the FN3 domain, and high-affinity Centyrin variants can be selected against specific targets.
[288] All methods for introducing N-terminal Ser/Thr and the subsequent oxidation to aldehyde group for reacting with aldehyde reacting groups are applicable for cell-binding agents that are antibodies and that are not antibodies, including, for example, centyrin, Darpin, Avibody, adnectin, antibody fragment, minibody, diabody, tribody, tetrabody, nanobody, probody, duobody, domain body or unibody, etc.
[289] Certain examples below refer to various humanized anti-CD 123 antibodies, the nomenclature of such antibodies are briefly described here. One class of huCD 123-6 antibodies are humanized by grafting the 6 CDRs from the heavy and light chains of the murine anti-CD 123 antibody muCD 123-6. In those antibodies, the letter "G" immediately follows the clone designation (i.e., huCD 123-6), which is in turn followed by a version number that designates the origin of the human light chain and heavy chain variable region sequences. Thus huCD123-6Gv4.6 refers to the humanized CD123 antibody based on grafting ("G") the 6 CDR regions from the corresponding muCDR123-6 antibody, onto the human light chain variable region Gv4 and the heavy chain variable region Gv6. Similarly, - Gv4.7 comprises human light chain variable region Gv4 and heavy chain variable region Gv7.
[290] Another class of huCD 123-6 antibodies are humanized by way of resurfacing. The resurfaced antibody having the resurfaced heavy chain sequence huCD123-6rhvl . l and the resurfaced light chain sequence huCD123-6rlvl .O is huCD123-6Rvl . l .
[291] As used herein, NTS#2 or "S2" for short refers to an antibody having an engineered Ser at the N-terminus of heavy chain. Thus the S2 variant of the huCD123-6Gv4.7 antibody is designated huCD123-6Gv4.7S2. Likewise, NTS#3 or "S3" for short refers to an antibody having an engineered Ser at the N-terminus of light chain. The S3 variant of the huCD123- 6Gv4.7 antibody is designated huCD123-6Gv4.7S3.
[292] When an antibody comprising an engineered N-terminal Ser (either S2 or S3) is conjugated with a cytotoxic drug / agent through the oxidized N-terminal Ser, the conjugate name may contain a "SeriMab" designation. For example, huCD123-6Gv4.7S3-SeriMab-D8 refers to conjugate between D8 (see FIG. 17 for D8 or sD8 structure) and the humanized CD123 antibody huCD123-6Gv4.7S3, through the oxidized N-terminal Ser on the light chain.
[293] Note that the cytotoxic agents used in Examples 23-30, and FIGs. 17, 18, 22A-24, 26A-26C, and 29, such as "D8" and its sulfonated version "sD8" and related "D2," "Dl" and its sulfonated version "sDl," may not follow the general formula of drug molecule "D" in the subject conjugates, but the structures of these cytotoxic agents are depicted in the associated figures and text.
[294] Certain humanized anti-CD123 antibodies are described in U.S. Provisional
Application No. 62/186, 161, filed on June 29, 2015, entitled "ANTI-CD123 ANTIBODIES AND CONJUGATES AND DERIVATIVES THEREOF," the entire teaching of the
62/186,161 application, including all protein (e.g., antibody and CDRs, HCVRs, LCVRs, full-length HC and LC sequences thereof) and nucleic acid sequences and the associated SEQ ID NOs, particularly those of CD123-SeriMab having one or more engineered N-terminal Ser/Thr residues, are incorporated herein by reference in its entirety. CYTOTOXIC AGENTS
[295] In a third embodiment, the present invention provides cytotoxic agents (represented by D') that can be covalently linked to the cell-binding agents described herein to form the conjugates of the present invention.
[296] In one embodiment, the cytotoxic agent is a maytansinoid. More specifically, the cytotoxic agent D' is represented by the following structural formula:
Figure imgf000099_0001
wherein the variables are as described for formula (Dl) in the 5 specific embodiment of the first embodiment. More specifically, the cyto :
Figure imgf000099_0002
(D3').
[297] In another more specific embodiment, the cytotoxic agent D' is represented by the following formula:
Figure imgf000099_0003
wherein the variables as described above for formula (D4) in the 5th specific embodiment of the first embodiment. [298] In yet another specific embodiment, the cytotoxic agent D' is represented by the following formula:
Figure imgf000100_0001
[299] In another specific embodiment, the cytotoxic agent D' is a maytansinoid compound comprising an aldehyde reactive group, which can be directly linked to the cell-binding agent. More specifically, the maytansinoid compound is represented by the following formula:
Figure imgf000100_0002
[300] In another embodiment, the cytotoxic agent is a benzodiazepine compound.
Exemplary benzodiazepine compounds include, but are not limited those described in US Patent Nos. 8,765,740, 8,426,402, US2014/0088089, WO2011/130613, WO2011/130616, WO2010/091150, and WO2009/016516.
[301] In a more specific embodiment, the cytotoxic agent D' is a benzodiazepine compound represented by the following structural formula:
Figure imgf000101_0001
Figure imgf000102_0001
Figure imgf000103_0001
or a pharmaceutically acceptable salt thereof, wherein the variables are as described above for formulas (D6)-(D17) in the 6th specific embodiment of the first embodiment.
[302] In a more specific embodiment, D' is represented by the following structural formula:
Figure imgf000103_0002
or a pharmaceutically acceptable salt thereof, wherein Y is -H or -SO3M, and M is H+ or a cation. Even more specifically, Y is -SO3M, and M is H+, Na+ or K+. [303] In another more specific embodiment, the cytotoxic agent D' is a benzodiazepine compound comprising an aldehyde reactive group, which can be directly linked to the cell- binding agent. More specifically, the benzodiazepine compound is represented by the following structural formula:
Figure imgf000104_0001
Figure imgf000105_0001
or a pharmaceutically acceptable salt thereof, wherein:
one of LD', LD", and LD' " is represented by the following formula:
'-C(=0)-(CRaRb)r-Zdl-(CRaRb)r-
(Α') and the other two are the same or different, and are independently selected from -H, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, a polyethylene glycol unit -(OCH2CH2)n-Rc, halogen, guanidinium [- NH(C=NH)NH2], -OR, -NR'R", -N02, -NR'COR", -SR, -SOR', -S02R', -S03H, -OS03H, -S02NR'R", cyano, an azido, -COR', -OCOR', and -OCONR'R" ;
JCB is an aldehyde reactive group as described above in the first embodiment; and the remaining variables are as described above for structural formulas (D18)-(D23) in the 7th specific embodiment of the first embodiment and any more specific embodiments described therein. pecifically, for formulas (D18')-(D23'), J,
Figure imgf000105_0002
Figure imgf000105_0003
[305] In another more specific embodiment, for formulas (D18')-(D23'), L' is represented by formula (A) and L" and L'" are both -H; and remaining variables are as describe in any embodiments above.
[306] In another more specific embodiment, for formulas (D18')-(D23'):
the double line— between N and C represents a single bond or double bond, provided that when it is a double bond X is absent and Y is -H, and when it is a single bond, X is -H, Y is -OH or -S03M;
Ri, R2, R3, R4, Ri', R2', R3' and R4' are all -H;
R6 is -OMe;
X' and Y' are both -H;
A and A' are -0-; and M is H+, Na+ or K+; and the remaining variables are as described in any embodiments above.
[307] In yet another more specific embodiment, for formulas (D18')-(D23'), Ra and Rb are both H; and the remaining variables are as described in any embodiments above..
[308] In another more specific embodiment, for formulas (D18')-(D23'), R5 and R9 are each independently H or Me; and the remaining variables are as described any embodiments above. More specifically, R5 and Rg are both H.
[309] In another more specific embodiment, for formulas (D18')-(D23'), P is a peptide containing 2 to 10 amino acid residues; and the remaining variables are as described in any embodiments above. More specifically, P is a peptide containing 2 to 5 amino acid residues. Even more specifically, P is elected from Gly-Gly-Gly, Ala-Val, Val-Ala, Val-Cit, Val-Lys, Phe-Lys, Lys-Lys, Ala-Lys, Phe-Cit, Leu-Cit, Lle-Cit, Trp, Cit, Phe-Ala, Phe-N9-tosyl-Arg, Phe-N9-nitro-Arg, Phe-Phe-Lys, D-Phe-Phe-Lys, Gly-Phe-Lys, Leu- Ala-Leu, lie- Ala-Leu, Val-Ala-Val, Ala-Leu- Ala-Leu (SEQ ID NO: 17), β-Ala-Leu- Ala-Leu (SEQ ID NO: 18) and Gly-Phe-Leu-Gly (SEQ ID NO: 19), Val-Arg, Arg-Val, Arg-Arg, Val-D-Cit, Val-D-Lys, Val-D-Arg, D- Val-Cit, D-Val-Lys, D- Val-Arg, D-Val-D-Cit, D-Val-D-Lys, D-Val-D-Arg, D-Arg-D-Arg, Ala- Ala, Ala-D-Ala, D- Ala- Ala, and D-Ala-D-Ala.
[310] In another more specific embodiment, the cytotoxic agent D' is represented by the following structural formula:
Figure imgf000106_0001
106
Figure imgf000107_0001
Figure imgf000107_0002
CYTOTOXIC AGENT-LINKER COMPOUNDS
[311] In a fourth embodiment, the present invention provides cytotoxic agent- linker compounds having an aldehyde reactive group, which can be covalently linked to the cell- binding agents describe herein.
[312] In certain embodiments, the cytotoxic agent-linker compounds are represented by the following formula:
Figure imgf000108_0001
wherein JCB is an aldehyde reactive group described in the first embodiment; and the remaining variables are as describe above in the first embodiment or the 2nd to 6th specific embodiment of the first embodiment or any more specific embodiments described therein.
[313] More specifically, JCB is a hydrazine, a hydrazide or a hydroxylamine.
[314] In another embodiment, JCB is selected from:
Figure imgf000108_0002
wherein: Xa is CH2, O or NCH3; U' is NH, O, S or CH2; U is H or an electron
Z Z' donating group; X and X ' are each independently -OH, -SH or -NH2; R and R are each independently H or an alkyl (preferably -Me); R " is H or an alk l; and Xc is N or CH. More
specifically, the aldehyde reactive group
Figure imgf000108_0003
; ; or
Figure imgf000109_0001
109
Figure imgf000110_0001
110
Figure imgf000111_0001
Figure imgf000112_0001
Figure imgf000113_0001
or a pharmaceutically acceptable salt thereof, and Y is H or -SO3M and M is H+, Na+ or K+. MODIFIED CELL-BINDING AGENT
[316] In a fifth embodiment, the present invention provides modified cell-binding agents formed by reacting cell-binding agents described herein with a linker compound having an aldehyde reactive group.
[317] In certain embodiment, the modified cell-binding agent is represented by the following formula:
Figure imgf000114_0001
wherein JD is a reactive group that can form a covalent bond with the cytotoxic agent D'; and the remaining variables are as described above in the first embodiment or any specific embodiments described therein.
[318] In a 1st specific embodiment, for modified cell-binding agent of structural formula (III) or a pharmaceutically acceptable salt thereof, JCB' is represented by one of the following structural formulas:
Figure imgf000114_0002
Figure imgf000115_0001
wherein: Xa is CH2, O or NCH3; U' is NH, O, S or CH2; U is H or an electron donating group; y Z Z'
XM and Xbi' are each independentl -0-, -S- or -NH-; R and R are each independently H or an alkyl (preferably -Me); and R " is H or an alkyl; si is the site covalently linked to the cell-binding agent; and s2 is the site covalently linked to the group
L. More specifically
Figure imgf000115_0002
s2.
Figure imgf000115_0003
Figure imgf000115_0004
[319] In a 2nd specific embodiment, for formula (III), -L-JD is represented by the following formula:
Figure imgf000115_0005
wherein JD is -SH, -SSRD or -SC(=0)RG, wherein RD is phenyl, nitrophenyl, dinitrophenyl, carboxynitrophenyl, pyridyl or nitropyridyl; and RG is alkyl; JCB' is as described above in the 1st specific embodiment; and the remaining variables are as described above for formula (LI) in the 2ND specific embodiment of the first embodiment and any more specific embodiments described therein. More specifically, JD is-SH or -SSRd.
[320] In a more specific embodiment, -L-JD is represented by the following structural formula:
Figure imgf000116_0001
Figure imgf000116_0002
or a pharmaceutically acceptable salt thereof, wherein JCB' and JD are as described above in the 2ND specific embodiment. More specifically, JD is-SH or -SSRd.
a rd
[321] In 3 specific embodiment, for formula (III), -L-JD is represented by the following formula:
Figure imgf000116_0003
wherein JD is -OH or halogen; or -C(=0)-JD is a reactive ester; JCB' is as described above in the 1 specific embodiment; and the remaining variables are as described above for formulas (L2) and (L3) in the 3RD specific embodiment of the first embodiment or any more specific embodiments described therein. More specifically, -C(=0)-JD is N-hydroxysuccinimide ester.
[322] In a more specific embodiment, -L-JD is represented by the following structural formula:
O ιι
Figure imgf000116_0004
o H o o o
; or
Figure imgf000117_0001
wherein JCB' and JD are as described above in the 3r specific embodiment. More specifically, - C(=0)-JD is N-hydroxysuccinimide ester.
[323] In a 4th specific embodiment, for formula (III), -L-JD is represented by the following formula:
— Zc1-A— Q-L'-fQ')— A'— JD
k (L4'); wherein JD is a maleimide,
Figure imgf000117_0002
Figure imgf000117_0003
0 or ; X' is a halogen; JCB' is as described above in the 1st specific embodiment; and the remaining variables are as described above for structural formula (L4) in the 4th specific embodiment of the first embodiment and any more specific embodiments described therein.
[324] In certain embodiments, for formula (III) described in any one of embodiments above, such as in the fifth embodiment or the 1st to 4th specific embodiments of the fifth
embodiment, or any more specific embodiments described therein, CBA can be any cell- binding agents described in the second embodiment.
B IFUNCTION AL CROSSLINKING AGENT (OR LINKER COMPOUND)
[325] In a sixth embodiment, the present invention provides bifunctional crosslinking agents (i.e., linker compounds) having an aldehyde group and a reactive group that can form a covalent bond with the cytotoxic agents described herein.
[326] In one embodiment, the linker compound is represented by the following formula:
JCB-L-JD (IV),
wherein the variables are as described above formulas (I), (II) and (III). [327] In one embodiment the linker compound is represented by the following formula:
Figure imgf000118_0001
or a pharmaceutically acceptable salt thereof, wherein JCB is an aldehyde reactive group described in the first embodiment; and the remaining variables are as described above for structural formula (LI '). More specifically, JD is-SH or -SSRd. Even more specifically, JCB is
Figure imgf000118_0002
[328] In a more specific embodiment, the bifunctional crosslinking agent is represented by the following structural formula:
Figure imgf000118_0003
or a pharmaceutically acceptable salt ove.
Figure imgf000118_0004
More specifically, JD is-SH or -SSR . ven more spec ca y,
Figure imgf000118_0005
[329] In another embodiment, the linker compound is represented by the following structural formula:
Figure imgf000118_0006
wherein JCB is an aldehyde reactive group described in the first embodiment; and the remaining variables are as described above for structural formulas (L2' ) and (L3' ). More pecifically, -C(=0)-JD is N-hydroxysuccinimide ester. Even more specifically, JCB is
Figure imgf000119_0001
[330] In a more specific embodiment, the bifunctional crosslinking agent is represented by the following structural formula:
JCB\/ ,-0. jD . JcB/ L,Di JCB-
Figure imgf000119_0002
wherein JCB and JD are as described above. More specifically, -C(=0)-JD is -hydroxysuccinimide ester. Even more specifically, JJCCBB iiss
Figure imgf000119_0003
; or
Figure imgf000119_0004
[331] In another embodiment, the bifunctional crosslinking agent is represented by the following structural formula:
JCB— Zd-A— Q-L'-fQ'J-A'— jD
K (IV4);
wherein JD is a maleimide,
Figure imgf000119_0005
Figure imgf000119_0006
0 or O ; X' is a halogen; and the remaining variables are as described above for structural formula (L4'). More s ecifically, JD is a maleimide. Even more
specifically, JCB is * H ;
Figure imgf000120_0001
; or
PRODUCTION OF CELL-BINDING AGENT-DRUG CONJUGATES
[332] In a seventh embodiment, the present invention provides methods for preparing the cell-binding agent-cytotoxic agent conjugates described herein.
[333] In one embodiment, the present invention provides a method of preparing the cell- binding agent-cytotoxic agent conjugates described herein comprising the steps of:
(a) oxidizing a 2-hydroxyethylamine moiety of a cell-binding agent with an oxidizing agent to form an oxidized cell-binding agent having an aldehyde group; wherein the 2- hydroxyethylamine moiety is part of a serine, threonine, hydroxylysine, 4-hydroxyornithine or 2,4-diamino-5-hydroxy valeric acid residue, and is represented by the following structural formula:
Figure imgf000120_0002
(b) contacting the oxidized cell-binding agent with:
(i) a cytotoxic agent-linker compound having an aldehyde reactive group or a cytotoxic agent having an aldehyde reactive group to form the cell-binding agent-cytotoxic agent conjugate; or
(ii) a linker compound having an aldehyde reactive group to form a modified antibody or a modified antigen-binding portion thereof having a linker bound thereto, followed by reacting the modified antibody or the modified antigen-binding portion thereof with a cytotoxic agent to form the cell-binding agent-cytotoxic agent conjugate; or
(iii) a cytotoxic agent followed by the addition of a linker compound having an aldehyde reactive group and a reactive group that can form a covalent bond with the cytotoxic agent to form the cell-binding agent-cytotoxic agent conjugate.
[334] In a 1st specific embodiment, the cell binding-agent is an antibody or an antigen binding portion thereof and the method comprises the steps of: (a) oxidizing an 2-hydroxyethylamine moiety of an antibody or an antigen-binding portion thereof with an oxidizing agent to form an oxidized antibody or an oxidized antigen- binding portion thereof having an aldehyde group,
Figure imgf000121_0001
wherein the 2-hydroxyethylamine moiety is part of an N-terminal serine, threonine, hydroxylysine, 4-hydroxyornithine or 2,4-diamino-5-hydroxy valeric acid residue; and
(b) reacting the oxidized antibody or the oxidized antigen-binding portion thereof with a cytotoxic agent-linker compound having an aldehyde reactive group or a cytotoxic agent having an aldehyde reactive group to form the antibody-cytotoxic agent conjugate
Figure imgf000121_0002
JCCBB— D (°r D') * AbvA JCB'— D j
w wherein:
Ab is an antibody or an antigen binding portion thereof described herein; JCB is an aldehyde reactive group as described above; L is a spacer or a bond as described above;
JD' is a linking moiety connecting cytotoxic agent D with the group L or absent when L is a bond;;
D is a cytotoxic agent covalently linked to L through the linking moiety JD'; and w is 1, 2, 3 or 4.
[335] In certain embodiments, for the methods described in the 1st specific embodiment above, any cytotoxic agent-linker compounds described in the fourth embodiment above or cytotoxic agent described in the third embodiment can be used.
[336] In certain embodiments, for the methods described in the 1st specific embodiment above, the cytotoxic agent-linker compound or the cytotoxic agent having an imine functional group (-C=N-) is reacted with an imine-reactive reagent to form a modified cytotoxic agent- linker compound or a modified cytotoxic agent before reacting with the oxidized antibody or the oxidized antigen-binding portion thereof in step (b). In one embodiment, the modified cytotoxic agent-linker compound or a modified cytotoxic agent is generated in situ and reacted with the oxidized antibody or the oxidized antigen-binding portion thereof without purification.
[337] In a 2nd specific embodiment, the cell binding-agent is an antibody or an antigen binding portion thereof and the method comprises the steps of:
(a) oxidizing an N-terminal 2-hydroxyethylamine moiety of an antibody or an antigen-binding portion thereof with an oxidizing agent to form an oxidized antibody or an oxidized antigen-binding portion thereof having a N-terminal aldehyde group,
Figure imgf000122_0001
wwhheerreeiinn tthhee 22--hhyyddrrooxxyyeetthhyyllaammiinnee mmooiieettyy iiss ppaarrtt ooff aann NN--tteerrmmiinnaall sseerriinnee,, tthhrreeoonniinnee,, hhyyddrrooxxyyllyyssiinnee,, 44--hhyyddrrooxxyyoorrnniitthhiinnee oorr 22,,44--ddiiaammiinnoo--55--hhyyddrrooxxyy vvaalleerriicc aacciidd rreessiidduuee;; aanndd
((bb)) rreeaaccttiinngg tthhee ooxxiiddiizzeedd aannttiibbooddyy oorr tthhee ooxxiiddiizzeedd aannttiiggeenn--bbiinnddiinngg ppoorrttiioonn tthheerreeooff wwiitthh aa lliinnkkeerr ccoommppoouunndd hhaavviinngg aann aallddeehhyyddee rreeaaccttiivvee ggrroouupp ttoo ffoorrmm aa mmooddiiffiieedd aannttiibbooddyy oorr aa mmooddiiffiieedd aannttiiggeenn--bbiinnddiinngg ppoorrttiioonn tthheerreeooff hhaavviinngg aa lliinnkkeerr bboouunndd tthheerreettoo,, ffoolllloowweedd bbyy rreeaaccttiinngg tthhee mmooddiiffiieedd aannttiibbooddyy oorr tthhee mmooddiiffiieedd aannttiiggeenn--bbiinnddiinngg ppoorrttiioonn tthheerreeooff wwiitthh aa ccyyttoottooxxiicc aaggeenntt ttoo ffoorrmm tthhee aannttiibbooddyy--ccyyttoottooxxiicc aaggeenntt ccoonnjjuuggaattee
Figure imgf000122_0002
wherein D' is a cytotoxic agent; JD is a reactive group that can form a covalent bond with the cytotoxic agent D'; and the remaining variables are as described in the 1st specific
embodiment.
[338] In certain embodiments, for methods described in the 2nd specific embodiment above, any linker compounds described in the sixth embodiment above can be used.
[339] In certain embodiments, for methods described in the 2nd specific embodiment, the cytotoxic agent having an imine functional imine functional group (-C=N-) is reacted with an imine-reactive reagent to form a modified cytotoxic agent before reacting with the modified antibody or the modified antigen-binding portion thereof having a linker bound thereto in step (b). In one embodiment, the modified cytotoxic agent is generated in situ and not purified before reacting with the modified antibody or the modified antigen-binding portion thereof having a linker bound thereto.
rd
[340] In a 3 specific embodiment, the cell binding-agent is an antibody or an antigen binding portion thereof and the method comprises the steps of:
(a) oxidizing an N-terminal 2-hydroxyethylamine moiety of an antibody or an antigen-binding portion thereof with an oxidizing agent to form an oxidized antibody or an oxidized antigen-binding portion thereof having a N-terminal aldehyde group,
Figure imgf000123_0001
wherein the 2-hydroxyethylamine moiety is part of an N-terminal serine, threonine, hydroxylysine, 4-hydroxyornithine or 2,4-diamino-5-hydroxy valeric acid residue; and
(b) contacting the oxidized antibody or the oxidized antigen-binding portion thereof with a cytotoxic agent followed by addition of a linker compound having an aldehyde reactive group to form the antibody-cytotoxic agent conjugate JCB'— L JD'— D
Figure imgf000123_0002
wherein the variables are as described above in the Is and 2n specific embodiments.
rd
[341] In certain embodiments, for the methods described in the 3 specific embodiment above, any linker compounds described in the sixth embodiment and cytotoxic agent described in the third embodiment can be used.
[342] Any suitable oxidizing agent can be used in step (a) of the methods described above. In certain embodiments, the oxidizing agent is a periodate. More specifically, the oxidizing agent is sodium periodate.
[343] Excess molar equivalents of the oxidizing agent relative to the cell-binding agent (e.g. , antibody) can be used. In certain embodiments, about 2- 100, 5-80, 10-50, 1- 10 or 5- 10 molar equivalents of the oxidizing agent can be used. In certain embodiment, about 10 or about 50 equivalents of the oxidizing agent can be used. When large amount of the oxidizing agent is used, short reaction time is used to avoid over- oxidation. For example, when 50 equivalents of the oxidizing agent is used, the oxidation reaction is carried out for about 5 to about 60 minutes. Alternatively, when 10 equivalents of the oxidizing agent is used, the reaction is carried out for about 30 minutes to about 24 hours. In one embodiment, 5-10 molar equivalents of the oxidizing agent is used and the oxidation reaction is carried out for about 5 to about 60 minutes (e.g. , about 10 to about 30 minutes, about 20 to about 30 minutes).
[344] In certain embodiments, the oxidation reaction does not lead to significant non- targeted oxidation. For example, no signification amount (e.g. , less than 20%, less than 10%, less than 5%, less than 3%, less than 2% or less than 1%) of methionine and/or glycans are oxidized during the oxidation process of N-terminal serine to generate the oxidized
CD123/IL-3Ra-binding agent having a N-terminal aldehyde group.
[345] In certain embodiments, a catalyst is present in the reaction of step (b) in the methods described above. Any suitable catalyst in the art can be used. In one embodiment, the catalyst is an aniline or substituted aniline. Exemplary aniline catalyst include, but are not limited to, aniline, o-phenylenediamine, m-phenylenediamine, 3,5-diaminobenzoic acid, p- phenylenediamine, 2-methyl-p-phenylenediamine, N-methyl-p-phenylenediamine, o- aminophenol, m-aminophenol, p-aminophenol, p-methoxyaniline, 5-methoxy-anthranilic acid, o-aminobenzoid acid, and 4-aminophenethylalcohol. In one embodiment, the catalyst is 4-aminophenethylalcohol. In certain embodiments, the reaction of step (b) is carried out at pH about 5.0 to about 6.5. In certain embodiments, the reaction of step (b) is carried out at pH about 5.0.
[346] In certain embodiments, for step (b) of the methods described herein, the compound having an aldehyde reactive group (e.g. , cytotoxic agent- linker compound, cytotoxic agent, or the linker compound described herein) is used in molar excess relative to the oxidized cell- binding agent (e.g. , oxidized antibody or oxidized antigen binding portion). In certain embodiments, the ratio for the compound having an aldehyde reactive group to oxidized cell- binding agent is between about 10: 1 to about 1.1 : 1, between about 5: 1 to about 2: 1. In one embodiment, the ratio is about 4: 1.
[347] In certain embodiments, for the methods described above, such as those in the third or the 1st to 3rd specific embodiments, the cell-binding agent, such as the antibody or antigen binding portion thereof, can be obtained by any methods described herein.
[348] In a 4th specific embodiment, the present invention provides a method of preparing an antibody-cytotoxic agent conjugate, comprising the steps of:
(a) oxidizing a 2-hydroxyethylamine moiety of an N-terminal serine or threonine residue of an antibody or an antigen-binding portion thereof, with an oxidizing agent to form an oxidized antibody or an oxidized antigen-binding portion thereof having a N-terminal aldehyde group, wherein the 2-hydroxyethylamine moiety is represented by the following structural formula:
Figure imgf000125_0001
and
(b) contacting the oxidized antibody or the oxidized antigen-binding portion thereof with: (i) a cytotoxic agent-linker compound having an aldehyde reactive group to form the antibody-cytotoxic agent conjugate; or (ii) a linker compound having an aldehyde reactive group to form a modified antibody or a modified antigen-binding portion thereof having a linker bound thereto, followed by reacting the modified antibody or the modified antigen- binding portion thereof with a cytotoxic agent to form the antibody-cytotoxic agent conjugate; or (iii) a cytotoxic agent followed by the addition of a linker compound having an aldehyde reactive group and a reactive group that can form a covalent bond with the cytotoxic agent to form the antibody-cytotoxic agent conjugate.
[349] In certain embodiments, for any methods described above, such as those in the seventh embodiment or the 1st to 4th specific embodiment or any more specific embodiment, the antibody or antigen-binding portion thereof is obtained by expressing a polynucleotide encoding a recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof comprising: (1) a heterologous signal peptide having an amino acid sequence of SEQ ID NO: 1; (2) a Ser or Thr residue immediately N-terminal to the first residue of the mature processed sequence of the recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof; or (3) a Ser or Thr residue replacing one or more N- terminal amino acid residue(s) of the mature processed sequence of the recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof.
[350] In certain embodiments, for any methods described above, such as those in the seventh embodiment or the 1st to 4th specific embodiment or any more specific embodiment, the antibody or antigen-binding portion thereof comprises a light chain sequence of SEQ ID NO: 3.
[351] In certain embodiments, for any methods described above, such as those in the seventh embodiment or the 1st to 4th specific embodiment or any more specific embodiment, the antibody or antigen-binding portion thereof is a chimeric, humanized, or human antibody or antigen-binding portion thereof of a murine antibody or antigen-binding portion thereof comprising a light chain sequence of SEQ ID NO: 3. The humanized antibody or antigen- binding portion thereof may be a resurfaced or CDR grafted antibody or antigen-binding portion thereof. [352] In certain embodiments, the conjugate prepared according to any methods described above can then be purified. Any purification methods known in the art can be used to purify the conjugates of the present invention(See, for example, Bioconjugate Techniques, 2nd Edition by Greg T. Hermanson, published by Academic Press, Inc., 2008). In one embodiment, the conjugates of the present invention can be purified using tangential flow filtration (TFF), non-adsorptive chromatography, adsorptive chromatography, adsorptive filtration, selective precipitation, high performance liquid chromatography (HPLC), dialysis or any other suitable purification process, as well as combinations thereof.
[353] Any suitable TFF systems may be utilized for purification, including a Pellicon type system (Millipore, Billerica, MA), a Sartocon Cassette system (Sartorius AG, Edgewood, NY), and a Centrasette type system (Pall Corp., East Hills, NY).
[354] Any suitable adsorptive chromatography resin may be utilized for purification.
Preferred adsorptive chromatography resins include hydroxyapatite chromatography, hydrophobic charge induction chromatography (HCIC), hydrophobic interaction
chromatography (HIC), ion exchange chromatography, mixed mode ion exchange
chromatography, immobilized metal affinity chromatography (IMAC), dye ligand
chromatography, affinity chromatography, reversed phase chromatography, and combinations thereof. Examples of suitable hydroxyapatite resins include ceramic hydroxyapatite (CHT Type I and Type II, Bio-Rad Laboratories, Hercules, CA), HA Ultrogel hydroxyapatite (Pall Corp., East Hills, NY), and ceramic fluoroapatite (CFT Type I and Type II, Bio-Rad
Laboratories, Hercules, CA). An example of a suitable HCIC resin is MEP Hypercel resin (Pall Corp., East Hills, NY). Examples of suitable HIC resins include Butyl-Sepharose, Hexyl-Sepaharose, Phenyl-Sepharose, and Octyl Sepharose resins (all from GE Healthcare, Piscataway, NJ), as well as Macro-prep Methyl and Macro-Prep t-Butyl resins (Biorad Laboratories, Hercules, CA). Examples of suitable ion exchange resins include SP- Sepharose, CM-Sepharose, and Q-Sepharose resins (all from GE Healthcare, Piscataway, NJ), and Unosphere S resin (Bio-Rad Laboratories, Hercules, CA). Examples of suitable mixed mode ion exchangers include Bakerbond ABx resin (JT Baker, Phillipsburg NJ).
Examples of suitable IMAC resins include Chelating Sepharose resin (GE Healthcare, Piscataway, NJ) and Profinity IMAC resin (Bio-Rad Laboratories, Hercules, CA). Examples of suitable dye ligand resins include Blue Sepharose resin (GE Healthcare, Piscataway, NJ) and Affi-gel Blue resin (Bio-Rad Laboratories, Hercules, CA). Examples of suitable affinity resins include Protein A Sepharose resin {e.g., MabSelect, GE Healthcare, Piscataway, NJ), His-Tag metal affinity resins, anti-FLAG affinity resins, and lectin affinity resins, e.g. Lentil Lectin Sepharose resin (GE Healthcare, Piscataway, NJ), where the antibody bears appropriate lectin binding sites. Examples of suitable reversed phase resins include C4, C8, and C18 resins (Grace Vydac, Hesperia, CA).
[355] Any suitable non-adsorptive chromatography resin may be utilized for purification. For example, size-exclusion chromatography can be used for purifying the conjugates of the invention. Examples of suitable non-adsorptive chromatography resins include, but are not limited to, SEPHADEX™ G- 10, G-25, G-50, G- 100, SEPHACRYL™ resins (e.g., S-200 and S-300), SUPERDEX™ resins (e.g. , SUPERDEX™ 75 and SUPERDEX™ 200), BIO-GEL® resins (e.g. , P-6, P-10, P-30, P-60, and P- 100), and others known to those of ordinary skill in the art.
[356] In one embodiment, when the cell-binding agent is an epitope-tagged Avibody, the conjugate can be purified using hydroxyl apatite chromatography, size-exclusion
chromatography, tangential flow filtration, gel electrophoresis, dialysis, and affinity chromatography, preferably affinity chromatography, more preferably His-tag metal affinity chromatography and anti-FLAG M2 affinity chromatography (see, for example,
US 2008/0152586 and US 2012/0171115).
[357] In another embodiment, when the cell-binding agent is a centyrin, the conjugate can be purified using protein A purification, ammonium sulfate or ethanol precipitation, acid extraction, anion or cation exchange chromatography, phosphocellulose chromatography, hydrophobic interaction chromatography, size-exclusion chromatography, tangential flow filtration, affinity chromatography, hydroxylapatite chromatography and lectin
chromatography. Alternatively, the conjugate can be purified using HPLC. Preferably, the conjugate can be purified by using affinity chromatography, more preferably His-tag metal affinity chromatography. See, for example, US Patent Publication Nos. US 2010/0255056, US 2010/0216708 and US 2011/0274623.
[358] In another embodiment, when the cell-binding agent is a DARPin, the conjugate can be purified by affinity chromatography, size exclusion chromatography, hydroxylapatite chromatography, tangential flow filtration, preferably affinity chromatography, more preferably His-Tag affinity chromatography. See, for example, U.S. Patent Publication Nos. 20040132028, 2009/0082274, 2011/0118146, and 2011/0224100, WO 02/20565 and WO 06/083275. IN VITRO EVALUATION OF CYTOTOXICITY
[359] The cytotoxic compounds and cell-binding agent-drug conjugates of the invention can be evaluated for their ability to suppress proliferation of various cancer cell lines in vitro. Cells to be evaluated can be exposed to the compounds or conjugates for 1-5 days and the surviving fractions of cells measured in direct assays by known methods. IC50 values can then be calculated from the results of the assays. Alternatively or in addition, an in vitro cell line sensitivity screen, such as the one described by the U.S. National Cancer Institute (see Voskoglou-Nomikos et al., 2003, Clinical Cancer Res. 9: 42227-4239, incorporated herein by reference) can be used as one of the guides to determine the types of cancers that may be sensitive to treatment with the compounds or conjugates of the invention.
COMPOSITIONS AND METHODS OF USE
[360] The present invention includes a composition (e.g. , a pharmaceutical composition) comprising novel benzodiazepine compounds described herein (e.g., indolinobenzodiazepine or oxazolidinobenzodiazepine), derivatives thereof, or conjugates thereof, (and/or solvates, hydrates and/or salts thereof) and a carrier (a pharmaceutically acceptable carrier). The present invention also includes a composition (e.g., a pharmaceutical composition) comprising novel benzodiazepine compounds described herein, derivatives thereof, or conjugates thereof, (and/or solvates, hydrates and/or salts thereof) and a carrier (a
pharmaceutically acceptable carrier), further comprising a second therapeutic agent. The present compositions are useful for inhibiting abnormal cell growth or treating a proliferative disorder in a mammal (e.g. , human). The present compositions are also useful for treating depression, anxiety, stress, phobias, panic, dysphoria, psychiatric disorders, pain, and inflammatory diseases in a mammal (e.g. , human).
The present invention includes a method of inhibiting abnormal cell growth or treating a proliferative disorder in a mammal (e.g. , human) comprising administering to said mammal a therapeutically effective amount of novel benzodiazepine compounds described herein (e.g., indolinobenzodiazepine or oxazolidinobenzodiazepine), derivatives thereof, or conjugates thereof, (and/or solvates and salts thereof) or a composition thereof, alone or in combination with a second therapeutic agent.
[361] In one embodiment, the proliferative disorder is cancer. Cancer can include a hematological cancer or a solid tumor. More specifically, the cancer is leukemia (e.g. , acute myeloid leukemia (AML), acute monocytic leukemia, promyelocytic leukemia, eosinophilic leukemia, acute lymphoblastic leukemia (ALL) such as acute B lymphoblastic leukemia (B- ALL), chronic myelogenous leukemia (CML), chronic lymphocytic leukemia (CLL)) or lymphoma (e.g., non-Hodgkin lymphoma), myelodysplasia syndrome (MDS)„ melanoma, lung cancer (e.g., non-small cell lung cancer (NSCLC)), ovarian cancer, endometrial cancer, peritoneal cancer, pancreatic cancer, breast cancer, prostate cancer, squamous cell carcinoma of the head and neck, and cervical cancer.
[362] The present invention also provides methods of treatment comprising administering to a subject in need of treatment an effective amount of any of the conjugates described above. Similarly, the present invention provides a method for inducing cell death in selected cell populations comprising contacting target cells or tissue containing target cells with an effective amount of a cytotoxic agent comprising any of the cytotoxic compound-cell-binding agents (e.g., indolinobenzodiazepine or oxazolidinobenzodiazepine dimer linked to a cell binding agent) of the present invention, a salt or solvate thereof. The target cells are cells to which the cell-binding agent can bind.
[363] If desired, other active agents, such as other anti-tumor agents, may be administered along with the conjugate.
[364] Suitable pharmaceutically acceptable carriers, diluents, and excipients are well known and can be determined by those of ordinary skill in the art as the clinical situation warrants. Examples of suitable carriers, diluents and/or excipients include: (1) Dulbecco's phosphate buffered saline, pH about 7.4, containing or not containing about 1 mg/mL to 25 mg/mL human serum albumin, (2) 0.9% saline (0.9% w/v NaCl), and (3) 5% (w/v) dextrose; and may also contain an antioxidant such as tryptamine and a stabilizing agent such as Tween 20.
[365] The method for inducing cell death in selected cell populations can be practiced in vitro, in vivo, or ex vivo.
[366] Examples of in vitro uses include treatments of autologous bone marrow prior to their transplant into the same patient in order to kill diseased or malignant cells; treatments of bone marrow prior to their transplantation in order to kill competent T cells and prevent graft- versus-host-disease (GVHD); treatments of cell cultures in order to kill all cells except for desired variants that do not express the target antigen; or to kill variants that express undesired antigen. The conditions of non-clinical in vitro use are readily determined by one of ordinary skill in the art.
[367] Examples of clinical ex vivo use are to remove tumor cells or lymphoid cells from bone marrow prior to autologous transplantation in cancer treatment or in treatment of autoimmune disease, or to remove T cells and other lymphoid cells from autologous or allogenic bone marrow or tissue prior to transplant in order to prevent GVHD. Treatment can be carried out as follows. Bone marrow is harvested from the patient or other individual and then incubated in medium containing serum to which is added the cytotoxic agent of the invention, concentrations range from about 10 μΜ to 1 pM, for about 30 minutes to about 48 hours at about 37°C. The exact conditions of concentration and time of incubation, i.e., the dose, are readily determined by one of ordinary skill in the art. After incubation the bone marrow cells are washed with medium containing serum and returned to the patient intravenously according to known methods. In circumstances where the patient receives other treatment such as a course of ablative chemotherapy or total-body irradiation between the time of harvest of the marrow and reinfusion of the treated cells, the treated marrow cells are stored frozen in liquid nitrogen using standard medical equipment.
[368] For clinical in vivo use, the cytotoxic agent of the invention will be supplied as a solution or a lyophilized powder that are tested for sterility and for endotoxin levels.
Examples of suitable protocols of conjugate administration are as follows. Conjugates are given weekly for 4 weeks as an intravenous bolus each week. Bolus doses are given in 50 to 1000 mL of normal saline to which 5 to 10 mL of human serum albumin can be added.
Dosages will be 10 μg to 2000 mg per administration, intravenously (range of 100 ng to 20 mg/kg per day). After four weeks of treatment, the patient can continue to receive treatment on a weekly basis. Specific clinical protocols with regard to route of administration, excipients, diluents, dosages, times, etc., can be determined by one of ordinary skill in the art as the clinical situation warrants.
Examples of medical conditions that can be treated according to the in vivo or ex vivo methods of inducing cell death in selected cell populations include malignancy of any type including, for example, cancer; autoimmune diseases, such as systemic lupus, rheumatoid arthritis, and multiple sclerosis; graft rejections, such as renal transplant rejection, liver transplant rejection, lung transplant rejection, cardiac transplant rejection, and bone marrow transplant rejection; graft versus host disease; viral infections, such as CMV infection, HIV infection, AIDS, etc.; and parasite infections, such as giardiasis, amoebiasis, schistosomiasis, and others as determined by one of ordinary skill in the art.
[369] Cancer therapies and their dosages, routes of administration and recommended usage are known in the art and have been described in such literature as the Physician's Desk Reference (PDR). The PDR discloses dosages of the agents that have been used in treatment of various cancers. The dosing regimen and dosages of these aforementioned chemotherapeutic drugs that are therapeutically effective will depend on the particular cancer being treated, the extent of the disease and other factors familiar to the physician of skill in the art and can be determined by the physician. The contents of the PDR are expressly incorporated herein in its entirety by reference. One of skill in the art can review the PDR, using one or more of the following parameters, to determine dosing regimen and dosages of the chemotherapeutic agents and conjugates that can be used in accordance with the teachings of this invention. These parameters include:
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ANALOGUES AND DERIVATIVES
[370] One skilled in the art of cytotoxic agents will readily understand that each of the cytotoxic agents described herein can be modified in such a manner that the resulting compound still retains the specificity and/or activity of the starting compound. The skilled artisan will also understand that many of these compounds can be used in place of the cytotoxic agents described herein. Thus, the cytotoxic agents of the present invention include analogues and derivatives of the compounds described herein.
[371] All references cited herein and in the examples that follow are expressly incorporated by reference in their entireties.
EXAMPLES
Example 1 Construction of recombinant antibodies with N-terminal Ser / Thr
[372] The sequence of the murine anti-folate receptor alpha antibody FR1-2.1 light chain (LC) was previously described with an N-terminal Serine (U.S. patent application numbers: 61/872,407, filed on August 30, 2013; 61/875,475, filed on September 9, 2013; and
61/940,184, filed on February 14, 2014; and WO 2015/031815 claiming priority thereto, all incorporated by reference). This N-terminal Ser is the result of signal peptidase utilizing an usual cleavage site in the signal peptide of the IGKV 1-99*01 murine germline sequence (accession number CAB46122; SEQ ID NO: 2) from which the FR1-2.1 light chain is derived. Unlike typical antibody signal peptides that are completely removed upon cleavage during antibody expression, the final serine of the IGKV 1-99* signal peptide (Kabat position -1) remains at the N terminus of the FR1-2.1 light chain. The FR1-2.1 antibody proved to be a useful tool for evaluating the serine oxidation modification methods described herein, and, in addition, the FR1-2.1 signal peptide (Table 1; SEQ ID NO: 1) provides a possible mechanism for generating recombinant antibodies with serines at their light or heavy chain N termini. The use of a native antibody signal peptide to incorporate the N-terminal serine allows for the avoidance of potential negative consequences of antibody engineering, including but not limited to expression problems and cleavage site heterogeneity that could come from non-natural constructs.
[373] To demonstrate that the FR1-2.1 signal peptide leaves a serine residue at the N- terminus of recombinant antibodies expressed in transfected mammalian cell lines, new antibody expression constructs were synthesized utilizing the FR 1-2.1 light chain signal peptide. The variable region amino acid sequence for humanized Movl9 light chain (LC), previously described in U.S. Patent No. 8,557,966 (Table 1: SEQ ID NO: 3), was combined with the FR 1-2.1 signal peptide in place of the standard antibody signal peptide (SEQ ID NO: 6) to generate the huMovl9 LC NTS1 sequence (SEQ ID NO: 10). The light chain sequence was then provided to Blue Heron Biotechnology where it was codon-optimized, synthesized, and cloned into the EcoRI and BsiWI sites of the pAbKZeo mammalian expression plasmid containing the human Kappa constant region sequence.
[374] An alternative approach to generate recombinant antibodies with serine / threonione residues at the N termini is to replace the N-terminal residue (Kabat position +1) with a serine or a threonine. To demonstrate this methodology, the humanized Movl9 heavy chain (HC) (SEQ ID NO: 8) N-terminal residue (glutamine) was replaced with a serine to generate the huMovl9 HC NTS2 sequence (SEQ ID NO: 11). The heavy chain sequence was then codon- optimized, synthesized, and cloned by Blue Heron Biotechnology in frame with the human IgGl constant region at the Hindlll and Apal sites of the pAbGlNeo plasmid. [375] Various combinations of the N-terminal serine addition and N-terminal serine replacement schemes described above are used to generate additional recombinant antibodies with up to 4 N-terminal serines (e.g. , 2 on the heavy chains and 2 on the light chains). The reverse of the constructs described above are synthesized such that the humanized Movl9 light chain (LC) has its N-terminal aspartate replaced with serine (huMovl9LC NTS3, SEQ ID NO: 12) or conversely, the humanized Movl9 heavy chain is synthesized with the FR1- 2.1 signal peptide to add the N terminal serine (huMovl9HC NTS4; SEQ ID NO: 14). In addition, these light and heavy chain constructs can be mixed together to generate
recombinant antibodies with serines at both N-termini for a total of 4 N-terminal serines per antibody (e.g. , huMovl9LC NTS 3 with huMovl9HC NTS4). These constructs are limited to either 2 (single chain N terminal serines) or 4 (both chains with N terminal serines) incorporation sites but with heterodimeric antibody technologies, such as "Knob in the Hole" mutations (WO 2005/063816 A2, incorporated by reference). Construction of antibodies with either 1 or 3 N terminal serines is also possible.
[376] Finally, although additional approaches to generate recombinant antibodies with N- terminal serines could be followed, such as multi-amino acid N-terminal appendages or N-terminal truncations, the described methods provide the added advantage that they are less likely to impact critical antibody attributes such as binding specificity or structural integrity.
[377] In addition to serines, recombinant antibodies can be generated with threonine residues at their N-termini by simply replacing the N terminal residue (Kabat position +1) with a threonine in order to conjugate these antibodies by the methods described herein. For example, the humanized Movl9 light chain (LC) N terminal aspartate is replaced with threonine (huMovl9 LC NTTl, SEQ ID NO: 15) or the humanized Movl9 heavy chain (HC) N-terminal glutamine is replaced with a threonine (huMovl9 HC NTT2, SEQ ID NO: 16). These constructs are then cloned into the respective mammalian expression plasmids as described above.
Table 1. Selected Sequences
Antibody Sequence
FR 1-2.1 light chain MKLPVLLVVLLLFTSPASSS (SEQ ID NO: 1)
signal peptide
(NCBI CAB46122) Antibody Sequence
IGKV 1-99*01 MKLPVLLVVLLLFTSPASSSDVVLTQTPLSLPV IGDQAS I SCKSTKSL
Accession LNSDGFTYLDWYLQKPGQSPQLLIYLVSNRFSGVPDRFSGSGSGTDFTL
CAB46122 KISRVEAEDLGVYYCFQSNYLP (SEQ ID NO: 2)
IGKV 1-99*01 MKLPVLLVVLLLFTSPASSSDVVLTQTPLSLPVNIGDQAS I SCKSTKSL
Accession LNSDGFTYLDWYLQKPGQSPQLLIYLVSNRFSGVPDRFSGSGSGTDFTL
CAB46122 KISRVEAEDLGVYYCFQSNYLP (SEQ ID NO: 2)
FR 1-2.1 light chain SDVVLTQTPLSLPVNIGDQAS I SCKSSKSLLNSDGFTYLDWYLQKPGQS (as expressed) PQLLIYLVSNHFSGVPDRFSGSGSGTDFTLKI SRVEAEDLGVYYCFQSN
YLPLTFGGGTKLEIKRADAAPTVS IFPPSSEQLTSGGASVVCFLNNFYP KDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHN SYTCEATHKTSTSP IVKSFNRNEC (SEQ ID NO: 3)
FR 1-2.1 light chain MKLPVLLVVLLLFTSPASSSDVVLTQTPLSLPVNIGDQAS I SCKSSKSL full length, with LNSDGFTYLDWYLQKPGQSPQLLIYLVSNHFSGVPDRFSGSGSGTDFTL signal peptide KI SRVEAEDLGVYYCFQSNYLPLTFGGGTKLEIKRADAAPTVS IFPPSS
EQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDS TYSMSSTLTLTKDEYERHNSYTCEATHKTSTSP IVKSFNRNEC (SEQ ID NO: 4)
FR 1-2.1 heavy QVQLQQSGPELVKPGASVRI SCKASGYTFTNSYIHWVKKRPGQGLEWIG chain WIYPESLNTQYNEKFKAKATLTADKSSSTSYMQLSSLTSEDSAVYFCAR
RGIYYYSPYALDHWGQGASVTVSSAKTTPPSVYPLAPGSAAQTNSMVTL GCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVLESDLYTLSSSVTVPSSM RPSETVTCNVAHPASSTKVDKKIVPRDCGCKPCICTVPEVSSVFIFPPK PKDVLTITLTPKVTCVVVDI SKDDPEVQFSWFVDDVEVHTAQTQPREEQ FNSTFRSVSELP IMHQDWLNGKEFKCRVNSAAFPAP IEKTI SKTKGRPK APQVYTIPPPKEQMAKDKVSLTCMITDFFPEDITVEWQWNGQPAENYKN TQP IMNTNGSYFVYSKLNVQKSNWEAGNTFTCSVLHEGLHNHHTEKSLS HSPGK (SEQ ID NO: 5) huMovl9 LC and MGWSCI ILFLVATATGVHS (SEQ ID NO: 6)
HC signal peptide huMovl9 LC DIVLTQSPLSLAVSLGQPAI I SCKASQSVSFAGTSLMHWYHQKPGQQPR
LLIYRASNLEAGVPDRFSGSGSKTDFTLTI SPVEAEDAATYYCQQSREY PYTFGGGTKLEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPRE AKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVY ACEVTHQGLSSPVTKSFNRGEC (SEQ ID NO: 7) Antibody Sequence
huMovl9 HC QVQLVQSGAEVVKPGASVKI SCKASGYTFTGYFMNWVKQSPGQSLEWIG
RIHPYDGDTFYNQKFQGKATLTVDKSSNTAHMELLSLTSEDFAVYYCTR YDGSRAMDYWGQGTTVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLV KDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGT QTYICNVNHKPSNTKVDKKVEPKSCDKTHTCPPCPAPELLGGPSVFLFP PKPKDTLMI SRTPEVTCVVVDVSHEDPEVKFNWYVDGVEVHNAKTKPRE EQYNSTYRVVSVLTVLHQDWLNGKEYKCKVSNKALPAP IEKTI SKAKGQ PREPQVYTLPPSRDELTKNQVSLTCLVKGFYPSDIAVEWESNGQPENNY KTTPPVLDSDGSFFLYSKLTVDKSRWQQGNVFSCSVMHEALHNHYTQKS LSLSPG (SEQ ID NO: 8) huMovl9 LC NTSl SDIVLTQSPLSLAVSLGQPAI I SCKASQSVSFAGTSLMHWYHQKPGQQP (as expressed) RLLIYRASNLEAGVPDRFSGSGSKTDFTLTI SPVEAEDAATYYCQQSRE
YPYTFGGGTKLEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPR EAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKV YACEVTHQGLSSPVTKSFNRGEC (SEQ ID NO: 9) huMovl9 LC NTSl MKLPVLLVVLLLFTSPASSSDIVLTQSPLSLAVSLGQPAI I SCKASQSV with FRl-2.1 light SFAGTSLMHWYHQKPGQQPRLLIYRASNLEAGVPDRFSGSGSKTDFTLT chain signal peptide ISPVEAEDAATYYCQQSREYPYTFGGGTKLEIKRTVAAPSVFIFPPSDE
QLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDST YSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC (SEQ ID NO: 10) huMovl9 HC NTS2 SVQLVQSGAEVVKPGASVKI SCKASGYTFTGYFMNWVKQSPGQSLEWIG
RIHPYDGDTFYNQKFQGKATLTVDKSSNTAHMELLSLTSEDFAVYYCTR YDGSRAMDYWGQGTTVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLV KDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGT QTYICNVNHKPSNTKVDKKVEPKSCDKTHTCPPCPAPELLGGPSVFLFP PKPKDTLMI SRTPEVTCVVVDVSHEDPEVKFNWYVDGVEVHNAKTKPRE EQYNSTYRVVSVLTVLHQDWLNGKEYKCKVSNKALPAP IEKTI SKAKGQ PREPQVYTLPPSRDELTKNQVSLTCLVKGFYPSDIAVEWESNGQPENNY KTTPPVLDSDGSFFLYSKLTVDKSRWQQGNVFSCSVMHEALHNHYTQKS LSLSPG (SEQ ID NO: 11) huMovl9 LC NTS 3 SIVLTQSPLSLAVSLGQPAI I SCKASQSVSFAGTSLMHWYHQKPGQQPR
LLIYRASNLEAGVPDRFSGSGSKTDFTLTI SPVEAEDAATYYCQQSREY PYTFGGGTKLEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPRE AKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVY ACEVTHQGLSSPVTKSFNRGEC (SEQ ID NO: 12) Antibody Sequence
huMovl9 HC NTS4 SQVQLVQSGAEVVKPGASVKI SCKASGYTFTGYFMNWVKQSPGQSLEWI (as expressed) GRIHPYDGDTFYNQKFQGKATLTVDKSSNTAHMELLSLTSEDFAVYYCT
RYDGSRAMDYWGQGTTVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCL VKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLG TQTYICNVNHKPSNTKVDKKVEPKSCDKTHTCPPCPAPELLGGPSVFLF PPKPKDTLMI SRTPEVTCVVVDVSHEDPEVKFNWYVDGVEVHNAKTKPR EEQYNSTYRVVSVLTVLHQDWLNGKEYKCKVSNKALPAP IEKTI SKAKG QPREPQVYTLPPSRDELTKNQVSLTCLVKGFYPSDIAVEWESNGQPENN YKTTPPVLDSDGSFFLYSKLTVDKSRWQQGNVFSCSVMHEALHNHYTQK SLSLSPG (SEQ ID NO: 13) huMovl9 HC NTS4 MKLPVLLVVLLLFTSPASSSQVQLVQSGAEVVKPGASVKI SCKASGYTF with FRl-2.1 light TGYFMNWVKQSPGQSLEWIGRIHPYDGDTFYNQKFQGKATLTVDKSSNT chain signal peptide AHMELLSLTSEDFAVYYCTRYDGSRAMDYWGQGTTVTVSSASTKGPSVF
PLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQ SSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCDKTH TCPPCPAPELLGGPSVFLFPPKPKDTLMI SRTPEVTCVVVDVSHEDPEV KFNWYVDGVEVHNAKTKPREEQYNSTYRVVSVLTVLHQDWLNGKEYKCK VSNKALPAP IEKTI SKAKGQPREPQVYTLPPSRDELTKNQVSLTCLVKG FYPSDIAVEWESNGQPENNYKTTPPVLDSDGSFFLYSKLTVDKSRWQQG NVFSCSVMHEALHNHYTQKSLSLSPG (SEQ ID NO: 14) huMovl9 LC NTT1 TIVLTQSPLSLAVSLGQPAI I SCKASQSVSFAGTSLMHWYHQKPGQQPR
LLIYRASNLEAGVPDRFSGSGSKTDFTLTI SPVEAEDAATYYCQQSREY PYTFGGGTKLEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPRE AKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVY ACEVTHQGLSSPVTKSFNRGEC (SEQ ID NO: 15) huMovl9 HC TVQLVQSGAEVVKPGASVKI SCKASGYTFTGYFMNWVKQSPGQSLEWIG NTT2 RIHPYDGDTFYNQKFQGKATLTVDKSSNTAHMELLSLTSEDFAVYYCTR
YDGSRAMDYWGQGTTVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLV KDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGT QTYICNVNHKPSNTKVDKKVEPKSCDKTHTCPPCPAPELLGGPSVFLFP PKPKDTLMI SRTPEVTCVVVDVSHEDPEVKFNWYVDGVEVHNAKTKPRE EQYNSTYRVVSVLTVLHQDWLNGKEYKCKVSNKALPAP IEKTI SKAKGQ PREPQVYTLPPSRDELTKNQVSLTCLVKGFYPSDIAVEWESNGQPENNY KTTPPVLDSDGSFFLYSKLTVDKSRWQQGNVFSCSVMHEALHNHYTQKS LSLSPG (SEQ ID NO: 16) Example 1A Construction of recombinant antibodies with N-terminal Ser / Thr
[378] Using substantially the same methods described in Example 1 above, SEQ ID NO: 6 is used as a signal peptide for its natural huMovl9 LC and HC, or as a signal peptide for a heterologous LC or HC, with the modification that a Ser or Thr residue is inserted
immediately after SEQ ID NO: 6 such that, after processing a cleavage of the signal peptide, the inserted Ser/Thr becomes the first (N-terminal) residue in the mature processed sequence of the LC or HC.
Example 2 Recombinant antibody expression
[379] The chimeric and humanized antibody constructs were transiently produced in suspension-adapted HEK-293T cells, using a modified PEI procedure (Durocher Y, Perret S, & Kamen A High-level and high-throughput recombinant protein production by transient transfection of suspension-growing human 293-EBNA1 cells. Nucleic Acids Res. 2002 Jan 15;30(2):E9) in shake flasks. The PEI transient transfections were performed as previously described (Durocher, supra), except that the HEK-293T cells were grown in Freestyle 293 (Invitrogen), and the culture volume was left undiluted after the addition of the PEI-DNA complexes. Both the adherent and suspension transient transfections were incubated for a week, and then the cleared supernatant was purified by a Protein A column followed by a CM column ion exchange chromatography as described below.
Example 3 Recombinant Antibody Purification
[380] Antibodies were purified from cleared cell culture supernatants using standard methods, such as, for example, Protein A or G chromatography (HiTrap Protein A or G HP, 1 mL, Amersham Biosciences). Briefly, supernatant was prepared for chromatography by the addition of 1/10 volume of 1 M Tris/HCl buffer, pH 8.0. The pH-adjusted supernatant was filtered through a 0.22 μιη filter membrane and loaded onto column equilibrated with binding buffer (PBS, pH 7.3). The column was washed with binding buffer until a stable baseline was obtained with no absorbance at 280 nm. Antibody was eluted with 0.1 M acetic acid buffer containing 0.15 M NaCl, pH 2.8, using a flow rate of 0.5 mL/min. Fractions of approximately 0.25 mL were collected and neutralized by the addition of 1/10 volume of 1M Tris/HCl, pH 8.0. The peak fraction(s) was dialyzed overnight twice against lx PBS, and sterilized by filtering through a 0.2 μιη filter membrane. Purified antibody was quantified by absorbance at A280. [381] Protein A purified fractions were further purified using ion exchange chromatography (IEX) with carboxymethyl (CM) chromatography. Briefly, samples from protein A purification were buffer exchanged into the start buffer (10 mM potassium phosphate, 10 mM sodium chloride, pH 7.5) and filtered through 0.22 μιη filer. The prepared sample was then loaded onto a CM fast flow resin (GE Lifesciences) that was equilibrated with the start buffer at a flow rate of 120 cm/hr. Column size was chosen to have sufficient capacity to bind all the antibody in the sample. The column was then washed with binding buffer until a stable baseline was obtained with no absorbance at 280 nm. Antibody was eluted by initiating a gradient from 10 mM to 500 mM sodium chloride in 20 column volume (CV). Fractions with the UV reading above 50 mAu of the major peak were collected. The purity (the percentage of monomer and soluble high molecular weight aggregates) was assessed with size exclusion chromatography (SEC) on a TSK gel G3000SWXL, 7.8 x 300 mm with a SWXL guard column, 6.0 x 40 mm (Tosoh Bioscience, Montgomeryville, PA) using an Agilent HPLC 1100 system (Agilent, Santa Clara, CA). Fractions with desired purity (>95%) were pooled, buffer exchanged to PBS (pH 7.4) using TFF system, and sterilized by filtering through a 0.2 μιη filter membrane. Purified antibody was further tested for its purity by SEC and the IgG concentration was determined by absorbance measurement at 280 nm using an extinction coefficient of 1.47. Dilution was made, if necessary. Alternatively, ceramic hydroxyapatite (CHT) can be used to polish both murine and humanized antibodies with improved selectivity. Type II CHT resin with 40 μιη particle size (Bio-Rad Laboratories) was applied to the polishing of antibodies with similar protocol as IEX chromatography. The start buffer for CHT was 20 mM sodium phosphate, pH 7.0 and antibody was eluted with a gradient of 20-160 mM sodium phosphate over 20 CV.
Example 4 N-terminal antibody conjugation - a two-step approach
[382] huMOV19-NTS#2 antibody engineered with an N-terminal serine on the heavy chain ([1], in Scheme 1 as shown in Figure 1; 3mg/mL in PBS, pH7.4) was treated with 5 mM aqueous sodium periodate (50 equivalents, 25°C, 30 minutes). The mixture was then buffer exchanged through a NAP desalting column (Illustra Sephadex G-25 DNA Grade, GE Healthcare) into sodium acetate buffer, pH5.0.
[383] The resulting solution was treated with 4-Aminophenethyl alcohol (100 mM in DMA [Ν,Ν-Dimethylacetamide]) to a 10 mM concentration in the reaction vessel, which contained 10% v/v DMA (Ν,Ν-Dimethylacetamide) cosolvent. Linkerl ([3] in Scheme 1; 4 or 5 equivalents) was subsequently introduced, and the reaction vessel was sealed and incubated at 37 °C for 24 hours.
[384] The mixture was then buffer exchanged through a NAP desalting column (Illustra Sephadex G-25 DNA Grade, GE Healthcare) into HEPES (4-(2-hydroxyethyl)-l-piperazine ethanesulfonic acid), pH8.5 buffer. The solution was then adjusted with DMA (N,N- Dimethylacetamide) cosolvent (10% v/v), and treated with Compound A (or sulfonated DGN462 (sDGN462) or sulfonated Dl (or sDl)) ([5], Scheme 1; free thiol; 5 equivalents), at 25 °C for 6 hours.
[385] The resulting conjugate was buffer exchanged into 250 mM Glycine, 10 mM
Histidine, 1% sucrose, 0.01 Tween-20, 50 μΜ sodium bisulfite formulation buffer at pH 6.2 using a NAP filtration column (Illustra Sephadex G-25 DNA Grade, GE Healthcare). Dialysis was performed in the same buffer for 4 hours at 25°C utilizing Slide-a-Lyzer dialysis cassettes (ThermoScientific 10,000 MWCO).
[386] The purified conjugate ([6], Scheme 1) was found to have a homogenous average of two Compound A molecules linked per antibody (via Q-ToF Mass Spectrometry, Figure 2), >98%> monomer (via Size Exclusion Chromatography), <2%> free drug (via acetone precipitated reverse-phase HPLC analysis), and a final protein concentration of 0.14 mg/mL (via UV-Vis using molar extinction coefficients ε28ο=201400 M_1cm_1 for the huMOV19- NTS#2 antibody).
Example 5 N-terminal antibody conjugation - DMx direct link
[387] The engineered N-terminal Ser-containing huMOV19-NTS#2 antibody ([1] in Scheme 2, Figure 3; 3mg/mL in PBS, pH7.4) was treated with 5 mM aqueous sodium periodate (50 molar equivalents) at 25°C for 30 minutes. The mixture was then buffer exchanged through a NAP desalting column (Illustra Sephadex G-25 DNA Grade, GE Healthcare) into sodium acetate buffer, pH5.0.
[388] The resulting solution was treated with 4-Aminophenethyl alcohol (100 mM in DMA [Ν,Ν-Dimethylacetamide]) to a 10 mM concentration in the reaction vessel, which contained 10% v/v DMA (Ν,Ν-Dimethylacetamide) cosolvent. Then, aminooxy-acetyl-MayNMA ([3], Scheme2; 4 or 5 molar equivalents) was subsequently introduced, and the reaction vessel was sealed and incubated at 37°C for 24 hours.
[389] The mixture was then buffer exchanged through a NAP desalting column (Illustra Sephadex G-25 DNA Grade, GE Healthcare) into 250 mM Glycine, 10 mM Histidine, 1% sucrose buffer at pH 6.2. Dialysis was performed in the same buffer for 4 hours at 25°C, utilizing Slide-a-Lyzer dialysis cassettes (ThermoScientific 10,000 MWCO).
[390] The purified conjugate ([4], Scheme 2) was found to have a homogenous average of two MayNMA molecules linked per antibody (via Q-ToF Mass Spectrometry, Figure 4), >98% monomer (via Size Exclusion Chromatography), <2% free drug (via HISEP reverse- phase HPLC analysis), and a final protein concentration of 0.31 mg/mL (via UV-Vis using molar extinction coefficients 8280=201400 M'W1 for the huMovl9-NTS#2 antibody).
Example 6 N-terminal antibody conjugation - two-step protocol for MOV19-NTS#l
[391] huMovl9-NTS#l antibody engineered with an N-terminal serine on the light chain through a leader peptide sequence ([1] in Scheme 3, Figure 5; 3mg/mL in PBS, pH7.4) was treated with 5 mM aqueous sodium periodate (50 molar equivalents) at 25°C for 30 minutes. The mixture was then buffer exchanged through a NAP desalting column (Illustra Sephadex G-25 DNA Grade, GE Healthcare) into sodium acetate buffer, pH5.0.
[392] The resulting solution was treated with 4-Aminophenethyl alcohol (100 mM in DMA [Ν,Ν-Dimethylacetamide]) to a 10 mM concentration in the reaction vessel, which contained 10% v/v DMA (Ν,Ν-Dimethylacetamide) cosolvent. Linker 1 ([3], Scheme 3; 4 or 5 molar equivalents) was subsequently introduced, and the reaction vessel was sealed and incubated at 37 °C for 24 hours.
[393] The mixture was then buffer exchanged through a NAP desalting column (Illustra Sephadex G-25 DNA Grade, GE Healthcare) into HEPES(4-(2-hydroxyethyl)-l-piperazine ethanesulfonic acid) pH8.5 buffer. The solution was then adjusted with DMA (N,N- Dimethylacetamide) cosolvent (10% v/v), and treated with Compound A ([5], Scheme 3; free thiol; 5 molar equivalents) at 25°C for 6 hours.
[394] The resulting conjugate was buffer exchanged into 250 mM Glycine, 10 mM
Histidine, 1% sucrose, 0.01% Tween-20, 50 μΜ sodium bisulfite formulation buffer at pH 6.2, using a NAP filtration column (Illustra Sephadex G-25 DNA Grade, GE Healthcare). Dialysis was performed in the same buffer for 4 hours at 25°C, utilizing Slide-a-Lyzer dialysis cassettes (ThermoScientific 10,000 MWCO).
[395] The purified conjugate ([6], Scheme 3) was found to have an average of 1.4 molecules of Compound A linked per antibody (via Q-ToF Mass Spectrometry, Figure 6), >98% monomer (via Size Exclusion Chromatography), <2% free drug (via acetone precipitated reverse-phase HPLC analysis), and a final protein concentration of 0.14 mg/mL (via UV-Vis using molar extinction coefficients
Figure imgf000141_0001
M_1cm_1 for the huMovl9-NTS#l antibody).
Example 7 Binding of N-terminal Ser conjugates on T47D cells is comparable to control
[396] The binding affinity of an N-terminal Ser-drug conjugate (SERIMab ADC) was analyzed using T47D cells, which have been previously shown to have ~ lxlO5 folate receptor alpha (FR-a) antigens bound per cell. The humanized monoclonal antibody huMOV19 specifically binds FRa.
[397] To evaluate the binding affinity, about 100 μΐ/well of ADC or control antibody (e.g. , unconjugated native huMOV19, or M9346A) were diluted in FACS buffer (1% BSA, lx
-8
PBS) in a 96-well plate (Falcon, round bottom), at a starting concentration of about 3x10" M in duplicate, and followed by serial 3-fold dilution in FACS buffer at 4°C. The human breast cancer cell line T47D cells were grown in RPMI- 1640 (Life Technologies) supplemented with heat-inactivated 10% FBS (Life Technologies), 0.1 mg/mL gentamycin (Life
Technologies) and 0.2 IU bovine insulin/mL (Sigma), and were washed once in PBS before being removed with Versene (Life Technologies). T47D cells were then resuspended in growth media (see above) to neutralize trypsin, and were counted on a Coulter counter. Cells were then washed twice in cold FACS buffer, centrifuging in between washes at 1200 rpm for 5 min.
[398] About 100 μΙ/mL of 2xl04 cells/well were added to wells containing ADC, antibody or FACS buffer only, and incubated at 4°C for 2 hr. After incubation, cells were centrifuged as before and washed once in 200 μίΛνεΙΙ cold FACS buffer. Cells were then stained with 200 μίΛνεΙΙ FITC-conjugated Goat Anti-Human-IgG-Fcy secondary antibody (controls included were unstained cells and those stained with secondary antibody only) for 40 min at 4°C, centrifuged and washed once in 200 μίΛνεΙΙ cold PBS-D. Cells were fixed in 200 μίΛνβϋ 1% formaldehyde/ PBS-D and stored at 4°C.
[399] After storage, cellular surface staining of conjugate or antibody was detected using flow cytometry on a FACS Calibur (BD Biosciences). The geometric means were plotted against the log concentration of ADC or antibody using GraphPad Prism and the EC50 was calculated via non-linear 4-parameter logistic regression analysis. See Figure 8.
[400] A similar experiment was also conducted using (1) huMOV19-NTS#2-Linkerl- Compound A (also known as "SeriMab-sDGN462") having on average two molecules of Compound A per Ab; (2) huMOV19-sSPDB-Compound A linked through a sulfo-SPDB linker to the ε-amino groups of lysine residues on huMOV-19, with an average of 2.4 molecules of Compound A per huMOV19); (3) unconjugated native huMOV19 antibody (M9346A); and (4) the unconjugated engineered huMOV19-NTS#2 antibody having the engineered N-terminal Ser. See Figure 7A.
[401] As shown in Figures 7A and 7B, the SERIMAb ADC(s) bound similarly to the surface of T47D cells expressing the target antigen as the unconjugated antibody (M9346A) control. See, for example, EC50 values in Figure 7B. Substantially the same results were obtained in a similar experiment show in Figures 8 A and 8B. These experiments demonstrate that antigen binding is not affected by the conjugation process at the N-terminal Serine residue.
[402] Similar results were also observed for huMOV19-NTS#2-D8 conjugate. The conjugate bound similarly to the surface of T47D cells expressing the target antigen as the unconjugated control (M9346A antibody) and unconjugated engineered huMOV19-NTS#2 antibody (or SeriMab). See Figure 23.
Example 8 Cytotoxic Evaluation of huMOV19NTS#2-Linkerl-Compound A of KB cervical cancer cell line
[403] This experiment demonstrates that site-specific antibody conjugation to the engineered N-terminal Ser not only provides predictable and reliable drug load per antibody, but also surprisingly confers the resulting ADC conjugate higher potency compared to conjugates with antibody linkage to Lys sidechains.
[404] 100 μΐ/well of each ADC was diluted in RPMI-1640 (Life Technologies)
supplemented with heat-inactivated 10% FBS (Life Technologies) and 0.1 mg/ml gentamycin (Life Technologies) in a 96-well plate (Corning, flat bottom) at starting concentrations of
3.5x10" M to 3.5x10" M in triplicate and serially diluted 3-fold in media above at ambient temperature. KB cells (buccal epithelial tumor), grown in EMEM (ATCC) supplemented with heat-inactivated 10% FBS (Life Technologies) and 0.1 mg/ml gentamycin (Life
Technologies), were washed once in PBS and removed with 0.05% trypsin-EDTA (Life Technologies). Other cells tested were NCI-H2110 (NSCLC) and T47D (breast epithelial) grown in RPMI-1640 (LifeTechnologies) supplemented with heat-inactivated 10% FBS (Life Technologies) and 0.1 mg/ml gentamycin (Life Technologies). T47D media also was supplemented with 0.2 IU/ml bovine insulin. All cells were resuspended in growth media (see above) to neutralize trypsin and counted on a Coulter counter. 100 μΐ/ml of 1000-2000 cells/well were added to wells containing ADC or media only and incubated in a 37°C incubator with 5% C02 for 5 days with and without 1 μΜ blocking huMOV19 antibody. Total volume is 200 μΐ/well. After incubation, cell viability was analyzed by addition of 20 μΐ/well WST-8 (Dojindo) and allowed to develop for 2 hr. Absorbance was read on a plate reader at 450 and 620 nm. Absorbances at 620 nm were subtracted from absorbances at 450 nm. Background in wells containing media only was further subtracted from corrected absorbances and surviving fraction (SF) of untreated cells was calculated in Excel. An XY graph of ADC concentration (M) vs. SF was created using Graph Pad Prism.
[405] The data in Figure 9A shows that Compound A can be linked to the engineered N- terminal Ser, and yield an ADC with precisely two molecules of Compound A per antibody molecule. In contrast, Compound A linked to the same huMOV19 antibody through Lys side chains yields ADC with an average of 2.4 molecules of Compound A per antibody, suggesting a relatively heterogeneous population of ADCs with different numbers of linked Compound A.
[406] Figures 7 A and 7B have previously shown that, regardless of the linkage used (either through the engineered N-terminal Ser, or through the natural Lys side chains), the resulting ADCs have essentially the same binding affinity to the antigen, compared to the
unconjugated antibody.
[407] However, despite a higher drug load in the Lys-conjugated ADCs (i.e., 2.4 vs. 2.0 Compound A), the ADC with the N-terminal Ser linkage is about 3-fold more potent than the lysine-conjugated ADC on the basis of antibody concentration, and about 5-fold more potent based on Compound A concentration. See measured IC50 values in Figure 9A.
[408] Furthermore, adding excess (1 μΜ) unconjugated huMOV19 can block the observed killing effect, suggesting not only that the observed cytotoxicity is specific and depends on huMOV19 binding to its antigen on the target cell, but also that both ADCs have identical antigen-independent activity against the target cell.
[409] Similar results were also obtained for a different cytotoxin conjugated to huMOV19 and its engineered version with N-terminal Ser conjugation. See the maytansinoid conjugates in Figure 9B. The ADC with the N-terminal Ser linkage has similar potency as the Lys- conjugated ADC despite the fact that the Lys-conjugated ADC has a higher drug load (3.5 v. 2). [410] Similar results as described above for huMOV19 were also observed for an unrelated antibody.
Example 9.
Figure imgf000144_0001
[411] DM4-SPDB-hydrazide and DM4-Sulfo-SPDB-hydrazide will be prepared by reacting DM4-SPDB or DM4-Sulfo-SPDB with hydrazine as shown above. Example 10.
Figure imgf000145_0001
[412] Previously described sulfo-SPDB (US Patent No. 8,236,319) can be reacted with hydrazine to yield sulfo-SPDB-hydrozine linker.
[413] To a 0.24M solution of hydrazine (0.015 ml, 0.242 mmol) in DMA was added a 0.06M solution of l-((2,5-dioxopyrrolidin-l-yl)oxy)-l-oxo-4-(pyridin-2-yldisulfanyl)butane- 2-sulfonic acid (25.9 mg, 0.0635 mmol) in DMA, dropwise with rapid stirring at room temperature. After stirring for 40 min under argon at 50 °C, the crude reaction mixture was purified by reverse-phase HPLC (C18, 21.2 x 250mm) eluting with deionized water containing 0.1% formic acid using an acetonitrile gradient 5-25% over 30 min. Fractions containing desired product were combined, frozen and lyophilized give 3.1 mg (15% yield) of desired product as a white solid. MS (M+l)+ found: 324.05, calculated: 324.01. 1H NMR (400 MHz, DMSO-d6) δ 2.13 - 2.26 (m, 2H), 2.82 - 2.91 (m, 2H), 3.52 (t, J = 7.8, 6.1 Hz, 1H), 7.24 (t, J = 7.3, 4.7 Hz, 1H), 7.76 (d, J = 8.0 Hz, 1H), 7.83 (t, 1H), 8.45 (d, J = 3.5, 2.0 Hz, 1H).
[414] The resulting compound can be reacted with an aldehyde or ketone-bearing cell binding agent then the hydrazide linkage can be optionally reduced. The resulting linker can be reacted with an aldehyde or ketone-bearing cell binding agent then reacted with a thiol bearing maytansinoid such as DM1 or DM4 to give conjugate.
[415] Alternatively once the linker is reacted with the cell binding agent the reactive disulfide of the resulting molecule can be reduced using reagents such as dithiothreitol or TCEP to give a thiol which can be reacted with a maytansinoid-bearing a reactive disulfide such as PyS-DMl or PyS-DM4. Example 11.
Figure imgf000146_0001
[416] Boc-hydroxyl amine will be reacted with 1,3-dibromopropane then with thioacetic acid. The thiol and amine will be deprotected by treatment with NaOH followed by HCl then the thiol moiety will be reacted with 2,2'-dipyridyldisulfide to give Wl. DM4 will be reacted with Wl to give W2. 1,3-dibromopropane can be replaced by other symmetric dibromides to give spacers of other lengths between the DM and disulfide moieties.
[417] The linker Wl can also be used to derivatize a ketone or aldehyde-bearing cell binding agent to introduce a reactive disulfide. The oxime can also be optionally reduced. Either method will allow the addition of a thiol bearing maytansinoid such as DM1 or DM4 to complete the conjugation.
Example 12.
Figure imgf000147_0001
DM4
[418] Alkoxaminoacetyl-Cys(S-2-N02-Phenyl)--OH (1 mg, 2.88 μηιοΐ, prepared as previously described in Org. Biomol. Biochem. 2006, 4: 1313 - 1419) and DM4 (6 mg, 7.7 μιηοΐ) were dissolved in DMF (250 μί) and deionized water (25 μί) and magnetically stirred for 1 h. The reaction mixture was HPLC purified using a 21 x 150 mm CI 8 column eluting at 20 mL/min with 95% deionized water containing 0.1% formic acid and an acetonitrile gradient of 5% - 95% over 30 min. Desired product was collected, frozen and lyophilized to give approximately 0.25 mg (9 % yield) of desired product as a white solid. MS (M + H)+ found 972.5; calcd. 972.3; MS (M - l) found 970.4; calcd. 970.3.
Example 13.
Figure imgf000147_0002
[419] Sulfo-SPDB-hydrazine (1 mg, 3.1 μιηοΐ) and DM4 (4 mg, 5.1 μιηοΐ) were dissolved in DMF (300 μί) and l/4th saturated aqueous sodium bicarbonate (100 μί) and magnetically stirred for 1 hour. The reaction mixture was HPLC purified using a 21 x 150 mm CI 8 column eluting at 20 mL/min with 95% deionized water containing 0.1% formic acid and an acetonitrile gradient of 5% - 95% over 30 min. Desired product was collected, frozen and lyophilized to give approximately 1 mg (19% yield) of desired product as a white solid. MS (M + H)+ found 992.6, calcd. 992.3; MS (M -1) found 990.5, calcd. 990.3. Example 14.
Figure imgf000148_0001
[420] The Boc protected Ala-Ala-Ala-OH (compound 25) can be activated by reaction with N-hydroxysuccinimde and EDC coupling agent followed by reaction with hydrazine. The resulting hydrazide (compound 26) can be FMoc protected by reaction with FMoc-Cl and the Boc protecting group can be removed by reaction with dilute HC1. The resulting compound 27 can react with l,4-Dioxane-2,6-dione in the presence of DIPEA to give compound 28. DM' can be coupled to compound 28 using EDC and the FMoc protecting group can be removed by reaction with morpholine to give desired compound 29.
[421] The scheme can be generalized by replacing Boc-Ala-Ala-Ala-OH (compound 25) with a Boc protected amino acid or peptide and the glutaric anhydride can also be replaced by a different cyclic anhydride or with a mono protected diacid to give other spacers between the DM' and peptide moieties. Example 15.
Figure imgf000149_0001
33
Figure imgf000149_0002
[422] Boc protected H-Gly-Gly-Gly-OH (compound 8) can be protected by reaction with a 9-Fluorenemethanol DIC coupling agent and dimethylaminopyridine (DMAP). The resulting compound 30 can be Boc deprotected with trifluoroacetic acid to give compound 31, which can the react with l,4-Dioxane-2,6-dione followed by protection reaction with
trimethylsilylethanol in the presence of DIC and DMAP to yield compound 32. Compound 32 can then be treated with morpholine to deprotect the 9-Fluorenemethane ester to give compound 33. DM' can then be coupled to compound 33 with EDC coupling agent and HOBT to afford compound 34. The trimethyl silylethane ester of compound 34 can be removed by treatment with tetrabutyl ammonium fluoride, followed by reaction with N- hydroxy succinimide to activate the carboxylic acid group and then with hydrazine to give desired compound 35. [423] The method can be generalized by replacing Boc-Gly-Gly-Gly-OH with a Boc- protected amino acid or peptide of choice. The l,4-Dioxane-2,6-dione can also be replaced by a different cyclic anhydride or with a mono trimethylsilylethane protected diacid to give other compounds of the present invention having other spacers between the DM' and the peptide moieties.
Figure imgf000150_0001
[424] Boc protected Ala-Ala-Ala-OH (compound 25) can be activated by reaction with N- hydroxysuccinimide (NHS) and EDC, followed by reaction with 1,2-diaminoethane to give compound 36. Compound 36 can be treated with FMoc-aminoxyacetic acid in the presence EDC coupling agent followed by Boc deprotection with dilute HCl. The resulting compound 37 can react with l,4-Dioxane-2,6-dione to give compound 38. Coupling of DM' with compound 38 in the presence of EDC followed by hydroxyl amine deprotection with morpholine will give the final product, compound 39.
[425] A similar method can be used with a Boc protected amino acid or a Boc protected peptide to generate compounds of the present invention with different peptide side chains. The l,4-Dioxane-2,6-dione can also be replaced by a different cyclic anhydride or with a mono protected diacid to give other spacers between the DM' and peptide moieties. Example 17.
Figure imgf000151_0001
Synthesis of Compound 36b q♦
Figure imgf000151_0002
χγ γ-0¾ —■ ruo
[426] Boc-Gly3-OH (25b, 6 g, 20.7 mmol) was dissolved in DMF (40 mL) to which was added N-hydroxysuccinimide (2.4 g, 20.7 mmol) and EDC (4 g, 20.7 mmol) in a flask containing a magnetic stir bar. The reaction was magnetically stirred for 1 hour then slowly poured into a magnetically stirred solution of ethylene diamine (8 g, 133 mmol) in DMF (20 mL) with vigorous magnetic stirring at room temperature. Diethyl ether (200 mL) was added to precipitate a solid. The flask was then vortexed and placed in a sonication bath for 15 min. The material was vacuum filtered then dried under vacuum at room temperature then dissolved in DMF (20 mL) and purified in three runs using approximately equal injection volumes on a 50 mm x 220 mm load and lock CI 8 column with 220 nm detection eluting at 100 mL/min with deionized water containing 0.2% formic acid and an acetonitrile gradient of 5 % acetonitrile for the first 5 min then a linear gradient of 5 % - 95% acetonitrile from 5 to 32 min. Fractions containing pure desired product were combined, frozen and lyophilized to give 4.5 g (65% yield) of desired product 36b.
Synthesis of Compound 36c
Figure imgf000152_0001
[427] Fmoc aminoxyacetic acid (187 mg, 0.60 mmol) was dissolved in anhydrous DMF (1 mL) to which was added TBTU (243 mg, 0.76 mmol) and DIPEA (95 μΐ,, 0.54 mmol) and magnetically stirred for 3 min. A solution of Boc-Gly3NH-(CH2)2-NH2 (200 mg, 0.54 mmol) in anhydrous DMF (1 mL) was then added with magnetic stirring. After 1 h the reaction was directly purified on a 27 mm x 220 mm load and lock CI 8 column 40 mL/min with 254 nm detection eluting with deionized water containing 0.2% formic acid and an acetonitrile gradient of 10% acetonitrile for the first 5 min then a linear gradient of 10% - 95%
acetonitrile from 5 to 32 min. Fractions containing pure desired product were combined, frozen and lyophilized to give 60 mg ( 17 % yield) of desired product 36c. 1H NMR (400 MHz, DMSO-J6) δ 1.37 (s, 9H), 3.15 (dt, 7 = 10.0, 5.6 Hz, 4H), 3.58 (d, 7 = 6.0 Hz, 2H), 3.67 (d, 7 = 5.8 Hz, 2H), 3.74 (d, 7 = 5.6 Hz, 2H), 4.16 (s, 2H), 4.26 (t, 7 = 6.7 Hz, 1H), 4.43 (d, 7 = 6.7 Hz, 2H), 7.01 (t, 7 = 6.0 Hz, 1H), 7.33 (td, 7 = 7.4, 1.2 Hz, 2H), 7.42 (t, 7 = 7.4 Hz, 2H), 7.68 (d, 7 = 7.4 Hz, 2H), 7.85 (d, 7 = 6.0 Hz, 1H), 7.89 (d, 7 = 7.5 Hz, 2H), 7.97 (d, 7 = 5.7 Hz, 1H), 8.05 (t, 7 = 5.6 Hz, 1H), 8.10 (t, 7 = 6.0 Hz, 1H). HRMS calcd. 649.2592, found 649.2588.
Synthesis of Compound 37b
Figure imgf000152_0002
[428] A 25 mL round bottom flask was charged with Boc-Gly3-NH(CH2)2NHCOCH2-0- NH-FMoc (76 mg, 0.122 mmol) and dissolved in a solution of 95/5 trifluoroacetic acid in water (10 mL). The reaction was magnetically stirred at room temperature for 1 hour. The reaction volume was reduced in vacuo and the crude residue was redis solved in a 1: 1 mixture of methylene chloride and toluene (10 mL) then concentrated in vacuo. The coevaporation was repeated three times and the resulting product (37b) was used without further purification. MS (m + H+) found: 527.4, calcd. 527.2; (m-1).
Sythesis of Compound 38b
Figure imgf000153_0001
[429] A 10 mL round bottom flask was charged with the t-butyl deprotected H-Gly3- NH(CH2)2NHCOCH2ONH-Fmoc (64 mg, 0.122 mmol) and DMF (3 mL). The solution was stirred as diglycolic anhydride (15.52 mg, 0.134 mmol) and N,N-diisopropylethylamine (0.042 mL, 0.243 mmol) were sequentially added. The flask was equipped with a septum and magnetically stirred at room temperature for 1 hour. The desired product was isolated by semi-preparative CI 8 HPLC eluting with deionized water containing 0.1% formic acid and a linear gradient of acetonitrile 5 - 95% over 25 min. Product containing fractions were combined and concentrated in vacuo to give 40 mg (0.062 mmol, 51.2% yield) of the desired product (38b) as a white residue. MS (m + H+) found: 643.4, calcd. 643.2; (m-1) found: 641.2, calculated: 641.2.
Synthesis of Compound 38c
Figure imgf000153_0002
[430] A 10 mL round bottom flask was charged with a solution of May-NMA (5.06 mg, 7.78 μιηοΐ) in ethyl acetate (1.500 mL). N-(3-Dimethylaminopropyl)-N'-ethylcarbodiimide hydrochloride (EDC, 3.73 mg, 0.019 mmol) and N,N-diisopropylethylamine (3.39 μΐ, 0.019 mmol) were then added followed by a solution of HOCOCH2OCH2CO- Gly3NH(CH2)2NHCOCH2ONH-FMoc (10 mg, 0.016 mmol) in N,N-dimethylformamide (1.5 mL). The reaction was stirred for 1 hour at room temperature. The reaction volume was reduced by half in vacuo and the product was isolated by semi-preparative C18 HPLC eluting with deionized water containing 0.1% formic acid and a linear gradient of acetonitrile 5 - 95% over 25 min. Product containing fractions were combined, frozen and lyophilized to give desired product (38c) 1.4 mg (13 % yield) as a white solid. MS (m + Na+) found:
1296.7, calcd: 1296.5.
Synthesis of Compound 39b
Figure imgf000154_0001
[431] May-NMA-COCH2OCH2CO-Gly3NH(CH2)2NHCH2ONH-Fmoc (1.4 mg, 1.098 μιηοΐ) was dissolved in N,N-dimethylformamide (1.5 mL) and transferred to a 3 mL glass vial equipped with a stir bar. The solution was stirred as 20% v/v morpholine (300 μί, 3.44 mmol) was added. The reaction proceeded with stirring at room temperature until determined complete. The crude reaction mixture was purified by semi-preparative C18 HPLC over 3 injections. Product containing fractions were combined, transferred to a scintillation vial, frozen in a bath of dry ice and acetone and lyophilized to give 1.1 mg ( 95% yield) of desired product (39b). MS (m + Na+) found: 1074.7, calculated: 1074.4; high-resolution MS (m+H)+ found: 1052.4331, calculated: 1052.4338; (m + C1-) found: 1086.5, calculated: 1086.4. Example 18.
Figure imgf000155_0001
Fmoc- Gly 3-MayNMA
[432] A 100 niL flask was charged with a solution of MayNMA (200mg, 0.308mmol) in ethyl acetate (19 mL). The reaction flask was concentrated in vacuo to remove EtOAC. The material was re-dissolved in DMSO (10 mL), treated with FMoc-Gly3-OH (165 mg,
0.400mmol), HOBT (12.25mg, 0.080mmol), EDC (77mg, 0.400mmol) and DIPEA (53.7μΕ, 0.308mmol). The reaction was allowed to proceed at room temperature under argon. After 1 hour the reaction was purified using a Combiflash Rf 200i using CI 8 high performance gold 30g column, at 35 mL/min. Eluting with deionized water containing 0.1% formic acid and an acetonitrile gradient of 5 - 95% over 20 min. Fractions containing desired product were combined, frozen and lyophilized to give desired product 296 mg (93% yield). MS (M)+ found 1043.4, calcd.: 1043.4
Figure imgf000156_0001
H-Gly3-MayNMA
[433] FMoc-Gly3-MayNMA (37.7mg, 0.036mmol) was dissolved in 20% morpholine in DMSO (5 mL) and magnetically stirred for 1 hour. The reaction was purified using a Combiflash Rf 200i using CI 8 high performance gold 30 g column at 35 mL/min. Eluting with deionized water containing 0.1% formic acid with an acetonitrile gradient 2-95% over 25 min. Fractions containing desired product were combined, frozen and lyophilized to desired product 20 mg ( 75 % yield). LRMS (M)+ found
Figure imgf000156_0002
Fmoc-Aminoxy-Gly3-MayNMA
[434] H-Gly3-MayNMA (15 mg, 0.018mmol) was dissolved in DMSO (2 mL), to which FMoc-aminoxyacetic acid (11.44mg, 0.037mmol), DIPEA (3.19μΙ_, 0.018mmol) and EDC (7.0mg, 0.037mmol) were added. After 1 hour the crude material was purified by semi- preparative CI 8 HPLC using a XB-C18 21.2x150mm, 5μιη column with a flow rate of 21.2mL/min. Eluting with deionized water containing 0.1% formic acid and 5% acetonitrile for 3 min then a linear gradient of 5% - 95% acetonitrile from 5 - 25 min. Fractions containing desired product were combined, frozen and lyophilized to give 2 mg (8% yield) of desired product. MS (M+Na)+ found 1138.6, calculated: 1138.4
Figure imgf000157_0001
Aminoxy-Gly3-MayNMA
[435] FMoc-aminoxy-Gly3-MayNMA (2 mg, 18 μιηοΐ) was treated with a solution of 20% morpholine in DMSO (1 mL) with magnetic stirring at room temperature for 2 hours. The reaction was purified by semi-preparative CI 8 HPLC using a XB-C18 21.2x150mm, 5μιη column with a flow rate of 21.2 mL/min. Eluting with deionized water containing 0.1% formic acid and 5% acetonitrile for 5 min then a linear gradient of acetonitrile 5% - 95% from 5 min - 25 min. Fractions containing desired product was immediately collected, frozen and lyophilized to yield aminoxy-Gly3-MayNMA (0.2mg, 0.224μιηο1). LRMS (M+Na)+ found 916.60, calcd: 916.36; HRMS (M+Na)+ found: 916.3466; calcd: 916.3466.
Example 19.
Figure imgf000157_0002
FMoc Protected Aminoxy MayNMA
[436] A lOOmL flask was charged with MayNMA (150mg, 0.231mmol) in ethyl acetate (35 mL). The reaction flask was concentrated in vacuo to remove EtOAC. The material was re- dissolved in DMF (5 mL), treated with FMoc-aminoxyacetic acid (72.3 mg, 0.231 mmol) followed by EDC (44.2 mg, 0.231 mmol) with magnetic stirring. The reaction was allowed to proceed under argon at room temperature for 4 hours then purified by semi-preparative CI 8 HPLC using a XB-C18 21.2x150mm, 5μιη column with a flow rate of 21.2mL/min. Eluting with deionized water containing 0.1% formic acid and an acetonitrile gradient of 5% for the first 5 min then 5% - 95% from 5 min to 25. Fractions containing desired product were combined frozen and lyophilized to give 24.2mg (11 % yield) of desired product. LRMS + found 945.35, calculated: 945.36
Figure imgf000158_0001
Aminoxy-MayNMA
[437] FMoc protected aminoxy MayNMA (24.2mg, 0.026mmol) was treated 20% morpholine in DMF (2 mL). After 1 hour with magnetic stirring the reaction was purified by semi-preparative CI 8 HPLC using a XB-C18 21.2x150mm, 5μιη column with a flow rate of 21.2mL/min. Eluting with deionized water containing 0.1% formic acid and an acetonitrile gradient of 5% for 5 min then a linear gradient of 5% - 95% over 25 min. Fractions containing desired product were combined, frozen and lyophilized to give lOmg (54.0% yield) of desired product. MS (M)+ found: 723.3, calculated: 723.3; high-resolution MS found: 723.2995; calculated: 723.3003.
Example 20. Antitumor Activity of Single-dose SeriMab Site-Specific huMOV19NTS#2- Linkerl-Compound A Against NCI-H2110 NSCLC Xenografts in Female SCID Mice
[438] Female CB.17 SCID mice, 6 weeks old, were received from Charles River
Laboratories. Mice were inoculated with 1 x 10 NCI-H2110 tumor cells suspended in 0.1 ml 50% matrigel/serum free medium by subcutaneous injection in the right flank. When tumor volumes reached approximately 100 mm (day 7 post inoculation), animals were randomized based on tumor volume into 4 groups of 6 mice each. Mice received a single IV
administration of vehicle control (0.2 ml/mouse) or huMOV19NTS#2-Linkerl-Compound A ([6], scheme 1) conjugate at 10, 25 or 50 μg/kg based on compound A concentration on day 1 (day 8 post inoculation). [439] Tumor size was measured twice to three times weekly in three dimensions using a caliper. The tumor volume was expressed in mm using the formula V = Length x Width x Height x ½. A mouse was considered to have a partial regression (PR) when tumor volume was reduced by 50% or greater, complete tumor regression (CR) when no palpable tumor could be detected. Tumor volume was determined by StudyLog software.
[440] Tumor growth inhibition (T/C Value) was determined using the following formula: T/C (%) = Median tumor volume of the treated / Median tumor volume of the control x 100.
[441] Tumor volume was determined simultaneously for treated (T) and the vehicle control (C) groups when tumor volume of the vehicle control reached predetermined size of 1000 mm . The daily median tumor volume of each treated group was determined, including tumor-free mice (0 mm ). According to NCI standards, a T/C < 42% is the minimum level of anti-tumor activity. A T/C <10% is considered a high anti-tumor activity level.
[442] As shown in FIG. 13, the conjugate is highly active at 25 μg/kg and 50 μg/kg doses.
Example 21. Catabolite Enrichment by Affinity Capture With Protein A resin
[443] KB cells expressing folate receptor a (FR ) were cultured in 5 x T150 tissue culture plates. Saturating amount of FRa targeting huMOV19NTS#2-Linkerl-Compound A (or SeriMab-sDGN462) conjugate was incubated with KB cells for 24 hours at 37 °C in a humidified incubator buffered with 5% C02. After 24 hours, the media containing cell- effluxed catabolites were harvested and pooled for the following assay.
[444] Saturating amount of anti-indolinobenzodiazepine compound antibody was bound to a slurry of protein A resin by overnight incubation at 4 °C. 1 ml of pre-bound protein A/anti- benzodizepine compound antibody complex was incubated with 25 ml of media on an end-to- end rotator for several hours. The resin was centrifuged gently at 1000 rpm, and the supernatant was decanted. The protein- A/anti-IGN antibody resin bound to IGN catabolites was washed with PBS (5x) to remove media components. The catabolites were released into organic phase by acetone extraction. The catabolites were vacuum-dried overnight until the organic solution was completely evaporated. The catabolites were reconstituted with 20% acetonitrile in water, and analyzed by LC-MS.
[445] KB cells expressing folate receptor a (FRa) were cultured in 5 x T150 tissue culture plates. Saturating amount of FRa targeting huMOV19-NTS#2-aminooxy-acetyl-MayNMA (also known as "SeriMab-May") conjugate was incubated with KB cells for 24 hours at 37 °C in a humidified incubator buffered with 5% C02. After 24 hours, the media containing cell- effluxed catabolites were harvested and pooled for the following assay.
[446] Saturating amount of anti-maytansine antibody was bound to a slurry of protein A resin by overnight incubation at 4 °C. 1 ml of pre-bound protein A/anti-maytansine antibody complex was incubated with 20 ml of media on an end-to-end rotator for several hours. The resin was centrifuged gently at 1000 rpm, and the supernatant was decanted. The protein- A/anti-maytansine antibody resin bound to maytansinoid catabolites was washed with PBS (5x) to remove media components. The catabolites were released into organic phase by acetone extraction. The catabolites were vacuum-dried overnight until the organic solution was completely evaporated. The catabolites were reconstituted with 20% acetonitrile in water, and analyzed by LC-MS.
MS analysis
[447] The drug distribution profile of the huMOV19-NTS#2 conjugates were characterized by intact mass analysis using Waters LCT ESTTOF. Tryptic peptide mapping of the conjugate was performed by LC/MS/MS using Waters QTOF (samples were reduced, alkylated followed by Trypsin digestion). Cell catabolites were identified by UHPLC/MS/MS using Q-Exactive high resolution mass spec (Thermo). Extracted ion-chromatograms (XIC) were used to identify and characterize the target cell catabolites. All catabolite species containing the characteristic maysine (547 m/z) and DGN (286 m/z) mass signatures were identified.
[448] Both SeriMab-sDGN462 and SeriMab-May conjugates generated catabolites effluxed from the target cell after 24 h processing. The terminal carboxylic acid containing DGN and maytansinoid metabolites are consistent with proteolysis of the N-terminal serine or adjacent valine residue on the antibody heavy chain. These catabolites are unique to SeriMab conjugation platform as the expected metabolites from cysteine or lysine conjugation would be zwitterionic in nature. sDGN462 conjugate generated additional catabolites consistent with disulfide cleavage (sDGN462) and self-immolation of the thiol group (DGN- aniline). These metabolites are also generated from lysine linked DGN462 conjugates.
Example 22. Bystander Activity
[449] 50 μΐ/well of conjugate were each diluted in RPMI-1640 (Life Technologies) supplemented with heat-inactivated 10% FBS (Life Technologies), 0.1 mg/ml gentamycin (Life Technologies) and βΜΕ (Life Technologies) in a 96-well plate (Falcon, round bottom) at concentrations of 1 e-10 M and 4 e-10 M in sextuplicate. Both 300.19 cells (mouse) expressing recombinant FOLRl(FRl#14) or no expression vector (parental) were counted on a hemacytometer. 50 μΐ/ml of 1000 FR1#14 cells/well were added to wells containing ADC or media only, 50 μΐ/ml of 2000 parental cells/well were added to wells containing ADC or media only and both FR1#14 and parental cells were added together to wells containing ADC or media only. All plates were incubated in a 37°C incubator with 5% C02 for 4 days. Total volume was 150 μΐ/well. After incubation, cell viability was analyzed by addition of 75 μΐ/well Cell Titer Glo (Promega) and allowed to develop for 30 min. Luminescence was read on a luminometer and background in wells containing media only was subtracted from all values. A bar graph of the average of each cell treatment was graphed using Graph Pad Prism.
[450] As shown in FIG. 16, disulfide linked sDGN462 ADCs conjugated through either lysine or N-terminal serine show potent bystander killing of proximal antigen negative cells.
[451] Similar results are observed for serine-linked D8 conjugates. See FIG. 27.
Example 23. Synthesis of Compound D8
Figure imgf000161_0001
[452] Step 1: Tert-butyl hydroxycarbamate (1.490 g, 11.19 mmol) was dissolved in anhydrous DMF (22.38 mL). 2-(3-bromopropyl)isoindoline-l,3-dione (3g, 11.19 mmol) and potassium carbonate (3.09 g, 22.38 mmol) were added and the reaction stirred overnight at room temperature. It was diluted with cold water and extracted with EtOAc. The organic was washed with brine, dried over sodium sulfate and the crude residue was purified by silica gel flash chromatography (EtOAc/Hex, gradient, 0% to 45%) to obtain compound 8a as sticky solid (2.41g, 67% yield). LCMS = 4.99 min (8 min method). 1H NMR (400 MHz, CDC13): δ 7.86-7.83 (m, 2H), 7.73-7.77 (m, 2H), 7.28 (bs, 1H), 3.92 (t, 2H, / = 6.0 Hz), 3.82 (t, 2H, 6.9Hz), 2.05-1.98 (m, 2H), 1.47 (s, 9H).
Figure imgf000162_0001
[453] Step 2: Compound 8a (2.41g, 7.52 mmol) was dissolved in anhydrous DCM (18.81 mL) and cooled to 0°C in an ice bath. A freshly mixed solution of DCM (9.40 ml) and TFA (9.40 ml) was added and the ice bath was removed. The reaction stirred at room temperature for 1 hour and was diluted with DCM and washed with saturated sodium bicarb. The organic layer was washed with brine, dried, filtered and concentrated to give compound 8b (1.32g, 80% yield). The crude material was used without further purification.1H NMR (400 MHz, CDC13): δ 7.85-7.82 (m, 2H), 7.72-7.69 (m, 2H), 3.78 (t, 2H, / = 7.0 Hz), 3.72 (t, 2H, 6.0Hz), 1.99-1.93 (m, 2H).
Figure imgf000162_0002
[454] Step 3: Compound 8b (lOOmg, 0.454 mmol) was dissolved in anhydrous DCM (4.5 mL) TEA (127 μΐ, 0.908 mmol) and 2,5-dioxopyrrolidin-l-yl (2-(trimethylsilyl)ethyl) carbonate (177 mg, 0.681 mmol) were added and the reaction stirred at room temperature overnight. The reaction was diluted with DCM, washed with brine, dried, filtered, and evaporated. The crude residue was purified by silica gel flash chromatography (EtO Ac/Hex, gradient, 0% to 40%) to obtain compound 8c (148mg, 89% yield). LCMS = 5.91 min (8 min method). 1H NMR (400 MHz, CDC13): δ 7.86-7.83 (m, 2H), 7.73-7.69 (m, 2H), 7.39 (bs, 1H), 4.26-4.20 (m, 2H), 3.94 (t, 2H, / = 6.0 Hz), 3.83 (t, 2H, 6.9Hz), 2.06-1.98 (m, 2H), 1.05- 0.98 (m, 2H), 0.04 (s, 9H).
Figure imgf000162_0003
[455] Step 4: Compound 8c (148mg, 0.406 mmol) was dissolved in Ethanol (2.7mL) and stirred until completely soluble. Hydrazine (63.7 μΐ, 2.030 mmol) was added and the reaction stirred at room temperature until rapid formation of a white precipitate at 1 hour. The reaction was filtered through celite and rinsed with additional ethanol. The filtrate was evaporated and purified by silica gel flash chromatography (A= MeOH, B= EtOAc gradient, 100% to 10%). Product fractions were detected by mass and evaporated to give compound 8d as a sticky solid (67.5mg, 71% yield). 1H NMR (400 MHz, CDC13): δ 4.27-4.21 (m, 2H), 3.98 (t, 2H, / = 5.9 Hz), 2.92-2.87 (m, 2H), 1.85-1.77 (m, 2H), 1.06-0.99 (m, 2H), 0.04 (s,
Figure imgf000163_0001
Step 5: (S)-2-(((benzyloxy)carbonyl)amino)propanoic acid (5 g, 22.40 mmol) and (S)-tert- butyl 2-aminopropanoate hydrochloride (4.48 g, 24.64 mmol) were dissolved in anhydrous DMF (44.8 mL). EDC HC1 (4.72 g, 24.64 mmol), HOBt (3.43 g, 22.40 mmol), and DIPEA (9.75 mL, 56.0 mmol) were added. The reaction stirred under argon, at room temperature, overnight. The reaction mixture was diluted with dichloromethane and then washed with saturated ammonium chloride, saturated sodium bicarbonate, water, and brine. The organic layer was dried over sodium sulfate and concentrated. The crude oil was purified via silica gel chromatography (Hexanes/Ethyl Acetate) to yield compound 2a (6.7 g, 85% yield). 1H NMR (400 MHz, CDC13): δ 7.38-7.31 (m, 5H), 6.53-6.42 (m, 1H), 5.42-5.33 (m, 1H), 5.14 (s, 2H), 4.48-4.41 (m, 1H), 4.32-4.20 (m, 1H), 1.49 (s, 9H), 1.42 (d, 3H, / = 6.8 Hz), 1.38 (d, 3H, 7 = 7.2 Hz).
Figure imgf000163_0002
Step 6: Compound 2a (6.7 g, 19.12 mmol) was dissolved in methanol (60.7 mL) and water (3.03 mL). The solution was purged with argon for five minutes. Palladium on carbon (wet, 10%) (1.017 g, 0.956 mmol) was added slowly. The reaction was stirred overnight under an atmosphere of hydrogen. The solution was filtered through Celite, rinsed with methanol and concentrated. It was azeotroped with methanol and acetonitrile and the resulting oil was placed directly on the high vacuum to give compound 2b (4.02 g, 97% yield) which was used directly in the next step. 1H NMR (400 MHz, CDC13): δ 7.78-7.63 (m, 1H), 4.49-4.42 (m, 1H), 3.55-3.50 (m, 1H), 1.73 (s, 2H), 1.48 (s, 9H), 1.39 (d, 3H, J = 1.2 Hz), 1.36 (d, 3H, / = 6.8 Hz).
Figure imgf000164_0001
2b 2c
Step 7: Compound 2b (4.02 g, 18.59 mmol) and mono methyladipate (3.03 mL, 20.45 mmol) were dissolved in anhydrous DMF (62.0 mL). EDC-HCl (3.92 g, 20.45 mmol), HOBt (2.85 g, 18.59 mmol) and DIPEA (6.49 mL, 37.2 mmol) were added. The mixture was stirred overnight at room temperature. The reaction was diluted with dichloromethane/methanol (150 mL, 5: 1) and washed with saturated ammonium chloride, saturated sodium bicarbonate, and brine. It was dried over sodium sulfate, filtered and stripped. The compound was azeotroped with acetonitrile (5x), then pumped on the high vacuum at 35 °C to give compound 2c (6.66 g, 100% yield). The crude material was taken onto next step without purification. 1H NMR (400 MHz, CDC13): δ 6.75 (d, 1H, / = 6.8 Hz), 6.44 (d, 1H, / = 6.8 Hz), 4.52-4.44 (m, 1H), 4.43-4.36 (m, 1H), 3.65 (s, 3H), 2.35-2.29 (m, 2H), 2.25-2.18 (m, 2H), 1.71-1.60 (m, 4H), 1.45 (s, 9H), 1.36 (t, 6H, / = 6.0 Hz).
Figure imgf000164_0002
Step 8: Compound 2c (5.91 g, 16.5 mmol) was stirred in TFA (28.6 mL, 372 mmol) and deionized water (1.5 mL) at room temperature for three hours. The reaction mixture was concentrated with acetonitrile and placed on high vacuum to give crude compound 2d as a sticky solid (5.88 g, 100% yield). 1H NMR (400 MHz, CDC13): δ 7.21 (d, 1H, / = 6.8 Hz), 6.81 (d, 1H, / = 7.6 Hz), 4.69-4.60 (m, 1H), 4.59-4.51 (m, 1H), 3.69 (s, 3H), 2.40-2.33 (m, 2H), 2.31-2.24 (m, 2H), 1.72-1.63 (m, 4H), 1.51-1.45 (m, 3H), 1.42-1.37 (m, 3H).
Figure imgf000164_0003
Step 9: Compound 2d (5.6 g, 18.52 mmol) was dissolved in anhydrous dichloromethane (118 mL) and anhydrous methanol (58.8 mL). (5-amino-l,3-phenylene)dimethanol (2.70 g, 17.64 mmol) and EEDQ (8.72 g, 35.3 mmol) were added and the reaction was stirred at room temperature, overnight. The solvent was stripped and ethyl acetate was added. The resulting slurry was filtered, washed with ethyl acetate and dried under vacuum/N2 to give compound 2e (2.79 g, 36% yield). 1H NMR (400 MHz, DMSC 6): δ 9.82 (s, 1H), 8.05, (d, 1H, / = 9.2 Hz), 8.01 (d, 1H, J = 12 Hz), 7.46 (s, 2H), 6.95 (3, 1H), 5.21-5.12 (m, 2H), 4.47-4.42 (m, 4H), 4.40-4.33 (m, 1H), 4.33-4.24 (m, 1H), 3.58 (s, 3H), 2.33-2.26 (m, 2H), 2.16-2.09 (m, 2H), 1.54-1.46 (m, 4H), 1.30 (d, 3H, J = 12 Hz), 1.22 (d, 3H, J = 4.4 Hz).
Figure imgf000165_0001
2e 2f
Step 10: Compound 2e (0.52 g, 1.189 mmol) and carbon tetrabromide (1.183 g, 3.57 mmol) were dissolved in anhydrous DMF (11.89 mL). Triphenylphosphine (0.935 g, 3.57 mmol) was added and the reaction stirred under argon for four hours. The reaction mixture was diluted with DCM/MeOH (10: 1) and washed with water and brine, dried over sodium sulfate, filtered, and concentrated. The crude material was purified by silica gel chromatography (DCM/MeOH) to give compound 2f (262 mg, 39% yield). 1H NMR (400 MHz, DMSO-J6): δ 10.01 (s, 1H), 8.11 (d, 1H, / = 6.8 Hz), 8.03 (d, 1H, / = 6.8 Hz), 7.67 (s, 2H), 7.21 (s, 1H), 4.70-4.64 (m, 4H), 4.40-4.32 (m, 1H), 4.31-4.23 (m, 1H), 3.58 (s, 3H), 2.34-2.26 (m, 2H), 2.18-2.10 (m, 2H), 1.55-1.45 (m, 4H), 1.31 (d, 3H, J = 12 Hz), 1.21 (d, 3H, J = 12 Hz).
Figure imgf000165_0002
Step 11: Dibromide compound 2f nd IGN monomer compound I-l were dissolved in DMF. Potassium carbonate was added and was stirred at rt ovenight. Water was added to the reaction mixture to precipitate the product. The slurry was stirred at rt for 5 min and was then filtered and dried under vacuum/N2 for 1 h. The crude material was purified by silica gel chromatography (dichloromethane/methanol) to give compound 2g (336 mg, 74% yield). LCMS = 5.91 min (15 min method). MS (m/z): 990.6 (M + 1)+.
O J C 0 N 0
Figure imgf000165_0003
Step 12: Diimine compound 2g was dissolved in 1,2-dichloroethane. NaBH(OAc)3 was added to the reaction mixture and was stirred at rt for 1 h. The reaction was diluted with CH2CI2 and was quenched with sat'd aq NH4CI solution. The layers were separated and was washed with brine, dried over Na2S04 and concentrated. The crude material was purified via RPHPLC (C18 column, Acetonitrile/Water) to give compound 2h (85.5 mg, 25% yield). LCMS =6.64 min (15 min method). MS (m/z): 992.6 (M + 1)+.
Figure imgf000166_0001
[456] Step 13: Methylester compound 2h was dissolved in 1,2-dichloroethane.
Trimethylstannanol was added to the reaction mixture and was heated at 80 °C overnight. The reaction mixture was cooled to rt and was diluted with water. The aqueous layer was acidified to pH ~ 4 with 1 M HC1. The mixture was extracted with CH2Cl2/MeOH (10: 1, 3 x 20 mL). The combined organic layers were washed with brine and was dried over Na2S04 and concentrated. The crude material was passed through a silica plug to give compound 2i (48.8 mg, 80% yield). LCMS = 5.89 min (15 min method). MS (m/z): 978.6 (M + 1)+.
Figure imgf000166_0002
[457] Step 14: Compound 2i (30mg, 0.031 mmol) was suspended in anhydrous DCM (613 μΐ). Anhydrous DMF was added dropwise until the solution cleared. Compound 8d (21.57 mg, 0.092 mmol), EDC-HCl (29.4 mg, 0.153 mmol), and DMAP (0.749 mg, 6.13 μηιοΐ) were added and the reaction stirred at room temperature for 1 hour. It was diluted with
DCM/MeOH 10: 1 and then washed with water. The aqueous layer was extracted with DCM/MeOH 10: 1 and the combined organic was dried and concentrated to give Compound 8e (49mg) which was used without further purification. LCMS = 5.94 min (8 min method). MS (m/z): 1194.4 (M + 1)+.
Figure imgf000167_0001
[458] Step 15: Compound 8e (49mg, 0.041 mmol) was dissolved in THF (820 μΐ) and the reaction was cooled to 0°C in an ice bath. TBAF (205 μΐ, 0.205 mmol) was added and the reaction stirred for 15 minutes before the ice bath was removed. It was stirred at room temperature until completion. The reaction was cooled to 0°C, quenched with saturated ammonium chloride and extracted with DCM/MeOH 10: 1. The organic was washed with brine, dried with sodium sulfate and evaporated. The crude material was purified via RPHPLC (C18 column, AcetonitrileAVater) to give compound D8 (17.6 mg, 54% yield over 2 steps). LCMS =5.1 min (8 min method). MS (m/z): 1050.4 (M + 1)+.
Example 24. Synthesis of Compound D9
Figure imgf000167_0002
[459] Step 1: Compound 9a (17mg, 0.016 mmol) was dissolved in DCM (328 μΐ).
Compound 8d (5.76 mg, 0.025 mmol) and DIPEA (5.71 μΐ, 0.033 mmol) were added at room temperature and the reaction stirred until completion. It was diluted with 10: 1 DCM:MeOH and washed with brine. The organic was dried and concentrated to give compound 9b which was used directly.
[460] Step 2: Compound D9 was prepared similarly as compound D8 in Example 23. The crude material was purified via RPHPLC (CI 8 column, AcetonitrileAVater) to give compound D9 (5 mg, 31% yield over 2 steps). LCMS = 5.68 min (8 min method). MS (m/z): 1012.5 (M + 1)+.
Example 25. Preparation of SeriMab Conjugates of the huCD123-6 Antibody a) N -terminal antibody conjugation - a two-step approach
[461] huCD123-6Gv4.6/7S3 antibody ([1], in Scheme 3 as shown in FIG. 5; 3mg/mL in PBS, pH7.4) was treated with 5 mM aqueous sodium periodate (50 equivalents, 25°C, 30 minutes). The mixture was then buffer exchanged through a NAP desalting column (Illustra Sephadex G-25 DNA Grade, GE Healthcare) into sodium acetate buffer, pH5.0.
[462] The resulting solution was treated with 4-Aminophenethyl alcohol (100 mM in DMA [Ν,Ν-Dimethylacetamide]) to 10% v/v cosolvent. Heterobifunctional Linkerl ([3] in Scheme 3; 5 equivalents) was subsequently introduced, and the reaction vessel was sealed and incubated at 37 °C for 24 hours.
[463] The mixture was then buffer exchanged through a NAP desalting column (Illustra Sephadex G-25 DNA Grade, GE Healthcare) into HEPES (4-(2-hydroxyethyl)-l-piperazine ethanesulfonic acid), pH8.5 buffer. The solution was then adjusted with DMA (N,N- Dimethylacetamide) cosolvent (10% v/v), and treated with sulfonated DGN462 (sDGN462) ([5], Scheme 3; free thiol; 5 equivalents), at 25°C for 6 hours.
[464] The resulting conjugate was buffer exchanged into 250 mM Glycine, 10 mM
Histidine, 1% sucrose, 0.01% Tween-20, 50 μΜ sodium bisulfite formulation buffer at pH 6.2 using a NAP filtration column (Illustra Sephadex G-25 DNA Grade, GE Healthcare). Dialysis was performed in the same buffer for 4 hours at 25°C utilizing Slide-a-Lyzer dialysis cassettes (ThermoScientific 10,000 MWCO).
The purified conjugate ([6], Scheme 3) was found to have a homogenous average of two DGN462 molecules linked per antibody (via Q-ToF Mass Spectrometry), >98% monomer (via Size Exclusion Chromatography), <2% free drug (via acetone precipitated reverse-phase HPLC analysis), and a final protein concentration of 0.18 mg/mL (via UV-Vis using molar extinction coefficients 8280=213320 M' 1 for the huCD123-6Gv4.6/7S3 antibody).
b) N -terminal antibody conjugation - IGN direct link
[465] The engineered N-terminal Ser-containing huCD123-6Gv4.7S2 antibody, engineered with an N-terminal serine on the heavy chain ([1] in Scheme 4, FIG. 17; 3mg/mL in PBS, pH7.4) was treated with 5 mM aqueous sodium periodate (50 molar equivalents) at 25°C for 30 minutes. The mixture was then buffer exchanged through a NAP desalting column (Illustra Sephadex G-25 DNA Grade, GE Healthcare) into sodium acetate buffer, pH5.0.
[466] The resulting solution was treated with /?-phenylenediamine (100 mM in DMA [N,N- Dimethylacetamide]) to 10% v/v cosolvent. Then, an in situ sulfonated-D8 (or sD8) ([3], Scheme 4; 5 molar equivalents) was subsequently introduced, and the reaction vessel was sealed and incubated at 37°C for 24 hours.
[467] The mixture was then buffer exchanged through a NAP desalting column (Illustra Sephadex G-25 DNA Grade, GE Healthcare) into 250 mM Glycine, 10 mM Histidine, 1% sucrose buffer at pH 6.2. Dialysis was performed in the same buffer for 4 hours at 25°C, utilizing Slide-a-Lyzer dialysis cassettes (ThermoScientific 10,000 MWCO). [468] The purified conjugate ([4], Scheme 4) was found to have a homogenous average of two D8 molecules linked per antibody (via Q-ToF Mass Spectrometry), >96% monomer (via Size Exclusion Chromatography), <3% free drug (via HISEP reverse-phase HPLC analysis), and a final protein concentration of 1.4 mg/mL (via UV-Vis using molar extinction coefficients 8280=213320 M' 1 for the huCD123-6Gv4.7S2 antibody).
[469] The in situ sulfonated-D8 (or sD8) described above was prepared according to the following procedure: The D8 reagent, as a lyophilized, white solid, was dissolved in DMA (Ν,Ν-Dimethylacetamide) to a 10-20 mM stock concentration solution. Fresh sodium bisulfite (500mM solution in water, 5 molar equivalents) was added and the resulting solution reacted for 4-6 hours at 25 °C before a 15 hour hold step at 4°C. A further aliquot of fresh sodium bisulfite (500mM solution in water, 2 molar equivalents) was introduced and allowed to react for 4 hours at 25 °C before storage at -80 °C until further use.
c) N-terminal antibody conjugation - two-step protocol for CD123-6Gv4.7S3 or S2
[470] The huCD123-6Gv4.7S3 (or S2 - the schematic drawing of Ab is for S3, but the scheme applies to S2 as well) antibody engineered with an N-terminal serine on the light chain ([1] in Scheme 5, FIG. 18; 3mg/mL in PBS, pH7.4) was treated with 5 mM aqueous sodium periodate (50 molar equivalents) at 25°C for 30 minutes. The mixture was then buffer exchanged through a NAP desalting column (Illustra Sephadex G-25 DNA Grade, GE Healthcare) into sodium acetate buffer, pH5.0.
[471] The resulting solution was treated with 4-Aminophenethyl alcohol (100 mM in DMA [Ν,Ν-Dimethylacetamide]) to 10% v/v cosolvent. Heterobifunctional Linkerl ([3], Scheme 5; 5 molar equivalents) was subsequently introduced, and the reaction vessel was sealed and incubated at 37 °C for 24 hours.
[472] The mixture was then buffer exchanged through a NAP desalting column (Illustra Sephadex G-25 DNA Grade, GE Healthcare) into HEPES(4-(2-hydroxyethyl)-l-piperazine ethanesulfonic acid) pH8.5 buffer. The solution was then adjusted with DMA (N,N- Dimethylacetamide) cosolvent (10% v/v), and treated with sulfonated-Dl (or sDl) ([5], Scheme 5; free thiol; 5 molar equivalents) at 25 °C for 6 hours.
[473] The resulting conjugate was buffer exchanged into 250 mM Glycine, 10 mM
Histidine, 1% sucrose, 0.01% Tween-20, 50 μΜ sodium bisulfite formulation buffer at pH 6.2, using a NAP filtration column (Illustra Sephadex G-25 DNA Grade, GE Healthcare). Dialysis was performed in the same buffer for 4 hours at 25°C, utilizing Slide-a-Lyzer dialysis cassettes (ThermoScientific 10,000 MWCO). [474] The purified conjugate ([6], Scheme 5) was found to have an average of 2.0 molecules of sDl linked per antibody (via Q-ToF Mass Spectrometry), >96% monomer (via Size Exclusion Chromatography), <3% free drug (via acetone precipitated reverse-phase HPLC analysis), and a final protein concentration of 0.4 mg/mL (via UV-Vis using molar extinction coefficients 8280=213320 M' 1 for the huCD123-6Gv4.7S3 antibody).
Example 26 N-terminal Antibody Conjugation for Preparing Conjugates with 4 DAR
(a) two-step approach
[475] huMOV19-NTS2S3 antibody engineered with an N-terminal serine on the heavy chain and the light chain ([1], in Scheme 6 as shown in FIG. 19; 3mg/mL in PBS, pH7.4) was treated with 5 mM aqueous sodium periodate (50 equivalents, 25°C, 30 minutes). The mixture was then buffer exchanged through a NAP desalting column (Illustra Sephadex G-25 DNA Grade, GE Healthcare) into sodium acetate buffer, pH5.0.
[476] The resulting solution was treated with 4-Aminophenethyl alcohol, to a 10 mM concentration in the reaction vessel, which contained 10% v/v DMA (N,N- Dimethylacetamide) cosolvent. Linkerl ([3] in Scheme 6; 10 equivalents) was subsequently introduced, and the reaction vessel was sealed and incubated at 37 °C for 24 hours.
[477] The mixture was then buffer exchanged through a NAP desalting column (Illustra Sephadex G-25 DNA Grade, GE Healthcare) into HEPES (4-(2-hydroxyethyl)-l-piperazine ethanesulfonic acid), pH8.5 buffer. The solution was then adjusted with DMA (N,N- Dimethylacetamide) cosolvent (10% v/v), and treated with Compound A (or sulfonated DGN462 (sDGN462)) ([5], Scheme 6; free thiol; 10 equivalents), at 25°C for 6 hours.
[478] The resulting conjugate was buffer exchanged into 250 mM Glycine, 10 mM
Histidine, 1% sucrose, 0.01% Tween-20, 50 μΜ sodium bisulfite formulation buffer at pH 6.2 using a NAP filtration column (Illustra Sephadex G-25 DNA Grade, GE Healthcare). Dialysis was performed in the same buffer for 4 hours at 25°C utilizing Slide-a-Lyzer dialysis cassettes (ThermoScientific 10,000 MWCO).
[479] The purified conjugate ([6], Scheme 6) was found to have a homogenous average of four Compound A molecules linked per antibody (via Q-ToF Mass Spectrometry, FIG. 20), >93% monomer (via Size Exclusion Chromatography), <2% free drug (via acetone precipitated reverse-phase HPLC analysis), and a final protein concentration of 0.1 mg/mL (via UV-Vis using molar extinction coefficients ε28ο=201400 M_1cm_1 for the huMOV19- NTS2S3 antibody). (b) DMx direct link
[480] The engineered N-terminal Ser-containing huMOV19-NTS2S3 antibody ([1] in
Scheme 7, FIG. 21A; 3mg/mL in PBS, pH7.4) was treated with 5 mM aqueous sodium periodate (50 molar equivalents) at 25°C for 30 minutes. The mixture was then buffer exchanged through a NAP desalting column (Illustra Sephadex G-25 DNA Grade, GE Healthcare) into sodium acetate buffer, pH5.0.
[481] The resulting solution was treated with 4-Aminophenethyl alcohol, to a 10 mM concentration in the reaction vessel, which contained 10% v/v DMA (N,N- Dimethylacetamide) cosolvent. Then, aminooxy-acetyl-MayNMA ([3], Scheme 7; 10 molar equivalents) was subsequently introduced, and the reaction vessel was sealed and incubated at 37 °C for 24 hours.
[482] The mixture was then buffer exchanged through a NAP desalting column (Illustra Sephadex G-25 DNA Grade, GE Healthcare) into 250 mM Glycine, 10 mM Histidine, 1% sucrose buffer at pH 6.2. Dialysis was performed in the same buffer for 4 hours at 25°C, utilizing Slide-a-Lyzer dialysis cassettes (ThermoScientific 10,000 MWCO).
[483] The purified conjugate ([4], Scheme 7) was found to have a homogenous average of four MayNMA molecules linked per antibody (via Q-ToF Mass Spectrometry, FIG. 21B), >95% monomer (via Size Exclusion Chromatography), <2% free drug (via HISEP reverse- phase HPLC analysis), and a final protein concentration of 0.2 mg/mL (via UV-Vis using molar extinction coefficients 8280=201400 M'W1 for the huMovl9-NTS2S3 antibody).
Example 27 In vitro Cytotoxicity of Site-specific Conjugates of the huCD123-6 Antibody
[484] The ability of site-specific conjugates of huCD 123-6 with the various IGN compounds (huCD123-6Rvl. lS2-SeriMab-D8) to kill cells that express CD123 on their cell surface was compared to that of the lysine-linked conjugates containing the matching antibody and the payload (huCD123-6Rvl. l-D2) using in vitro cytotoxicity assays. The cytotoxicity assays were carried out and analyzed as described below.
[485] The cell lines were cultured in culture medium as recommended by the cell supplier (ATCC or DSMZ). The cells, 2,000 to 10,000 in 100 of the culture medium, were added to each well of flat bottom 96- well plates. To block Fc receptors on the cell surface, the culture medium was supplemented with 100 nM chKTI antibody (an antibody of the same isotype). Conjugates were diluted into the culture medium using 3-fold dilution series and 100 μΐ^ were added per well. To determine the contribution of CD123-independent cytotoxicity, CD123 blocking antibody (100 nM of chCD123-6 antibody) was added to some wells prior to the testing conjugates. Control wells containing cells and the medium but lacking the conjugates, as well as wells contained medium only, were included in each assay plate. Assays were performed in triplicate for each data point. The plates were incubated at 37°C in a humidified 6% C02 incubator for 4 to 7 days. Then the relative number of viable cells in each well was determined using the WST-8 based Cell Counting Kit-8 (Dojindo Molecular Technologies, Inc., Rockville, MD). The apparent surviving fraction of cells in each well was calculated by first correcting for the medium background absorbance, and then dividing each value by the average of the values in the control wells (non-treated cells). The surviving fraction of cells was plotted against conjugate concentration in semi-log plots.
[486] The huCD123-6Rvl . lS2-SeriMab-D8 conjugate maintained target (CD123) binding, and was at least as active as the lysine-linked huCD123-6Rvl . l-D2 conjugate on multiple cell lines. Several examples of the cytotoxicity assay using the AML cell lines SHI- 1 and HNT-34, as well as the CML cell line MOLM- 1 are shown in FIGs. 22A-22C, respectively. Both conjugates killed the cells in a dose-dependent manner with the IC50 values of approximately 0.01 nM, 0.002 nM, and 0.03 nM for SHI- 1 cells, HNT-34 cells, and MOLM- 1 cells, respectively. The killing was CD123-dependent as the conjugates were at least 100 fold less toxic to the cells when the CD 123 antigen was blocked by the unconjugated huCD 123-6 antibody.
[487] In another experiment, huCD123-6-Gv4.7S3-SeriMab-sD l conjugate bearing a Linker 1 residue (See FIG. 18) shows similar potency as the huCD123-6Gv4.7S2(or S3)- SeriMab-D8 conjugate in EOL- 1 cells (FIG. 24).
[488] In another experiment, it was found that Ser-linked DGN462 compound with huCD123 antibody has 3-fold higher antigen- specific potency than lysine linked version with higher DAR against EOL- 1 cells (see FIG. 25). The lysine-linked conjugate has a DAR of 2.9; while the Ser-linked conjugate has a DAR of 2.0. In contrast, when antigen-negative Namalwa cells were used, both the lysine-linked and the serine-linked conjugates exhibit significantly less activity, indicating antigen- specific activity in EOL-1 cells.
Example 28. In vitro potency of SeriMab-D8 conjugate
[489] In vitro potency of SeriMab-D8 conjugate (huMOV19-NTS#2-SeriMab-D8) was tested on KB cells (FIG. 26A), Ishikawa cells (human endometrial adenocarcinoma cells) (FIG. 26B), and HEC-1B cells (human endometrial adenocarcinoma cells) (FIG. 26C) using assay protocols similar to that described in Example 8.
[490] As shown in Figures 26A-26C, SeriMab-D8 conjugate has comparable antigen- specific potency and target binding as the lysine conjugate (huMOV19-D2).
Figure imgf000173_0001
huMOV19-D2
Example 29. In vivo Stability of SeriMab Conjugate Having Oxime Linkage
Affinity capture LC-MS
[491] Commercially available xMag-Streptavidin Microparticles (Biochain, CA) were washed with washing buffer (50 mM Tris-HCl, 0.15 M NaCl, pH 8.0) twice and resuspended in the same buffer to their original volume. Biotinylated Fc-FRcc (2.6 Biotin/Fc-FRcc; -114 μg) was then added to the streptavidin particles (200 μί) and rotated at room temperature for 2 h. The beads were washed 3 times with washing buffer and re-suspended to their original volume in washing buffer with 0.4% Tween 20.
[492] Plasma samples were collected from CD-I mice dosed with 10 mg/kg huMOV19- NTS#2-aminooxy-acetyl-MayNMA conjugate at 2 min, 1 day, and 3 days, and was added to streptavidin-biotin-FRcc-Fc particles (200 μΐ^ per sample) along with final 20% washing buffer and 0.2% Tween-20. After gentle shaking at room temperature for 2 h, the resin was washed 3 times with 1 mL washing buffer and eluted using 50 μΐ^ of 0.1 M citric acid/sodium citrate, pH 3.0, 50% ethylene glycol. The eluent containing purified huMOV19 conjugated species was immediately neutralized with 9 μΐ^ of 1 M Tris-HCl, pH 8.5, and then analyzed by SEC or SEC-LC/MS as described previously (Lazar, Wang et al. 2005).
[493] As shown in FIG. 28, the oxime linkage is stable over 3 days in mouse circulation. The peak labeled D2 corresponds to the intact conjugate. The peaks labeled as A and B are cleavage products from oxime hydrolysis and maysine elimination. Small amount of maytansine elimination was also observed with half-life of approximately 17 days, which has been observed with lysine-linked Ab-SMCC-DMl conjugate.
Example 30. In vivo tolerability study
[494] Female CD-I mice (7 weeks of age) were obtained from Charles River Laboratories. Upon receipt, the animals were observed for 8 days prior to study initiation. Animals showed no sign of disease or illness upon arrival, or prior to treatment.
[495] Mice were randomized into three groups by body weight. The body weights ranged from 25.6 to 24.1 grams with an average of 25 grams. Eight mice were dosed with
huMOV19-D2 at 100 and 150 μg/kg (D2 drug dose) and 2 mice with huMOV19-SeriMab-D8 at 200 g/kg (D8 drug dose) based on individual body weight. Administration of all conjugates was carried out intravenously with a 1.0 ml syringe fitted with a 27 gauge, ½ inch needle. Individual body weights were measured at the indicated time points in Figure 29 and the % change is graphed vs. time (days). Each line represents the body weight changes of one mouse. Animals that were moribund or experienced body weight loss >20% were sacrificed, as this is defined as an intolerable dose.
[496] As shown in FIG. 29, the lysine-linked huMOV19-D2 has maximum tolerated dose (MTD) of ~ 100 μg/kg; while the serine-linked conjugate huMOV19-SeriMab-D8 is well tolerated at 200 μg/kg with little sign of body weight loss over 2 weeks.
Example 31. Synthesis of Compound Dll
Figure imgf000174_0001
[497] NHS ester 1 la (10.5 mg, 9.47 μιηοΐ) was dissolved in DMF (0.316 mL). Hydrazine (1.2 μί, 38 μπιοΐ) was added to the solution at rt and was stirred for 2 h. The crude reaction mixture was purified directly by RPHPLC (CI 8 column, CH3CN/H20, gradient, 40% to 55%) to obain the hydrazide Dl l as a white solid (6.5 mg, 68% yield). LCMS = 4.923 min (8 min method). Mass observed (ESf ): 992.70 (M+H).
Example 32.
[498] Conjugates of huMOV19NTS2 antibody with sDl 1 or sDl can be prepared using similar procedures described in Example 25 (see FIGs. 30, 31 A and 3 IB). [499] All publications, patents, patent applications, internet sites, and accession numbers/database sequences (including both polynucleotide and polypeptide sequences) cited herein are hereby incorporated by reference in their entirety for all purposes to the same extent as if each individual publication, patent, patent application, internet site, or accession number/database sequence were specifically and individually indicated to be so incorporated by reference.

Claims

We claim:
1. A cell-binding agent-cytotoxic agent conjugate represented by the following structural formula:
Figure imgf000176_0001
or a pharmaceutically acceptable salt thereof, wherein:
CBA is a cell-binding agent covalently linked to the JCB' group;
JCB' is a moiety formed by reacting an aldehyde group on the CBA and an aldehyde reactive group connected to the group L, wherein the aldehyde group is derived from oxidation of a 2-hydroxyethylamine moiety represented by the following structural formula:
Figure imgf000176_0002
wherein the 2-hydroxyethylamine moiety being part of a serine, threonine, hydroxylysine, 4-hydroxyornithine or 2,4-diamino-5-hydroxy valeric acid residue;
L is a spacer or a bond;
JD' is a linking moiety connecting the cytotoxic agent D with the group L or absent when L is a bond;
D is a cytotoxic agent covalently linked to L through the linking moiety Jo'or to CBA through JCB' when L is a bond; and w is 1, 2, 3 or 4.
2. The conjugate of claim 1, wherein the cell-binding agent is an antibody or an antigen- binding portion thereof, or a antibody mimetic, such as DARPin, Centyrin, affibody, affilin, affitin, anticalin, avimer, Fynomer, Kunitz domain peptide, monobody (or adnectin), tribody, or nanofitin.
3. The conjugate of claim 1, wherein the cell-binding agent is an antibody or an antigen- binding portion thereof, such as Fab, F(ab)2, F(ab'), F(ab')2, F(ab')3, Fd, Fv, disulfide linked Fv, dAb or sdAb (or nanobody), CDR, scFv, (scFv)2, di-scFv, bi-scFv, tascFv (tandem scFv), AVIBODY (e.g. , diabody, triabody, tetrabody), T-cell engager (BiTE), scFv-Fc, Fcab, mAb2, small modular immunopharmaceutical (SMIP), Genmab / unibody or duobody, V-NAR domain, IgNAR, minibody, IgGACH2, DVD- Ig, probody, intrabody, or a multispecificity antibody.
4. The conjugate of claim 3, wherein the aldehyde group is located at the N-terminus of the antibody or antigen-binding portion thereof.
5. The conjugate of claim 4, wherein the N-terminal aldehyde group is derived from oxidation of an N-terminal serine.
6. The conjugate of claim 5, wherein the N-terminal serine is engineered into said
antibody or antibody-binding portion thereof.
7. The conjugate of claim 6, wherein said antibody or antibody-binding portion thereof is any one of the recombinant antibody of any one of claims 90-93.
8. The conjugate of claim 4, wherein the N-terminal serine naturally exists in said
antibody or antigen-binding portion thereof.
9. The conjugate of claim 3, wherein said antibody or antigen-binding portion thereof comprises a light chain sequence of SEQ ID NO: 3.
10. The conjugate of claim 3, wherein said antibody or antigen-binding portion thereof is a chimeric, humanized, or human antibody or antigen-binding portion thereof of a murine antibody or antigen-binding portion thereof comprising a light chain sequence of SEQ ID NO: 3.
11. The conjugate of claim 10, wherein the humanized antibody or antigen-binding
portion thereof is a resurfaced or CDR grafted antibody or antigen-binding portion thereof.
12. The conjugate of any one of claims 4- 11, wherein the N-terminal aldehyde group is located on one or both heavy chains of the antibody or antigen-binding portion thereof, or on one or both light chains of the antibody or antigen-binding portion thereof, or a combination thereof.
13. The conjugate of any one of claims 1- 12, wherein the aldehyde reactive group is a hydrazine, a hydrazide or a hydroxylamine. The conjugate of any one of claims 1- 13, wherein the aldehyde reactive group selected from:
Figure imgf000178_0001
wherein Xa is CH2, O or NCH3; U' is NH, O, S or CH2; U is H or an electron
Z Z' donating group; Xb and Xb' are each independently -OH, -SH or -NH2; R and R are each independently H or an alkyl (preferably -Me); R"' is H or an alkyl; and Xc is N or CH.
15. The conjugate of claim 14, wherein the aldehyde reactive group is
Figure imgf000178_0002
;
Figure imgf000178_0003
The conjugate of any one of claims 1- 13, wherein JCB' is represented by any the following structural formulas:
Figure imgf000178_0004
Figure imgf000179_0001
Figure imgf000179_0002
O
wherein Xa is CH2, O or NCH3; U' is NH, O, S or CH2; U is H or an electron donating
Z Z'
group; Xbi and Xbi ' are each independently -0-, -S- or -NH-; R and R are each independently H or an alkyl (preferably -Me); and R " is H or an alkyl; s i is the site covalently linked to the cell-binding agent; and s2 is the site covalently linked to the group L . 17. The conjugate of claim 16, wherein JCB' is
Figure imgf000180_0001
s2 .
Figure imgf000180_0002
The conjugate of any one of claims 1-17, wherein -L-JD'- is represented by the followin structural formula:
Figure imgf000180_0003
wherein:
s3 is the site covalently linked to the group JCB' ;
s4 is the site covalently linked to the group D;
Zai is absent, -S02NR9-, -NR9S02-, -C(=0)-NR9-, -NR9-C(=0)-, -(CH2CH2)p. NR9-C(=0)-,-C(=0)-NR9(CH2CH2)p., -(CH2CH2)P -C(=0)NR9-, - NR9C(=0)(CH2CH2)P.-, -C(=0)-0-, or -0-C(=0)-;
Za2 is absent, -S02NR9-, -NR9S02-, -C(=0)-NR9-, -NR9-C(=0)-, -C(=0)-0-, - 0-C(=0)-, -C(=0)-NR9-(CH2CH20)p-, -NR9-
C(=0)-(CH2CH20)p-, -(OCH2CH2)p-C(=0)NR9-, or -(OCH2CH2)p-NR9-C(=0)-;
R9 is H or an optionally substituted alkyl;
p and p' are each independently an integer from 1 to 10;
Q is H, a charged substituent or an ionizable group;
Rai, R^, Ra3, Ra4, for each occurrence, are independently H or an optionally substituted alkyl;
ql and rl are each independently an integer from 0 to 10, provided that ql and rl are not both 0.
The conjugate of claim 18, wherein Q is i) H; ii) -SO3H, -Z'-S03H, - OP03H2, -Z'-OP03H2, -P03H2, -Z'-P03H2, -C02H, -Z'-C02H, -NRnR12, or -Z'- NRiiRi2, or a pharmaceutically acceptable salt thereof; or, iii) -N+Ri4Ri5Ri6X or -Z'- N+Ri4Ri5Ri6X ; Z' is an optionally substituted alkylene, an optionally substituted cycloalkylene or an optionally substituted phenylene; Ri4 to Ri6 are each independently an optionally substituted alkyl; and X" is a pharmaceutically acceptable anion.
20. The conjugate of claim 19, wherein Q is -SO3H or -C02H or a pharmaceutically acceptable salt thereof.
21. The conjugate of any one of claims 18-20, wherein Zal is absent; and Za2 is -C(=0)- NR9- or -NR9-C(=0)-.
22. The conjugate of claim 21, wherein R9 is H.
23. The conjugate of any one of claims 18-20, wherein Zal and Z^ are both absent.
24. The conjugate of any one of claims 18-23, wherein Rai, R^, R^ and Ra4 are all -H; and q and r are each independently an integer from 0 to 4.
25. The conjugate of claim 18, wherein -L-JD'- is represented by the following structural formula:
Figure imgf000181_0001
or a pharmaceutically acceptable salt thereof, wherein R is H or -SO3H..
26. The conjugate of any one of claims 1-17, wherein -L-JD'- is represented by the
following structural formula:
Rb6 Q
Figure imgf000181_0002
wherein:
s3 is the site covalently linked to the group JCB' group;
s4 is the site covalently linked to the group D;
Zbi and Zb2 are each independently absent, -S02NRg-, -NRgS02-, -C(=0)-NRg
-NR9-C(=0)-, -C(=0)-0-, -0-C(=0)-, -CH2-0-, -0-CH2-, -(CH2CH20)p- or - (OCH2CH2)p.-, -NR9-C(=0)-CH2-, or -CH2-C(=0)-NR9- wherein p and p' are independently an integer from 1 to 1000;
one of Ei and E2 is -C(=0)-, and the other is -NR9-; or one of Ei and E2 is - C(=0)- or -NR9-, and the other is absent;
R9 is H or an optionally substituted alkyl;
P is [XX]i_io, in which each XX is a residue of an independently selected amino acid, or P is -(NRm-CH2CH2)s-;
s is an integer from 1 to 5;
Rmis H, or alkyl optionally substituted with a charged substituent or an ionizable group;
Rbi, ¾2, ¾3, Rb4, Rb5 and R 6, for each occurrence, are each independently H or an optionally substituted alkyl;
ml and nl, for each occurrence, are independently an integer from 0 to 10. The conjugate of claim 26, wherein -L-JD'- is represented by the following structural formula:
Figure imgf000182_0001
wherein:
Z i and Zt,2 are both absent, or one of ZM and Zt,2 is absent and the other is - CH2-0- or -0-CH2-; and
nl is an integer from 1 to 6.
28. The conjugate of claim 27, wherein RM and Rb2 are both H.
29. The conjugate of claim 26, wherein -L-JD'- is represented by the following structural formula:
Figure imgf000182_0002
Z i and Zb2 are each independently absent, -CH2-0- , -0-CH2-, -NR9- C(=0)-CH2-, or -CH2-C(=0)-NR9-; and
nl and ml are each independently an integer from 1 to 6.
30. The conjugate of claim 29, wherein Zbi and Zb2 are both absent.
31. The conjugate of claim 29, wherein Zbi is -CH2-0-; and Zb2 is absent.
32. The conjugate of claim 29, wherein ZM is -CH2-C(=0)-NR9-; and Zt,2 is -0-CH2- or absent.
33. The conjugate of claim 26, 29 or 32, wherein Rg is-H.
34. The conjugate of any one of claims 26 and 29-33, wherein P is [XX]2^.
35. The conjugate of claim 34, wherein P is [XX]2 or [XX]3.
36. The conjugate of claims 26 and 29-35, wherein each XX is the residue of an
independently selected amino acid selected from: a naturally occurring amino acid, a synthetic amino acid, an amino acid analog, or an amino acid mimetic that functions in a manner similar to the naturally occurring amino acids.
37. The conjugate of claim 36, wherein each XX is the residue of an independently
selected amino acid selected from the group consisting of: Histidine, Alanine, Isoleucine, Arginine, Leucine, Asparagine, Lysine, Aspartic acid, Methionine, Cysteine, Phenylalanine, Glutamic acid, Threonine, Glutamine, Tryptophan, Glycine, Valine, Proline, Serine, Tyrosine, N-methyl-Histidine, N-methyl-Alanine, N-methyl- Isoleucine, N-methyl-Arginine, N-methyl-Leucine, N-methyl-Asparagine, N-methyl- Lysine, N-methyl-Aspartic acid, N-methyl-Methionine, N-methyl-Cysteine, N- methyl-Phenylalanine, N-methyl-Glutamic acid, N-methyl-Threonine, N-methyl- Glutamine, N-methyl-Tryptophan, N-methyl-Glycine, N-methyl- Valine, N-methyl- Proline, N-methyl-Serine, N-methyl-Tyrosine, hydroxyproline, γ-carboxyglutamate, selinocysteine, O-phosphoserine, homoserine, norleucine, methionine sulfoxide, methionine methyl sulfonium, citrulline, Ornithine, cysteine sulfonic acid, cysteine sulfinic acid, 3-aminoalanine, 3-dimethylaminoalanine, 2-amino-4- (dimethylamino)butanoic acid, 2,4-diaminobutanoic acid, 2-amino-6- (dimethylamino)hexanoic acid, 2-amino-5-(dimethylamino)pentanoic acid, and β- alanine, each independently as an L or D isomer.
38. The conjugate of claim 37, wherein each XX is independently the residue of a glycine or an alanine.
39. The conjugate of claims 26 and 29-38, wherein P is a peptide cleavable by a protease.
40. The conjugate of claim 39, wherein P is a peptide cleavable by a protease expressed in tumor tissue.
41. The conjugate of claim 39, wherein P is a peptide cleavable by a lysosomal protease.
42. The conjugate of claims 26, 29-34 and 36-41 , wherein P is selected from the group consisting of: Val-Cit, Val-Lys, Phe-Lys, Lys-Lys, Ala-Lys, Phe-Cit, Leu-Cit, Lle- Cit, Trp, Cit, Phe-Ala, Phe-N9-tosyl-Arg, Phe-N9-nitro-Arg, Phe-Phe-Lys, D-Phe-Phe- Lys, Gly-Phe-Lys, Leu-Ala-Leu, Ile-Ala-Leu, Val-Ala-Val, Ala-Leu-Ala-Leu (SEQ ID NO: 17), β-Ala-Leu-Ala-Leu (SEQ ID NO: 18), Gly-Phe-Leu-Gly (SEQ ID NO: 19), Val-Arg, Arg-Val, Arg-Arg, Val-D-Cit, Val-D-Lys, Val-D-Arg, D-Val-Cit, D- Val-Lys, D- Val-Arg, D- Val-D-Cit, D- Val-D-Lys, D- Val-D-Arg, D-Arg-D-Arg, Ala- Ala, Ala-D-Ala, D- Ala- Ala, and D-Ala-D-Ala., Gly-Gly-Gly, Ala- Ala- Ala, d- Ala- Ala- Ala, Ala-d-Ala-Ala, Ala-Ala-d-Ala, Ala-Val-Cit, and Ala-Val-Ala.
43. The conjugate of claims 26 and 28-41, wherein P is Gly-Gly-Gly, Ala- Ala- Ala, d- Ala-Ala-Ala, Ala-d-Ala-Ala, Ala-Val-Ala, Gly-Gly or Ala- Ala.
44. The conjugate of any one of claims 26 and 34-43, wherein -L-JD'- is represented by the following structural formula:
Figure imgf000184_0001
The conjugate of any one of claims 1-17, wherein -L-JD'- is represented by the following structural formula:
s3 ¾— Zc1-A— Q-L'-f Q')-A'— JD'— ¾ s4
k
s3 is the site covalently linked to the group JCB' ;
s4 is the site covalently linked to the group D;
Figure imgf000184_0002
absent, -S02NR9-, -NR9S02-, -C(=0)-NR9, -NR9-C(=0)-, -C(=0)-0-, -0-C(=0)-, H2-0-, -0-CH2-, -(CH2CH20)p- or -(OCH2CH2)p -, wherein p and p' are
independently an integer from 1 to 1000;
Figure imgf000185_0001
, in which si' is the site covalently linked to the cytotoxic agent D, s2' is the site covalently linked to the group A';
A and A' are each independently an optionally substituted alkylene, an optionally substituted alkenylene, an optionally substituted alkynylene, an optionally substituted cycloalkylene, an optionally substituted cycloalkenylene or an optionally substituted cycloalkynylene;
Q is -Z1-P-Z2-;
Q' is -Zi'-P'-Zz'-;
one of Zi and Z2 is -C(=0)-, and the other is -NRh-;
one of Zi' and Z2' is -C(=0)-, and the other is -NRh -;
P and P' are each independently absent, an optionally substituted alkylene, - (CH2-CH2-0)j-, -(0-CH2-CH2)j-, or [XX] 1-10, in which each XX is a residue of an independently selected amino acid;
j is an integer between 1 and 500;
k is 0 or 1 ;
L is -(CR5R6)v-, -(CR7R8)q-N(Rg)-(CR9Rio)r-, -(CR7R8)q-C(Ra)(Rg)-(CR9Rio)r or -(CRiiRi2)s-N(Rg)-(CRi3Ri4)t-N(Rg')-(CRi5Ri6)u-,;
Rg and Rg' are each independently -(CRi7Rig)p-Z-V;
p is an integer between 1 and 5;
V is H, a charged substituent or an ionizable group;
Z is absent, -C(=0)NRh-alkylene- or -NRh-C(=0)-alkylene-;
Rh and Rh', for each occurrence, are independently H or an optionally substituted alkyl; R5 to Rig, for each occurrence, are independently H or an optionally substituted alkyl;
q, r, s, t, u and v are each independently an integer between 0 and 10.
The conjugate of claim 45, wherein -L-JD'- is represented by the following structural formula:
Figure imgf000186_0001
wherein:
R19 to R22, for each occurrence, are independently H or an optionally substituted alkyl,
m and n are each independently 0 to 10.
47. The conjugate of claim 46, wherein R19 to R22 are each H; R5 and R6 are each H; R7 to Rio are each H; and Rn to Ri6 are each H.
48. The conjugate of claims 45-47, wherein P and P' , for each occurrence, are
independently [XX] 1-10.
49. The conjugate of claim 45-48, wherein each XX is the residue of an independently selected amino acid selected from: a naturally occurring amino acid, a synthetic amino acid, an amino acid analog, or an amino acid mimetic that functions in a manner similar to the naturally occurring amino acids.
50. The conjugate of claim 49, wherein each XX is the residue of an independently
selected amino acid selected from the group consisting of: Histidine, Alanine, Isoleucine, Arginine, Leucine, Asparagine, Lysine, Aspartic acid, Methionine, Cysteine, Phenylalanine, Glutamic acid, Threonine, Glutamine, Tryptophan, Glycine, Valine, Proline, Serine, Tyrosine, N-methyl-Histidine, N-methyl-Alanine, N-methyl- Isoleucine, N-methyl-Arginine, N-methyl-Leucine, N-methyl-Asparagine, N-methyl- Lysine, N-methyl-Aspartic acid, N-methyl-Methionine, N-methyl-Cysteine, N- methyl-Phenylalanine, N-methyl-Glutamic acid, N-methyl-Threonine, N-methyl- Glutamine, N-methyl-Tryptophan, N-methyl-Glycine, N-methyl- Valine, N-methyl- Proline, N-methyl-Serine, N-methyl-Tyrosine, hydroxyproline, γ-carboxyglutamate, selinocysteine, O-phosphoserine, homoserine, norleucine, methionine sulfoxide, methionine methyl sulfonium, citrulline, Ornithine, cysteine sulfonic acid, cysteine sulfinic acid, 3-aminoalanine, 3-dimethylaminoalanine, 2-amino-4- (dimethylamino)butanoic acid, 2,4-diaminobutanoic acid, 2-amino-6- (dimethylamino)hexanoic acid, 2-amino-5-(dimethylamino)pentanoic acid, and β- alanine, each independently as an L or D isomer.
51. The conjugate of claim 50, wherein each XX is the residue of an independently
selected glycine or alanine.
52. The conjugate of any one of claims 45-51, wherein P and P' are each a peptide
cleavable by a protease.
53. The conjugate of claim 52, wherein P and P' are each a peptide cleavable by a
protease expressed in tumor tissue.
54. The conjugate of claim 52, wherein P and P' are each a peptide cleavable by a
lysosomal protease.
55. The conjugate of any one of claims 45-54, wherein P and P' are each selected from the group consisting of: Val-Cit, Val-Lys, Phe-Lys, Lys-Lys, Ala-Lys, Phe-Cit, Leu- Cit, Lle-Cit, Trp, Cit, Phe-Ala, Phe-N -tosyl-Arg, Phe-N -nitro-Arg, Phe-Phe-Lys, D- Phe-Phe-Lys, Gly-Phe-Lys, Leu- Ala-Leu, He- Ala-Leu, Val-Ala-Val, Ala-Leu- Ala- Leu (SEQ ID NO: 17), β-Ala-Leu-Ala-Leu (SEQ ID NO: 18), Gly-Phe-Leu-Gly (SEQ ID NO: 19), Val-Arg, Arg-Val, Arg-Arg, Val-D-Cit, Val-D-Lys, Val-D-Arg, D- Val-Cit, D-Val-Lys, D- Val-Arg, D-Val-D-Cit, D- Val-D-Lys, D-Val-D-Arg, D-Arg- D-Arg, Ala- Ala, Ala-D-Ala, D-Ala-Ala, and D-Ala-D-Ala., Gly-Gly-Gly, Ala- Ala- Ala, D-Ala-Ala-Ala, Ala-D-Ala-Ala, Ala-Ala-D-Ala, Ala-Val-Cit, Ala-Val-Ala, and β-Ala-Gly-Gly-Gly.
56. The conjugate of any one of claims 45-54, wherein P and P' are each Gly-Gly-Gly, Ala- Ala- Ala, D- Ala- Ala- Ala, Ala-D-Ala-Ala, Ala-Val-Ala, or β-Ala-Gly-Gly-Gly.
57. The conjugate of any one of claims 1-56, wherein D is a maytansinoid.
58. The conjugate of any one of claims 1-25 and 45-56, wherein D is a maytansinoid represented by the followin structural formula:
Figure imgf000188_0001
wherein:
RM, RM\ and RM'\ for each occurrence, are independently H or an optionally substituted alkyl;
Ρνΐ ' , R2' , R3' and R4' for each occurrence, are independently H, an optionally substituted an optionally substituted alkyl, an optionally substituted alkenyl, an optionally substituted cycloalkyl, an optionally substituted heterocyclyl, an optionally substituted aryl, or an optionally substituted heteroaryl;
i is an integer between 0 and 15; and
s5 is the site covalently linked to the group JD' . The conjugate of claim 58, wherein D is represented by the following structural formula:
Figure imgf000189_0001
The conjugate of any one of claims 1-17 and 26-44, wherein D is a maytaninoid represented by the followin structural formula:
Figure imgf000189_0002
wherein: RM, RM\ and RM", for each occurrence, are independently H or an optionally substituted alkyl; and s5 is the site covalently linked to the group JD'. The conjugate of claim 60, wherein D is represented by the following structural formula:
Figure imgf000190_0001
The conjugate of any one of claims 1-56, wherein D is a benzodiazepine compound. The conjugate of any one of claims 1-17 and 45-56 , wherein D is represented by the following structural formula:
Figure imgf000190_0002
Figure imgf000191_0001
wherein:
the double line =-= between N and C represents a single bond or a double bond, provided that when it is a double bond, X is absent and Y is -H, and when it is a single bond, X is selected from -H, the linking group with the reactive group bonded thereto, or an amine protecting group (preferably X is -H);
Y is selected from -H, -OR, -OCOR', -SR, -NR'R," -S03M, -S02M or - OS03M, wherein M is -H or a cation such as Na+ or K+;
R is -H, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms or a PEG group -(CH2CH20)n-Rc, wherein n is an integer from 1 to 24, and Rc is a linear or branched alkyl having 1 to 4 carbon atoms;
R' and R" are the same or different, and are selected from -H, -OH, -OR, - NRRg , -COR, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, an optionally substituted aryl having from 6 to 18 carbon atoms, an optionally substituted 3- to 18-membered heterocyclic ring having 1 to 6 heteroatoms selected from O, S, N and P, a PEG group -(CH2CH20)n- Rc, wherein n is an integer from 1 to 24, preferably n is 2, 4 or 8; and Rg is -H, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms or a PEG group -(CH2CH20)n-Rc;
X' is selected from the group consisting of -H, -OH, a substituted or unsubstituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, phenyl, and an amine-protecting group;
Y' is selected from the group consisting of -H, an oxo group, a substituted or unsubstituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms;
A and A' are selected from -O- and -S-;
W is absent, or selected from -0-, -N(Re)-, -N(Re)-C(=0)-, -N(C(=0)Re)-, -S- or -CH2-S-, -CH2NRe-;
Rx is absent or selected from a linear, branched or cyclic alkyl having 1 to 10 carbon atoms;
Re is -H, a linear, branched or cyclic alkyl, alkenyl or alkynyl having 1 to 10 carbon atoms or -(CH2-CH2-0)n-Rk, wherein Rk is a -H, a linear, branched cyclic alkyl having 1 to 6 carbon atoms, optionally bearing a secondary amino (e.g. , -NHR101) or tertiary amino (-NR101R102) group or a 5- or 6-membered nitrogen containing heterocycle, such as piperidine or morpholine, wherein R101 and R102 are each independently a linear, branched, or cyclic alkyl, alkenyl or alkynyl having 1 to 10 carbon atoms; and
G is selected from -CH- or -N-;
X" and X'" are the same or different, and are independently selected from -((¾)„-, -NR'-, -CO-, -BH-, -SO- or -S02-;
Y" and Y'" are the same or different, and are independently selected from -O, -((¾)„-, -NR'- or -S-;
Z" and Z' " are the same or different, and are independently selected from -((¾)„-, -CR7'R8'-, -NR9'-, -0-, and -S-;
n' is selected from 0, 1, 2 and 3;
R7' and Rg' are the same or different, and are each independently selected from -H, -OH, -SH, -COOH, -NHR', a polyethylene glycol unit -(OCH2CH2)n-, an amino acid, a peptide unit bearing 2 to 6 amino acids, an optionally substituted linear, branched or cyclic alkyl having from 1 to 10 carbon atoms;
Rg' is independently selected from -H, an optionally substituted linear, branched or cyclic alkyl having from 1 to 10 carbon atoms, a polyethylene glycol unit -(OCH2CH2)n-;
RA, RA RB and RB- are the same or different, and are independently selected from the group consisting of -H, halide, or an optionally substituted branched, linear or cyclic alkyl having 1 to 10 carbon atoms; or RA and RA- and/or RB and RB- together form a double bond containing group =B and =B' respectively;
=B and =B' are the same or different and independently selected from an optionally substituted branched or linear alkenyl or a carbonyl group;
Figure imgf000193_0001
QAI and QAi ' are each independently absent, a linear, branched or cyclic alkyl from 1 to 6 carbon atoms or a -CH=CH unit;
Ar and Ar' are each independently absent, or represent an aryl group;
QA2 and QA2' are each independently selected from -H, the linking group with the reactive group bonded thereto, a substituted or unsubstituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, a polyethylene glycol unit -Rc -(OCH2CH2)n-Rc, or a substituent selected from a halogen,
guanidinium [-NH(C=NH)NH2] , -OR, -NR'R", -N02, -NCO, -NR'COR", -SR, a sulfoxide represented by -SOR', a sulfone represented by -S02R', a sulfonate -SO3M, a sulfate -OSO3M, a sulfonamide represented by S02NR'R", cyano, an
azido, -COR', -OCOR' or -OCONR'R"; and
Rc is absent or selected from linear or branched alkyl, alkenyl or alkynyl having 1 to 5 carbon atoms. The conjugate of claim 63, wherein D is represented by the following structural formula:
Figure imgf000194_0001
or a pharmaceutically acceptable salt thereof, wherein RA" and RB" are the same or different, and are selected from -H and -Me.
The conjugate of claim 63, wherein:
the double line =-= between N and C represents a single bond or a double bond, provided that when it is a double bond X is absent and Y is -H, and when it is a single bond, X is -H; Y is -OH or -S03M;
M is -H or a pharmaceutically acceptable cation (e.g. , Na+);
X' and Y' are both -H;
A and A' are both -0-;
R6 is -OMe; and
Rx is a linear or branched alkyl having 1 to 6 carbon atoms. The conjugate of claim 65, wherein D is represented by the following structural formula:
Figure imgf000195_0001
or a pharmaceutically acceptable salt thereof, wherein Y is -H or -S03M, and M is H+ or a cation.
67. The conjugate of any one of claims 63-66, wherein Y is -S03M, and M is H+, Na+ or K+.
68. The conjugate of any one of claims 1-17, wherein -L-JD'- is a bond; and D is represented by the following structural formula:
Figure imgf000196_0001
or a pharmaceutically acceptable salt thereof, wherein: one of L', L", and L' " is represented by the following formula:
s5 I— R5-P-C(=0)-(CRaRb)r-Zdl-(CRaRb)r^^ s6
S < (A) and the other two are the same or different, and are independently selected from -H, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, a polyethylene glycol unit -(OCH2CH2)N-RC, halogen, guanidinium [- NH(C=NH)NH2] , -OR, -NR'R" , -N02, -NR'COR" , -SR, -SOR' , -S02R' , -S03H, -OS03H, -S02NR'R" , cyano, an azido, -COR' , -OCOR' , and -OCONR'R" ;
Zdi is absent, -C(=0)-NR9- or -NR9-C(=0)-;
P is an amino acid residue or a peptide containing between 2 to 20 amino acid residues;
RA and Rb, for each occurrence, are independently -H, (Ci-C3)alkyl or a charged substituent or an ionizable group Q;
r and r' are independently an integer from 1 to 6;
the double line ="= between N and C represents a single bond or a double bond, provided that when it is a double bond X is absent and Y is -H, or a linear or branched alkyl having 1 to 4 carbon atoms, and when it is a single bond, X is -H or an amine protecting moiety;
Y is a leaving group selected from -OR, -OCOR' , -OCOOR' , -OCONR'R" , -NR'R" , -NR'COR" , -NR'NR'R" , an optionally substituted 5- or 6-membered nitrogen-containing heterocycle (e.g. , piperidine, tetrahydropyrrole, pyrazole, morpholine, etc. attached through the nitrogen atom), a guanidinum represented by -NR' (C=NH)NR'R" , an amino acid, or a peptide represented by -NRCOP' , -SR, -SOR' , halogen, cyano, azido, -OS03H, sulfite (- S03H or -S02H), metabisulfite (H2S205), mono-, di-, tri-, and tetra- thiophosphate (P03SH3, P02S2H2, POS3H2, PS4H2), thio phosphate ester (R'O^SCOR1), R;S-, R;SO, R'SOZ, R;S03, thiosulfate (HS203), dithionite (HS204), phosphorodithioate (P(=S)(ORK')(S)(OH)), hydroxamic acid (RK C(=0)NOH), and formaldehyde sulfoxylate (HOCH2S02 ~) or a mixture thereof, wherein R1 is a linear or branched alkyl having 1 to 10 carbon atoms and is substituted with at least one substituent selected from -N(RJ)2, -C02H, -S03H, and -P03H; R1 can be further optionally substituted with a substituent for an alkyl described herein; RJ is a linear or branched alkyl having 1 to 6 carbon atoms; RK is a linear, branched or cyclic alkyl, alkenyl or alkynyl having 1 to 10 carbon atoms, aryl, heterocyclyl or heteroaryl;
P' is an amino acid residue or a polypeptide containing between 2 to 20 amino acid residue, R, for each occurrence, is independently selected from the group consisting of -H, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, a polyethylene glycol unit -(CH2CH20)n-Rc, an optionally substituted aryl having 6 to 18 carbon atoms, an optionally substituted 5- to 18-membered heteroaryl ring containing one or more heteroatoms independently selected from nitrogen, oxygen, and sulfur, or an optionally substituted 3- to 18-membered heterocyclic ring containing 1 to 6 heteroatoms independently selected from O, S, N and P;
R' and R" are each independently selected from -H, -OH, -OR, -NHR, -NR2, -COR, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, a polyethylene glycol unit -(CH2CH20)n-Rc, and an optionally substituted 3- to 18-membered heterocyclic ring having 1 to 6 heteroatoms independently selected from O, S, N and P;
Rc is -H or an optionally substituted linear or branched alkyl having 1 to 4 carbon atoms;
n is an integer from 1 to 24;
X' is selected from -H, an amine-protecting group, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, a polyethylene glycol unit -(CH2CH20)n-Rc, an optionally substituted aryl having 6 to 18 carbon atoms, an optionally substituted 5- to 18-membered heteroaryl ring containing one or more heteroatoms independently selected from nitrogen, oxygen, and sulfur, and an optionally substituted 3- to 18-membered heterocyclic ring containing 1 to 6 heteroatoms independently selected from O, S, N and P;
Y' is selected from -H, an oxo group, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, an optionally substituted 6- to 18-membered aryl, an optionally substituted 5- to 18-membered heteroaryl ring containing one or more heteroatoms independently selected from nitrogen, oxygen, and sulfur, an optionally substituted 3- to 18-membered heterocyclic ring having 1 to 6 heteroatoms;
Ri, R2, R3, R4, Ri', R2', R3' and R4' are each independently selected from the group consisting of -H, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, a polyethylene glycol unit -(OCH2CH2)n-Rc, halogen, guanidinium [-NH(C=NH)NH2] , -OR, -NR'R", -N02, -NCO, -NR'COR", -SR, -SOR', - S02R', -S03 "H, -OS03H, -S02NR'R", cyano, an azido, -COR', -OCOR', and - OCONR'R" ; R6 is -H, -R, -OR, -SR, -NR'R", -N02, or halogen;
A and A' are the same or different, and are independently selected from -0-, oxo (- C(=0)-), -CRR'O-, -CRR'-, -S-, -CRR'S-, -NR5 and -CRR'N(R5)-; and
R5 and Rg are each independently -H or an optionally substituted linear or branched alkyl having 1 to 10 carbon atoms; and the remaining variables are as described above in the second embodiment or the 1st specific embodiment.
69. The conjugate of claim 68, wherein L' is represented by formula (A) and L" and L'" are both -H.
70. The conjugate of claim 68 or 69, wherein:
the double line— between N and C represents a single bond or double bond, provided that when it is a double bond X is absent and Y is -H, and when it is a single bond, X is -H, Y is -OH or -S03M;
Ri, R2, R3, R4, Ri', R2', R3' and R4' are all -H;
R6 is -OMe;
X' and Y' are both -H;
A and A' are -0-; and
M is H+, Na+ or K+
71. The conjugate of any one of claims 68-70, wherein Ra and R are both H.
72. The conjugate of any one of claims 68-71, wherein R5 and R9 are each independently H or Me.
73. The conjugate of claim 72, wherein R5 and R9 are both H.
74. The conjugate of any one of claims 68-73, wherein P is a peptide containing 2 to 10 amino acid residues.
75. The conjugate of claim 74, wherein P is a peptide containing 2 to 5 amino acid units.
76. The conjugate of claim 75, wherein P is selected from Gly-Gly-Gly, Ala-Val, Val- Ala, Val-Cit, Val-Lys, Phe-Lys, Lys-Lys, Ala-Lys, Phe-Cit, Leu-Cit, Lle-Cit, Trp, Cit, Phe-Ala, Phe-N9-tosyl-Arg, Phe-N9-nitro-Arg, Phe-Phe-Lys, D-Phe-Phe-Lys, Gly-Phe-Lys, Leu-Ala-Leu, Ile-Ala-Leu, Val-Ala-Val, Ala-Leu-Ala-Leu (SEQ ID NO: 17), β-Ala-Leu- Ala-Leu (SEQ ID NO: 18) and Gly-Phe-Leu-Gly (SEQ ID NO: 19), Val-Arg, Arg-Val, Arg-Arg, Val-D-Cit, Val-D-Lys, Val-D-Arg, D- Val-Cit, D- Val-Lys, D- Val-Arg, D-Val-D-Cit, D- Val-D-Lys, D- Val-D-Arg, D-Arg-D-Arg, Ala- Ala, Ala-D-Ala, D-Ala-Ala, and D-Ala-D-Ala. The conjugate of claim 76, wherein P is Gly-Gly-Gly, Ala-Val, Ala-Ala, Ala-D-Ala, D-Ala-Ala, and D-Ala-D-Ala.
The conjugate of claim 68, wherein -L-JD -D is represented by the following structural formula:
Figure imgf000200_0001
Figure imgf000200_0002
or a pharmaceutically acceptable salt thereof, wherein Y is H or -SO3M and M is H , Na or K+.
79. The conjugate of claim 1 , wherein the conjugate is represented by the following structural formula:
Figure imgf000201_0001
Figure imgf000202_0001
Figure imgf000203_0001
Figure imgf000204_0001
(27); 204
Figure imgf000205_0001
Figure imgf000206_0001
206
Figure imgf000207_0001
207
Figure imgf000208_0001
208
Figure imgf000209_0001
Figure imgf000210_0001
6);
Figure imgf000211_0001
Figure imgf000212_0001
(66);
Figure imgf000213_0001
Ĩ70);
Figure imgf000214_0001
Ĩ74); 214
Figure imgf000215_0001
Figure imgf000216_0001
Figure imgf000216_0002
Figure imgf000216_0003
Figure imgf000216_0004
(82)
or a pharmaceutically acceptable salt thereof, wherein DM is represented by the following structural formula:
Figure imgf000217_0001
and Y is H or -S03M and M is H+, Na+ or K+.
80. The conjugate of any one of claims 1-79, wherein w is 2 or 4.
81. A composition comprising an antibody-cytotoxic agent conjugate of any one of
claims 1-79, wherein w is 2 or 4 in at least about 70%, 80%, 90%, 95% or more of the conjugates.
82. The composition of claim 81, wherein w is 1 is no more than about 10% or 5% of the conjugates.
83. A recombinant antibody heavy chain (HC), light chain (LC), or an antigen-binding portion thereof, comprising a heterologous signal peptide having an amino acid sequence of SEQ ID NO: 1.
84. The recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof of claim 83, wherein said heterologous signal peptide is fused to the N-terminus of the mature processed sequence of the recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof.
85. The recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof of claim 83, wherein said heterologous signal peptide is fused to the 2nd amino acid residue of the N-terminus of the mature processed sequence of the recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof.
86. A recombinant antibody heavy chain (HC), light chain (LC), or an antigen-binding portion thereof, comprising a Ser or Thr residue immediately C-terminal to the last residue of the signal peptide of the heavy chain (HC), light chain (LC), or antigen- binding portion thereof.
87. The recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof of claim 86, wherein the Ser or Thr residue is immediately N-terminal to the first residue of the mature processed sequence of the recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof.
88. The recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof of claim 86, wherein the Ser or Thr residue replaces one or more N- terminal amino acid residue(s) of the mature processed sequence of the recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof.
89. The recombinant antibody heavy chain (HC), light chain (LC), or an antigen-binding portion thereof of claim 86, having a sequence of: SEQ ID NO: 10 or 14.
90. A recombinant antibody comprising a mature processed sequence of the heavy chain, light chain, or antigen-binding portion thereof, derived from the recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof of any one of claims 86-89.
91. The recombinant antibody of claim 90, which is an Fab, F(ab)2, F(ab'), F(ab')2,
F(ab')3, Fd, Fv, disulfide linked Fv, dAb or sdAb (or nanobody), CDR, scFv, (scFv)2, di-scFv, bi-scFv, tascFv (tandem scFv), AVIBODY (e.g. , diabody, triabody, tetrabody), T-cell engager (BiTE), scFv-Fc, Fcab, mAb2, small modular immu- nopharmaceutical (SMIP), Genmab / unibody or duobody, V-NAR domain, IgNAR, minibody, IgGACH2, DVD-Ig, probody, intrabody, or a multispecificity antibody.
92. The recombinant antibody of claim 91, which is a sdAb (single domain antibody or nanobody).
93. The recombinant antibody of claim 90, comprising 1, 2, 3, or 4 of the mature
processed sequence of the heavy chain, light chain, or antigen-binding portion thereof, each derived from the recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof of any one of claims 86-89.
94. A modified antibody oxidized from an antibody having an N-terminal Ser or Thr on a mature processed sequence of the heavy chain, light chain, or antigen-binding portion thereof, wherein the N-terminal Ser or Thr has been oxidized to an aldehyde group in the modified antibody.
95. The modified antibody of claim 94, wherein the antibody is derived from a
recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof comprising:
(1) a heterologous signal peptide having an amino acid sequence of SEQ ID NO:
l ;
(2) a Ser or Thr residue immediately N-terminal to the first residue of the mature processed sequence of the recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof; or (3) a Ser or Thr residue replacing one or more N-terminal amino acid residue(s) of the mature processed sequence of the recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof.
96. The modified antibody of claim 94, wherein the antibody is a murine antibody or antigen -binding portion thereof comprising a light chain sequence of SEQ ID NO: 3. 97. The modified antibody of claim 94, wherein the antibody is a chimeric, humanized, or human antibody or antigen-binding portion thereof of a murine antibody or antigen- binding portion thereof comprising a light chain sequence of SEQ ID NO: 3.
98. The modified antibody of claim 97, wherein the humanized antibody or antigen- binding portion thereof is resurfaced or CDR grafted antibody or antigen-binding portion thereof.
99. A polynucleotide encoding the recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof of any one of claims 86-89.
100. The polynucleotide of claim 99, which is codon-optimized for expression in a
mammalian expression system.
101. A method of producing a recombinant antibody heavy chain (HC), light chain (LC), or an antigen-binding portion thereof, the method comprising expressing the polynucleotide of claim 99 in an expression system.
102. The method of claim 101, wherein the expression system is a mammalian expression system.
103. A method of preparing a cell-binding agent-cytotoxic agent conjugate, comprising the steps of:
(a) oxidizing a 2-hydroxyethylamine moiety of a cell-binding agent with an oxidizing agent to form an oxidized cell-binding agent having an aldehyde group; wherein the 2-hydroxyethylamine moiety is part of a serine, threonine, hydroxylysine, 4- hydroxyornithine or 2,4-diamino-5-hydroxy valeric acid residue, and is represented by the following structural formula:
Figure imgf000219_0001
, and
(b) contacting the oxidized cell-binding agent with: (i) a cytotoxic agent-linker compound having an aldehyde reactive group or a cytotoxic agent having an aldehyde reactive group to form the cell-binding agent- cytotoxic agent conjugate; or
(ii) a linker compound having an aldehyde reactive group to form a modified antibody or a modified antigen-binding portion thereof having a linker bound thereto, followed by reacting the modified antibody or the modified antigen-binding portion thereof with a cytotoxic agent to form the cell-binding agent-cytotoxic agent conjugate; or
(iii) a cytotoxic agent followed by the addition of a linker compound having an aldehyde reactive group and a reactive group that can form a covalent bond with the cytotoxic agent to form the cell-binding agent-cytotoxic agent conjugate.
104. The method of claim 103, wherein the cell-binding agent is an antibody or an antigen- binding portion thereof, or a antibody mimetic, such as DARPin, Centyrin, affibody, affilin, affitin, anticalin, avimer, Fynomer, Kunitz domain peptide, monobody (or adnectin), tribody, or nanofitin.
105. The method of claim 103, wherein the cell-binding agent is an antibody or an antigen- binding portion thereof, such as Fab, F(ab)2, F(ab'), F(ab')2, F(ab')3, Fd, Fv, disulfide linked Fv, dAb or sdAb (or nanobody), CDR, scFv, (scFv)2, di-scFv, bi-scFv, tascFv (tandem scFv), AVIBODY (e.g. , diabody, triabody, tetrabody), T-cell engager (BiTE), scFv-Fc, Fcab, mAb2, small modular immunopharmaceutical (SMIP), Genmab / unibody or duobody, V-NAR domain, IgNAR, minibody, IgGACH2, DVD- Ig, probody, intrabody, or a multispecificity antibody.
106. The method of claim 103, wherein the method comprises the steps of:
(a) oxidizing an 2-hydroxyethylamine moiety of an antibody or an antigen-binding portion thereof with an oxidizing agent to form an oxidized antibody or an oxidized antigen-binding portion thereof having an aldehyde group,
Figure imgf000220_0001
wherein the 2-hydroxyethylamine moiety is part of an N-terminal serine, threonine, hydroxylysine, 4-hydroxyornithine or 2,4-diamino-5-hydroxy valeric acid residue; and
(b) reacting the oxidized antibody or the oxidized antigen-binding portion thereof with a cytotoxic agent-linker compound having an aldehyde reactive group or a cytotoxic agent having an aldehyde reactive group to form the antibody-cytotoxic agent conjugate
Figure imgf000221_0001
wherein:
JCB is an aldehyde reactive group;
L is a spacer or a bond;
JD' is a linking moiety connecting cytotoxic agent D with the group L or absent when L is a bond;
D is a cytotoxic agent covalently linked to L through the linking moiety JD' ; and
w is 1, 2, 3 or 4.
107. The method of claim 103, wherein the method comprising the steps of:
(a) oxidizing an N-terminal 2-hydroxyethylamine moiety of an antibody or an antigen-binding portion thereof with an oxidizing agent to form an oxidized antibody or an oxidized antigen-binding portion thereof having a N-terminal aldehyde group,
Figure imgf000221_0002
wherein the 2-hydroxyethylamine moiety is part of an N-terminal serine, threonine, hydroxylysine, 4-hydroxyornithine or 2,4-diamino-5-hydroxy valeric acid residue; (b) reacting the oxidized antibody or the oxidized antigen-binding portion thereof with a linker compound having an aldehyde reactive group to form a modified antibody or a modified antigen-binding portion thereof having a linker bound thereto, followed by reacting the modified antibody or the modified antigen-binding portion thereof with a cytotoxic agent to form the antibody-cytotoxic agent conjugate
Figure imgf000221_0003
^ wherein:
JCB is an aldehyde reactive group; L is a spacer or a bond;
D' is a cytotoxic agent;
JD is a reactive group that can form a covalent bond with the cytotoxic agent
D' ;
JD' is a linking moiety formed by reacting the linking group JD with the cytotoxic agent D' ;
D is a cytotoxic agent covalently linked to L through the linking moiety JD' ; and
w is 1, 2, 3 or 4.
The method of claim 103, wherein the method comprising the steps of:
(a) oxidizing an N-terminal 2-hydroxyethylamine moiety of an antibody or an antigen-binding portion thereof with an oxidizing agent to form an oxidized antibody or an oxidized antigen-binding portion thereof having a N-terminal aldehyde group,
Figure imgf000222_0001
wherein the 2-hydroxyethylamine moiety is part of an N-terminal serine, threonine, hydroxylysine, 4-hydroxyornithine or 2,4-diamino-5-hydroxy valeric acid residue; and
(b) contacting the oxidized antibody or the oxidized antigen-binding portion thereof with a cytotoxic agent followed by addition of a linker compound having an aldehyde reactive group to form the antibody-cytotoxic agent conjugate
Figure imgf000222_0002
wherein:
JCB is an aldehyde reactive group;
L is a spacer or a bond;
D' is a cytotoxic agent;
JD is a reactive group that can form a covalent bond with the cytotoxic agent
D' ;
JD' is a linking moiety formed by reacting the linking group JD with the cytotoxic agent D' ; D is a cytotoxic agent covalently linked to L through the linking moiety JD'; and
w is 1, 2, 3 or 4.
109. The method of any one of claims 105-108, wherein the 2-hydroxyethylamine moiety is part of an N-terminal serine or threonine
110. The method of claim 109, wherein the N-terminal serine naturally exists in said
antibody or antigen-binding portion thereof.
111. The method of claim 109, wherein the N-terminal serine is engineered into said
antibody or antigen-binding portion thereof.
112. The method of claim 111, wherein said antibody or antibody-binding portion thereof is any one of the recombinant antibody of any one of claims 90-93.
113. The method of any one of claims 103-108, wherein said antibody or antigen-binding portion thereof is obtained by expressing a polynucleotide encoding a recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof comprising:
(1) a heterologous signal peptide having an amino acid sequence of SEQ ID NO:
l ;
(2) a Ser or Thr residue immediately N-terminal to the first residue of the mature processed sequence of the recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof; or
(3) a Ser or Thr residue replacing one or more N-terminal amino acid residue(s) of the mature processed sequence of the recombinant antibody heavy chain (HC), light chain (LC), or antigen-binding portion thereof.
114. The method of any one of claims 103-108, wherein said antibody or antigen-binding portion thereof comprises a light chain sequence of SEQ ID NO: 3.
115. The method of any one of claims 103-108, wherein said antibody or antigen-binding portion thereof is a chimeric, humanized, or human antibody or antigen-binding portion thereof of a murine antibody or antigen-binding portion thereof comprising a light chain sequence of SEQ ID NO: 3.
116. The method of claim 115, wherein the humanized antibody or antigen-binding portion thereof is resurfaced or CDR grafted antibody or antigen-binding portion thereof.
117. The method of any one of claims 103-116, wherein the reaction of step (b) is carried out in the presence of an aniline catalyst.
118. The method of claim 117, wherein the aniline catalyst is 4-aminophenethylalcohol.
119. The method of any one of claims 103-118, wherein the molar ratio of the aldehyde reactive group to the oxidized antibody or the oxidized antigen-binding portion thereof is about 4: 1.
120. The method of any one of claims 103-119, wherein the oxidizing agent in step (a) is periodate.
121. The method of any one of claims 103-120, wherein step (b) is carried out at pH5-6, or pH5.
122. The method of any one of claims 103-121, wherein the cell-binding agent-cytotoxic agent conjugate is the conjugate of any one of claims 1-80.
123. A pharmaceutical composition comprising the conjugate of any one of claims 1-80 and a pharmaceutically acceptable carrier.
124. A method of inhibiting abnormal cell growth or treating a proliferative disorder, an autoimmune disorder, destructive bone disorder, infectious disease, viral disease, fibrotic disease, neurodegenerative disorder, pancreatitis or kidney disease in a mammal, comprising administering to said mammal a therapeutically effective amount of a conjugate of any one of claims 1-80, and optionally, a chemotherapeutic agent.
125. The method of claim 124, wherein the method is for treating a condition selected from the group consisting of: cancer, rheumatoid arthritis, multiple sclerosis, graft versus host disease (GVHD), transplant rejection, lupus, myositis, infection, and immune deficiency.
126. The method of claim 125, wherein the method is for treating a cancer.
127. The method of claim 126, wherein the cancer is leukemia, lympohoma, melanoma, lung cancer (such as NSCLC), prostate cancer, ovarian cancer, endometrial cancer, pancreatic cancer, breast cancer, peritoneal cancer, squamous cell carcinoma of the head and neck, myelodysplasia syndrome (MDS), and cervical cancer.
128. The method of claim 126, wherein the cancer is acute myeloid leukemia (AML).
129. The method of claim 126, wherein the cancer is non-small cell lung cancer.
130. A cytotoxic compound represented by the following structural formula:
Figure imgf000225_0001
or a pharmaceutically acceptable salt thereof, wherein: one of LD', LD", and LD' " is represented by the following formula:
— NR5-P-C(=0)-(CRaRb)r-Zdl-(CRaRb)r^JCB (A>) and the other two are the same or different, and are independently selected from -H, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, a polyethylene glycol unit -(OCH2CH2)n-Rc, halogen, guanidinium [- NH(C=NH)NH2], -OR, -NR'R", -N02, -NR'COR", -SR, -SOR', -S02R', -S03H, -OS03H, -S02NR'R", cyano, an azido, -COR', -OCOR', and -OCONR'R" ;
Zdi is absent, -C(=0)-NR9- or -NR9-C(=0)-;
P is an amino acid residue or a peptide containing between 2 to 20 amino acid residues;
Ra and Rb, for each occurrence, are independently -H, (Ci-C3)alkyl or a charged substituent or an ionizable group Q;
r and r' are independently an integer from 1 to 6;
the double line— between N and C represents a single bond or a double bond, provided that when it is a double bond X is absent and Y is -H, or a linear or branched alkyl having 1 to 4 carbon atoms, and when it is a single bond, X is -H or an amine protecting moiety;
Y is a leaving group selected from -OR, -OCOR', -OCOOR', -OCONR'R", -NR'R", -NR'COR", -NR'NR'R", an optionally substituted 5- or 6-membered nitrogen-containing heterocycle (e.g., piperidine, tetrahydropyrrole, pyrazole, morpholine, etc. attached through the nitrogen atom), a guanidinum represented by -NR'(C=NH)NR'R", an amino acid, or a peptide represented by -NRCOP', -SR, -SOR', halogen, cyano, azido, -OS03H, sulfite (- S03H or -SO2H), metabisulfite (H2S2O5), mono-, di-, tri-, and tetra- thiophosphate (P03SH3, PO2S2H2, POS3H2, PS4H2), thio phosphate ester (R'O^SCOR1), R;S-, R;SO, ^02, R'SOa, thiosulfate (HS203), dithionite (HS204), phosphorodithioate (P(=S)(ORk')(S)(OH)), hydroxamic acid (Rk C(=0)NOH), and formaldehyde sulfoxylate (HOCH2SO2 ) or a mixture thereof, wherein R1 is a linear or branched alkyl having 1 to 10 carbon atoms and is substituted with at least one substituent selected from -N(Rj)2, -C02H, -S03H, and -P03H; R1 can be further optionally substituted with a substituent for an alkyl described herein; RJ is a linear or branched alkyl having 1 to 6 carbon atoms; Rk is a linear, branched or cyclic alkyl, alkenyl or alkynyl having 1 to 10 carbon atoms, aryl, heterocyclyl or heteroaryl;
P' is an amino acid residue or a polypeptide containing between 2 to 20 amino acid residue, R, for each occurrence, is independently selected from the group consisting of -H, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, a polyethylene glycol unit -(CH2CH20)n-Rc, an optionally substituted aryl having 6 to 18 carbon atoms, an optionally substituted 5- to 18-membered heteroaryl ring containing one or more heteroatoms independently selected from nitrogen, oxygen, and sulfur, or an optionally substituted 3- to 18-membered heterocyclic ring containing 1 to 6 heteroatoms independently selected from O, S, N and P;
R' and R" are each independently selected from -H, -OH, -OR, -NHR, -NR2, -COR, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, a polyethylene glycol unit -(CH2CH20)n-Rc, and an optionally substituted 3- to 18-membered heterocyclic ring having 1 to 6 heteroatoms independently selected from O, S, N and P;
Rc is -H or an optionally substituted linear or branched alkyl having 1 to 4 carbon atoms;
n is an integer from 1 to 24;
X' is selected from -H, an amine-protecting group, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, a polyethylene glycol unit -(CH2CH20)n-Rc, an optionally substituted aryl having 6 to 18 carbon atoms, an optionally substituted 5- to 18-membered heteroaryl ring containing one or more heteroatoms independently selected from nitrogen, oxygen, and sulfur, and an optionally substituted 3- to 18-membered heterocyclic ring containing 1 to 6 heteroatoms independently selected from O, S, N and P;
Y' is selected from -H, an oxo group, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, an optionally substituted 6- to 18-membered aryl, an optionally substituted 5- to 18-membered heteroaryl ring containing one or more heteroatoms independently selected from nitrogen, oxygen, and sulfur, an optionally substituted 3- to 18-membered heterocyclic ring having 1 to 6 heteroatoms;
Ri, R2, R3, R4, Ri', R2', R3' and R4' are each independently selected from the group consisting of -H, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, a polyethylene glycol unit -(OCH2CH2)n-Rc, halogen, guanidinium [-NH(C=NH)NH2] , -OR, -NR'R", -N02, -NCO, -NR'COR", -SR, -SOR', - S02R', -S03 "H, -OS03H, -S02NR'R", cyano, an azido, -COR', -OCOR', and - OCONR'R" ; R6 is -H, -R, -OR, -SR, -NR'R" , -N02, or halogen;
A and A' are the same or different, and are independently selected from -0-, oxo (- C(=0)-), -CRR'O-, -CRR'-, -S-, -CRR'S-, -NR5 and -CRR'N(R5)-;
R5 and Rg are each independently -H or an optionally substituted linear or branched alkyl having 1 to 10 carbon atoms;
JCB is an aldehyde reactive group.
131. The compound of claim 130, wherein JCB is hydrazine, a hydrazide or a
hydroxylamine.
The compound of claim 130, wherein JCB is selected from:
Figure imgf000228_0001
wherein Xa is CH2, O or NCH3; U' is NH, O, S or CH2; U is H or an electron
Z Z' donating group; X and Xj,' are each independently -OH, -SH or -NH2; R and R are each independently H or an alkyl (preferably -Me); R"' is H or an alkyl; and Xc is N or CH.
The compound of claim 132, wherein JCB is
Figure imgf000228_0002
Figure imgf000228_0003
134. The compound of any one of claims 130-133, one of LD', LD" and LD"' is represented by formula (A), and the others are each independently -H, an linear or branched alkyl having from 1 to 6 carbon atoms, halogen, -OH, (Ci-C6)alkoxy, or -N02.
135. The compound of claim 134, wherein one of LD', LD" and LD"' is represented by formula (A), and the others are -H.
136. The compound of claim 135, wherein LD' is represented by formula (A), and the others are -H.
137. The compound of any one of claims 130-136, wherein the double line =-= between N and C represents a single bond, X is -H or an amine protecting group; and Y is selected from -H, -OR, -OCOR', -SR, -NR'R," an optionally substituted 5- or 6- membered nitrogen-containing heterocycle, -SO3H, -S02H and -OSO3H.
138. The compound of claim 137, wherein Y is selected from -H, -SO3M, -OH, -OMe, - OEt or -NHOH, wherein M is -H, Na+ or K+.
139. The compound of claim 138, wherein Y is -H, -SO3M or -OH.
140. The compound of any one of claims 130-139, wherein X' is selected from the group consisting of -H, -OH, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms, and phenyl.
141. The compound of claim 140, wherein X' is -H, -OH, (Ci-C3)alkyl, halo(Ci-C3)alkyl, or phenyl.
142. The compound of claim 141, wherein X' is -H, -OH or -Me.
143. The compound of claim 142, wherein X' is -H.
144. The compound of any one of claims 130-143, wherein Y' is selected from the group consisting of -H, an oxo group, an optionally substituted linear, branched or cyclic alkyl, alkenyl or alkynyl having from 1 to 10 carbon atoms.
145. The compound of claim 144, wherein Y' is -H, an oxo group, (Ci-C3)alkyl or halo(Cr C3)alkyl.
146. The compound of claim 144, wherein Y' is -H or oxo.
147. The compound of claim 144, wherein Y' is -H.
148. The compound of any one of claims 130-147, wherein A and A' are the same or different, and are selected from -0-, -S-, -NR5-, and oxo -(C=0)-.
149. The compound of claim 148, wherein A and A' are the same or different, and are selected from -O- and -S-.
150. The compound of claim 149, wherein A and A' are -0-.
151. The compound of any one of claims 130-150, wherein R6 is -OMe.
152. The compound of any one of claims 130-151, wherein Ri, R2, R3, R4, Ri', R2', R3' and R4' are independently -H, halogen, -N02, -OH, (Ci-C3)alkyl, halo(Ci-C3)alkyl or (Ci-C3)alkoxy.
153. The compound of claim 152, wherein Rl5 R2, R3, R4, Ri', R2', R3' and R4' are all -H.
154. The compound of any one of claims 130-153, wherein R, R', R" and R5 are each independently -H or (Ci-C3)alkyl.
155. The compound of any one of claims 130-136, wherein:
the double line =-= between N and C represents a single bond or double bond, provided that when it is a double bond X is absent and Y is -H, and when it is a single bond, X is -H, Y is -OH or -S03M;
Ri, R2, R3, R4, Ri', R2\ R3' and R4' are all -H;
R6 is -OMe;
X' and Y' are both -H;
A and A' are -0-; and
M is H, Na+ or K+.
156. The compound of any one of claims 130-155, wherein Ra and R are both H.
157. The compound of any one of claims 130-156, wherein R5 and R9 are each
independently H or Me.
158. The compound of claim 157, wherein R5 and R9 are both H.
159. The compound of any one of claims 130-158, wherein P is a peptide containing 2 to 10 amino acid residues.
160. The compound of claim 159, wherein P is a peptide containing 2 to 5 amino acid residues
161. The compound of claim 160, wherein P is elected from Gly-Gly-Gly, Ala-Val, Val- Ala, Val-Cit, Val-Lys, Phe-Lys, Lys-Lys, Ala-Lys, Phe-Cit, Leu-Cit, Lle-Cit, Trp, Cit, Phe-Ala, Phe-N9-tosyl-Arg, Phe-N9-nitro-Arg, Phe-Phe-Lys, D-Phe-Phe-Lys, Gly-Phe-Lys, Leu-Ala-Leu, Ile-Ala-Leu, Val-Ala-Val, Ala-Leu-Ala-Leu (SEQ ID NO: 17), β-Ala-Leu- Ala-Leu (SEQ ID NO: 18) and Gly-Phe-Leu-Gly (SEQ ID NO: 19), Val-Arg, Arg-Val, Arg-Arg, Val-D-Cit, Val-D-Lys, Val-D-Arg, D- Val-Cit, D- Val-Lys, D- Val-Arg, D-Val-D-Cit, D- Val-D-Lys, D- Val-D-Arg, D-Arg-D-Arg, Ala- Ala, Ala-D-Ala, D-Ala-Ala, and D-Ala-D-Ala.
162. The compound of claim 160, wherein P is Gly-Gly-Gly, Ala-Val, Ala- Ala, Ala-D- Ala, D-Ala-Ala, and D-Ala-D-Ala. The compound of claim 130, wherein the compound is represented by the following structural formula:
Figure imgf000231_0001
Figure imgf000232_0001
or a pharmaceutically acceptable salt thereof, wherein Y is H or -SO3M and M is H+, Na+ or K+.
164. The method of claim 126, wherein the cancer is ovarian cancer.
165. The conjugate of any one of claims 1-6 and 13-80, wherein the cell -binding agent (CBA) is an antibody or antigen -binding portion thereof that specifically binds to FOLRl, CD37, EGFR, CD19, CD33, CD123 or Mucl antigens, wherein a Ser or Thr replaces one or more N-terminal amino acid residues of the antibody heavy chain (HC), light chain (LC) or antigen-binding portion thereof.
166. The conjugate of any one of claims 1-6 and 13-80, wherein the antibody comprises 6 CDRs or the heavy chain variable region (HCVR) or the light chain variable region (LCVR) sequences of an antibody selected from the group consisting of huMOV19, huCD37-3, huCD37-50, huEGFR-7R, huML66, huB4, huMy9-6, and huDS6.
167. The conjugate of claim 165, wherein the anti-folate receptor antibody that specifically binds to FOLRl comprises: a) a heavy chain CDR1 of SEQ ID NO:45; a heavy chain CDR2 of SEQ ID NO:46 and a heavy chain CDR3 of SEQ ID NO:47; and b) a light chain CDR1 of SEQ ID NO:48; a light chain CDR2 of SEQ ID NO:49; and a light chain CDR3 of SEQ ID NO:50.
168. The conjugate of claim 165, wherein the anti-folate receptor antibody that specifically binds to FOLR1 comprises: a) a heavy chain variable region (HCVR) having an amino acid sequence at least about 90%, 95%, 99% or 100% identical to SEQ ID NO:55; and b) a light chain variable region (LCVR) having an amino acid sequence at least about 90%, 95%, 99% or 100% identical to SEQ ID NO:56 or SEQ ID NO:57.
169. The conjugate of claim 167 or 168, wherein the anti-folate receptor antibody that specifically binds to FOLR1 is huMOV19 antibody.
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