WO1992001787A1 - Binding domains - Google Patents
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- WO1992001787A1 WO1992001787A1 PCT/GB1991/001253 GB9101253W WO9201787A1 WO 1992001787 A1 WO1992001787 A1 WO 1992001787A1 GB 9101253 W GB9101253 W GB 9101253W WO 9201787 A1 WO9201787 A1 WO 9201787A1
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- chain variable
- amino acid
- single chain
- variable domain
- substitution
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- C—CHEMISTRY; METALLURGY
- C07—ORGANIC CHEMISTRY
- C07K—PEPTIDES
- C07K16/00—Immunoglobulins [IGs], e.g. monoclonal or polyclonal antibodies
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- C—CHEMISTRY; METALLURGY
- C07—ORGANIC CHEMISTRY
- C07K—PEPTIDES
- C07K14/00—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof
- C07K14/435—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof from animals; from humans
- C07K14/705—Receptors; Cell surface antigens; Cell surface determinants
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- A—HUMAN NECESSITIES
- A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
- A61K—PREPARATIONS FOR MEDICAL, DENTAL OR TOILETRY PURPOSES
- A61K38/00—Medicinal preparations containing peptides
Definitions
- the present invention relates to molecules comprising binding domains and methods for their preparation and use.
- the present invention relates to molecules comprising domains which are synthetic analogues of a natural single variable domain of a member of an immunoglobulin family or superfamily.
- the present invention also relates to methods for designing said molecules comprising domains, the molecules so designed, and kits and methods for use of said molecules in therapy and diagnosis.
- Antibodies and other members of the immunoglobulin superfamily have the ability to recognise molecules eg. antigens, specifically and bind them with high affinity.
- the binding site for antigen is formed by the juxtaposition of variable (V) domains from both heavy (H) and light (L) chains. Within each of these chains are three stretches of amino acids, the complementarity determining regions (CDRs), which comprise the residues which interact with antigens. The three CDRs alternate with four framework regions (FR).
- V variable domains from both heavy (H) and light (L) chains. Within each of these chains are three stretches of amino acids, the complementarity determining regions (CDRs), which comprise the residues which interact with antigens. The three CDRs alternate with four framework regions (FR).
- Winter et al. demonstrated that a single V domain was able to bind antigen with high affinity and specificity [Ward et al. Nature 341, 544-546 (1989)]. It was proposed that these single domain antibodies (VH) would have advantages for
- VH domains have unique disadvantages that disappointingly limit their utility.
- the difficulties encountered reflect at least two properties of VH domains which may be related. They are expressed in low quantities when cloned in bacteria (ca. 200 ⁇ g/ml of culture supernatant compared to lOmg/ml for Fv fragments) and during purification of VH domains, substantial amounts of material are lost. Concentration of the VH single domain, for example using ultrafiltration and purification on chromatography columns, often leads to poor recoveries. This probably reflects non-specific binding to surfaces. This has been observed directly by Ward et al. (1989) supra., who isolated a high proportion of single-domain antibodies exhibiting significant (and non-specific) binding to plastic. In vivo, non-specific binding in tissues would lead to poor performance in applications such as tumour imaging or cancer therapy studies.
- the present invention seeks to ameliorate any of the above or other problems associated with single variable domain binding members, whilst retaining antigen binding for their full commercial exploitation.
- the present applicant has realised that the most likely cause of the unfavourable properties of single domain antibodies is the exposure to aqueous solvent, of the hydrophobic face of a single variable domain eg. the VH single domain.
- this face interacts with the adjacent hydrophobic face of the VL domain and is buried within the antibody molecule. Exposure of the face would lead to strong interactions with surfaces, for example chromatography matrices, from which material could not be recovered.
- the present applicant believes that exposure of the face to aqueous solvent may lead to decreased stability of the single variable domain eg. the VH single domain, leading to turn to unfolding and loss of binding activity during purification procedures.
- this hydrophobic face is a potential source of non-specific binding, which considerably limits the utility of these single variable domain molecules in vivo and in vitro.
- VH single domain is quite small, its activity depends on a complex tertiary structure comprising interactions between disparate parts of the molecule [Chothia, C. et al. J. Mol. Biol. 186, 651-663 (1985)].
- side-chains in the framework which have important interactions with those in the antigen combining site.
- tryptophan 47 framework
- the framework residues (for example, residues 37,39,45,47,91,93 and 103) at the interface of the anti-lysozyme antibody D 1.3 [Amit, A.G. et al, Science 233 747-753 (1986), Chothia, C. et al., Science 233, 755-758 (1986)] are highly conserved in antibodies of all species. They are invariant or, rarely, have substitutions which are usually conservative, i.e. replacement of the amino acid with one having similar chemical properties. For example, aliphatic hydrophobic residues are usually substituted by similar aliphatic residues.
- the CDR residues vary between antibodies and determine the specificity and affinity of binding to antigen. Since the applicant wishes to retain the capacity to bind a variety of antigens with high affinity and specificity, the ability to vary these CDR residues needs to be retained.
- the present invention therefore provides a molecule comprising a binding domain having a polypeptide sequence which is an analogue of part or all of a naturally occurring molecule comprising a binding domain having specificity for a particular binding member, in which analogue one or more amino acids are altered to reduce the hydrophobicity of said analogue as compared to the natural binding substance.
- the analogue may have substantially the same bindin characteristics as the natural binding substance eg. wit respect to specificity, affinity, or avidity. In som cases these characteristics may be improved.
- Th alteration may be any amino acid alteration which reduce hydrophobicity of the polypeptide sequence eg. amino aci substitution, deletion or addition.
- the molecule comprising a binding domain may comprise an antibody or other receptor molecule and fragments and derivatives of antibodies and receptor molecules.
- the molecule may comprise a single variable domain of the type that is present in an antibody molecule.
- the alteration may be in a complementarity determining region and/or in a framework region.
- the alteration is in a framework region.
- the complementarity determining regions may also be altered by way of amino acid substitution, deletion, addition or inversion to alter the specificity and or binding characteristics of the binding substance.
- the molecule comprising a binding domain may comprise any one or more of the alterations described in examples 2 to 11.
- the present invention provides a single chain variable domain which is a synthetic analogue of another single chain variable domain of a member of an immunoglobulin family or superfamily, and in which analogue, one or more interface amino acids residues of the domain is altered as compared to the said another domain, in which a said altered amino acid is substituted with a residue which occurs in an analogous position in a member of an immunoglobulin family or superfamily, so that the analogue is more hydrophilic than the said another domain.
- the altered amino acid residue may be in a framework region.
- the altered amino acid residue may be in a complementarity determining region.
- the synthetic analogue may have essentially the same binding activity as the said another domain.
- the sequence of a complementarity determining region may be additionally altered by way of amino acid substitution, deletion, addition, or inversion, to alter the specificity and/or binding characteristics of the analogue as compared to the said another domain.
- the single chain variable domain may be a synthetic analogue of a single variable immunoglobulin heavy chain domain.
- the amino acid alterations may comprise one or more of the following: i) substitution of valine 37 with glutamine or threonine; ii) substitution of glutamine 39 with glutamate; iii) substitution of leucine 45 with glutamine; iv) substitution of tryptophan 47 with aspartate or glycine; v) substitution of tyrosine 91 with threonine serine or methionine; vi) substitution of alanine 93 with serine o glutamate; vii) substitution of tryptophan 103 with glutamat or tyrosine or threonine; viii) substitution of valine 37, leucine 45, tryp tophan 47, alanine 93 and/or tryptophan 10 with any of asparagine
- the present invention also provides diagnostic kits which comprise a single chain variable domain as described above together with one or more ancillary reagents for carrying out the diagnostic test.
- the present invention also provides therapeutic composition which comprises at least a single chain variable domain as described above.
- the composition may also comprise one or more excipients.
- single chain variable domains eg. VH single chain domain frameworks, with improved properties as indicated above and which allow the generation of specificities for various binding partners by substitution of different CDRs into the new framework.
- the applicant also provides that the framework residues of molecules comprising single domains previously isolated are substituted to make them more polar.
- the modified molecule should retain the ability to bind the desired antigen. Preferably, the changes would not render the interface immunogenic when administered to humans.
- the present invention also provides a method for making a single chain variable domain which is a hydrophilic synthetic analogue of another single chain variable domain of a member of an immunoglobulin family or superfamily, which comprises:
- the method may comprise:
- more than one amino acid residue may be substituted.
- the substitute amino acids may be derived from naturally monomeric members of the immunoglobulin superfamily.
- the naturally monomeric member may be Thy-1.
- the synthetic analogue may have essentially the same binding activity as the said another domain.
- an amino acid site suitable for alteration may be identified by: i) examining the molecule for hydrophobic amino acids expected to be on the surface of the binding substance, ii) more specifically examining the amino acid residues related to those expected to be buried at the interface of the heavy and light chain domains of an immunoglobulin, iii) examining those residues identified in (ii) that would be exposed to the solvent when the single domain is used separately.
- An appropriate alteration to make may be identified with reference to the homologous amino acid sequences of members of a family of related substances. For example, the amino acid sequence of a molecule at the site for alteration identified as described above, may be altered to make it homologous at that site in one or more members of the family group.
- the family of related substances may comprise a family of immunoglobulins, fragments and derivatives thereof.
- the family of related substances may comprise a family of proteins containing domains structurally related to the immunoglobulins ie. an immunoglobulin superfamily.
- the nucleotide sequence may be altered by site directed mutagenesis using oligonucleotides designed to introduce the required alterations. Alternatively, the alteration may be achieved by use of the technique known as polymerase chain reaction.
- the present invention also embraces kits having molecules comprising binding domains as herein provided.
- the kits may be diagnostic, purification or catalysis kits.
- the present invention further embraces pharmaceutical products which contain molecules comprising binding domains according to the present invention.
- S UBSTIT or a cavity which specifically binds to, and is therefor defined as complementary with a particular spatial an polar organisation of another molecule.
- a domain i folded within itself and independently of other parts o the same protein and independently of a complementar binding member.
- proteins consisting of two pairs of heavy polypeptid chains and two pairs of light polypeptide chain, al linked together by disulphide bonds. They have a bindin domain for another molecule such that a give immunoglobulin binds specifically to that another molecule.
- the protein can be natural or partly or wholly synthetically produced. The term also covers any protein having a binding domain which is homologous to an immunoglobulin binding domain.
- immunoglobulin whether natural or partly or wholly synthetically produced.
- the term also covers any protein having a binding domain which is homologous to an immunoglobulin binding domain.
- proteins can be derived from natural sources, or partly or wholly synthetically produced.
- Example antibodies are the immunoglobulin isotypes and the Fab, F(ab ** -)2 s Fv / Fv , dAb, Fd fragments.
- Immunoglobulin Superfamily This describes a family of polypeptides, the members of which have at least one domain with a structure related to that of the variable or constant domain of immunoglobulin molecules. The domain contains two ⁇ - sheets and usually a conserved disulphide bond (see A.F. Williams and A.N. Barclay 1988 Ann. Rev Immunol. 6_ 381- 405.
- Example members of an immunoglobulin superfamily are CD4, platelet derived growth factor receptor (PDGFR), intercellular adhesion molecule. (ICAM). Except where the context otherwise dictates, reference to immunoglobulins and immunoglobulin analogs in this application includes members of the immunoglobulin superfamily and analogs thereof. Interface This describes the region on a given heavy or light chain of an immunoglobulin which associates with the complementary heavy or light chain. Framework
- Each chain of an immunoglobulin has a constant (C) and a variable (V) region.
- Each V region is made up from three complementarity determining regions (CDR) separated by four framework regions (FR).
- CDR complementarity determining regions
- FR framework regions
- the CDRs are variable stretches of amino acid sequences and provide the function of binding to another molecule. It is t possibility of variability which provides immunoglobuli with various binding specificities.
- the FRs ar substantially constant stretches of amino acid sequence which interpose the CDRs.
- Figure 1 shows the nucleotide and amino acid sequence o the VH domain of the anti-lysozyme antibody D1.3 clone in pUC119;
- Figure 2 shows mutant oligonucleotides for substitutio of residues found in naturally occurring immunoglobuli heavy chains;
- Figure 3 shows mutant oligonucleotides for substitutio with homologous residues from Thy-1;
- Figure 4 shows mutant sequences obtained by substitutions of Thy-1 residues into VHD1.3;
- Figure 5 shows oligonucleotides for the random substitution of asparagine, serine or threonine into VHD1.3
- Figure 6 shows a graph illustrating lysozyme binding activity of TGI (control), VHD1.3, VHTHY-1 and VHTHY-2
- Figure 7 shows a graph illustrating lysozyme binding activity of pUC119 (control), VHD1.3, VHMutTrp, VHMutLeu 15 and VHThy-3;
- Figure 8 shows a graph illustrating lysozyme binding activity of pUC119 (control), VHD1.3, VHThy-1, Thy-2, VHThy-1, Thy-3 and VHMutWD;
- Figure 9 shows the nucleotide sequence of the vector fdPs/Bs around the cloning site and indicates the Pstl and BstEll restriction sites;
- Figure 10 shows a graph illustrating lysozyme binding activity of vector fdPs/Bs (control), fdVHThylThy2, fdVHD1.3 and phage antibody D1.3.
- This invention enables the generation of antibodies and single variable domains eg. VH domains with improved properties for in vivo and in vitro use.
- proteins which have domains containing the immunoglobulin fold (a tertiary structure characteristic of antibody domains that has been found in other proteins), but which do not associate with another domain.
- Examples of molecules which contain a single domain homologous to immunoglobulin variable domains include: Thyl, Po myelin, CD7, CD28 and CTLA-4 [Williams, A.F. and Barclay, A.N. Ann. Rev. Immunol. 6_, 381-405 (1988)].
- CD4 and MRC OX-2 each contain N- terminal domains homologous to variable domains of antibody molecules ('V'-type domains, one in MRC 0X2, two in CD4), and a C-terminal domain homologous to constant domains of antibody molecules ('C'-type domain, one each in MRC 0X2 and CD4) [Williams, A.F. and Barclay, A.N. Ann. Rev. Immunol. j>, 381-405 (1988)].
- Oligonucleotides for mutagenesis are synthesized with a mixture of bases in some positions to give ambiguities for amino acid insertion at certain triplets.
- the present applicant has designed a strategy which will allow the random insertion of the highly polar residues asparagine, serine or threonine by the use of codons with ambiguities at the second position. These residues could be inserted for instance at the interface positions 37,45,47,93 and 103 of the VH domain.
- the 243 possible frameworks resulting from this mutagenesis can then be screened to identify which of the semi-random combinations have the desired properties.
- the present invention allows the binding affinity and specificity of identified antibodies to be incorporated into single domain molecules with improved properties for in vivo and in vitro applications.
- VHD1.3 The frameworks generated using the model system using the VH domain of antibody D1.3 (VHD1.3) can be used as frameworks for antibodies of any specificity by replacement of part(s), or all, of its CDRs with those from an antibody molecule of desired affinity and specificity.
- an oligonucleotide or series of oligonucleotides is synthesized which encodes these CDRs and the framework regions containing the nucleotide substitutions necessary to make the antibody/antibody domain more polar.
- This oligonucleotide can then be amplified using PCR, cloned into a suitable vector such as pUC119, and the product expressed in bacteria.
- the relevant changes at the interface can be introduced into an existing single domain antibody of desired specificity to improve the properties of that antibody. This can be achieved by a variety of methods, for example by site-directed mutagenesis, or PCR (for example using the method of Hemsley, A. et al. [Nuc. Acids Res. 1 . 6545-6551 (1989)].
- the improved single domain antibodies show reduced non-specific.
- the properties of the single chain variable domains provided hereby enable selection of single domain antibodies of the desired specificity and affinity, for example, using single domains cloned into fd phage.
- SU BSTITUTE SHEET in this invention could be cloned into fd phage and th existing CDRs replaced by repertoires of CDRs to create new population of single domain antibody molecules tha can be screened for the desired binding specificities.
- single domain antibodies ma be isolated as described by Ward et al (1989, supra), bu may require improvements in their affinity an specificity.
- the CDRs from these antibodies can be cloned into the polar frameworks described in this invention and inserted into single domains cloned into fd phage. Random mutagenesis of these CDRs can then be performed and selection of antibodies of the desired affinity and specificity performed using affinity methods.
- Examples 15 and 16 herein show that a derivative of VHD1.3 with a more polar framework can be displayed on phage as a fusion with gene III protein (McCafferty J. et al. 1990 Nature 348 p552-554) with retention of binding activity. Display on phage would enable the generation of combinations of substitutions at framework residues by semi-random mutagenesis procedures (an example of which is given in example 11) and the subsequent selection of those with favourable binding properties.
- the improved single domain antibodies of the present invention constitute superior versions of conventional single domain antibodies, they can be used in many of the ways as are immunoglobulins (Ig) and their superfamily of molecules or fragments.
- Ig molecules have been used in research, therapy (e.g. cancer therapy, modulation of immune status and therapy of diseases caused by pathogens), diagnosis (for example, estimation of hormonal status), in modulation of activities of hormones or growth factors, in detection, in biosensors, in catalysis, in purification of other molecules and in screening regimes for therapeutic compounds in the pharmaceutical industries.
- the lower non-specific binding of the improved single domain antibodies should prove especially useful for the above applications.
- the increased hydrophilicity may be of particular importance for their use as binding molecules in affinity chromatography, especially weak affinity chromatography (Zopf, D. and Ohlson, S., Nature 346 87-89, 1990).
- Anti-idiotypic improved single domain antibodies can also be made.
- Anti-idiotypic specificities [Methods Enzymol. 178. J.J. Langone ed. Academic Press (1989)] are made in a two-stage process. Firstly, antibody A directed against a particular antigen or epitope is itself used to raise other antibodies. A proportion of the anti-A antibodies, antibodies B, will be directed against the antigen combining sites of antibody A, such that the antigen combining sites of B are complementary to that of A. In effect, the antigen combining site of antibody B, the anti-idiotype, mimics in structure the original antigen or epitope recognised by antibody A.
- the original antigen can be a protein or any other compound, for example a carbohydrate or a steroid, and the antibody used at any stage in the procedure could be an improved single domain antibody.
- the final anti- idiotypic antibody can be an improved single domain antibody produced as described herein, or a molecule of the immunoglobulin superfamily from which the anti- idiotypic determinant(s) are transferred into an improved single domain antibody framework.
- anti-idiotypic molecules are advantageous in a variety of applications [Methods Enzymol. 178. J.J. Langone ed. Academic Press (1989)]. These include vaccines for treating cancers and diseases caused by bacteria, viruses and parasites. They may be used for blocking cellular receptors for the aforementioned pathogens as well as blocking cellular receptors for hormones. They may also be advantageous in diagnostic procedures, for example in place of antigen or peptide in ELISA. Anti-idiotypic specificities are known to be useful in the pharmaceutical industries [Methods Enzymol. 178. J.J. Langone ed. Academic Press (1989)].
- the present invention relates to improved single domain antibodies and receptors derived from molecules of the immunoglobulin (Ig) superfamily, methods for selecting and effecting said improvements, and methods for and kits use of said antibodies or receptors in research, therapy, diagnosis, purifications, catalysis and discovery of novel therapeutics.
- EXAMPLE 1 PREPARATION OF VH D1.3 WITH A MORE POLAR FRAMEWORK BY SUBSTITUTION OF VALINE 37 WITH GLUTAMINE
- Figure 1 shows the nucleotide and amino acid sequence of the pUC119 VHD1.3 clone used for mutagenesis studies (Ward et al, 1989, supra).
- the amino acid residues in the VH domain that interact with the VL have been identified as 37,39,45,47,91,93 and 103 (Amit et al, (1986) supra, Chothia, C. et al (1986) supra).
- Amino acids occurring naturally in VH domains were surveyed using a compilation of immunoglobulin sequences [for example, Rabat, E.A. et al. in "Sequences of Proteins of Immunological Interest" U.S. Department of Health and Human Services (1987)].
- Residue 37 is valine in 385 out of 434 sequences surveyed. In 48 other sequences, an aliphatic amino acid was substituted. In the single remaining example, a case of human heavy chain disease, a significantly more polar residue, glutamine, was substituted. An oligonucleotide was designed for incorporation of this change in VHD1.3 (VHMUTVAL, shown in figure 2). This mutation and the other mutations described in the examples below can be assembled in different combinations to make further novel derivatives.
- VHMUTVAL VHD1.3
- This mutation and the other mutations described in the examples below can be assembled in different combinations to make further novel derivatives.
- In Vitro Mutagenesis (1) The oligonucleotides detailed in fig. 2 were synthesised on an Applied Biosystems 391 DNA synthesiser and purified on Urea-acrylamide gels using standard techniques [Sambrook, J. et al. in "Molecular Cloning: a laboratory manual (second edition)". Cold Spring Harbor Laboratory Press, 11.23]
- VHMUTGLN (fig. 2) was designed for the introduction of a glutamate residue at position 39. This substitution is found in 1 of 420 heavy chains surveyed. Glutamate is considered to be marginally more polar than glutamine [Rose et al, Science 229 834-838, 1985].
- EXAMPLE 3 PREPARATION OF VH D1.3 WITH A MORE POLAR FRAMEWORR BY SUBSTITUTION OF LEUCINE 45 WITH GLUTAMINE
- an oligonucleotide VHMUTLEU (figure 2) was designed which introduces a substitution of leucine with glutamine at residue 45 (fig. 2). This modification is found in 2 of 402 sequences surveyed (396 have leucine at this position).
- One of the antibodies containing glutamine at this position is a mouse antibody specific for anti-Bl, 6D-galactan.
- EXAMPLE 4 PREPARATION OF VH D1.3 WITH A MORE POLAR FRAMEWORK BY SUBSTITUTION OF TRYPTOPHAN 47 WITH ASPARTATE
- an oligonucleotide VHMUTWD (figure 2) was designed for the introduction of aspartate at position 47. This substitution is found in one of 392 heavy chains surveyed.
- an oligonucleotide VHMUTALA (figure 2) was designed for substitution of alanine 93 with serine. This substitution is found in 4 of 410 heavy chains surveyed. One of these is in a mouse anti-B2,l fructosan.
- VHMUTTRP and VHMUTWY were designed for the introduction of glutamate and tyrosine respectively at position 103. These substitutions are found once each in 308 heavy chains surveyed. Glutamate is much more polar than tryptophan. Tyrosine, although more polar than tryptophan is a more conservative substitution.
- EXAMPLE 8 PREPARATION OF VH D1.3 WITH A MORE POLAR FRAMEWORK BY SUBSTITUTION OF RESIDUES IN POSITIONS 37,39 AND 47 WITH HOMOLOGOUS RESIDUES FROM THE IMMUNOGLOBULIN FAMILY PROTEIN THY-1
- Thy-1 is a single domain protein of the immunoglobulin superfamily. Alignment of the residues of Thy-1 with those of immunoglobulin heavy chains has been performed by Williams (A.F. Williams and J. Gagnon Science 216 696- 703 1982; A.F. Williams and A.N. Barclay Ann. Rev. Immunol. 6 381-405, 1988). Although residues 37,39,91 and 93 of the VH domain interface were aligned with the same residues of Thy-1 in both publications, the residues at positions 45 and 47 were aligned with different residues reflecting the lower degree of homology of adjacent amino acids from these positions.
- VHTHY-1 (figure 3) was designed to incorporate the most polar residues at positions 37,39 and 47 found at homologous Thy-1 positions using the alignment published by Williams & Gagnon (1982), supra). Mutagenesis was performed as in example 1. The amino acid substitutions generated are shown in figure 4.
- EXAMPLE 9 PREPARATION OF VH D1.3 WITH A MORE POLAR FRAMEWORK BY SUBSTITUTION OF RESIDUES IN POSITIONS 91,93 AND 103 WITH HOMOLOGOUS RESIDUES FROM THE IMMUNOGLOBULIN FAMILY PROTEIN THY-1
- an oligonucleotide VHTHY-2 (figure 3) was designed to incorporate the most polar substitutions of VH residues 91,93 and 103 at homologous Thy-1 residues [Rabat, E.A. et al. in "Sequences of Proteins of Immunological Interest” U.S. Department of Health and Human Services (1987).
- Another oligonucleotide VHTHY-3 (figure 3) was designed to incorporate the most polar substitutions of VH residues 91,93 and 103 at homologous Thy-1 residues [Rabat, E.A. et al. in "Sequences of Proteins of Immunological Interest" U.S. Department of Health and Human Services (1987).
- Another oligonucleotide VHTHY-3 (figure 3) was designed to incorporate the most polar substitutions of VH residues 91,93 and 103 at homologous Thy-1 residues [Rabat, E.A. et al. in "Seque
- EXAMPLE 10 PREPARATION OF VH D1.3 WITH A MORE POLAR FRAMEWORR BY SUBSTITUTION OF RESIDUES IN POSITIONS 37,39,47,91,93 AND 103 WITH HOMOLOGOUS RESIDUES FROM THE IMMUNOGLOBULIN FAMILY PROTEIN THY-1
- the amino acid changes detailed in examples 8 and 9 were combined by performing a mutagenesis experiment as in example 1 using the DNA sequence of mutant protein VHTHY-1 as template and mutant oligonucleotides VHTHY-2 and VHTHY-3 (figure 3) to incorporate site directed changes.
- EXAMPLE 11 PREPARATION OF VH D1.3 WITH A MORE POLAR FRAMEWORR BY SUBSTITUTION OF RESIDUES IN POSITIONS 37,45,47,93 AND 103 WITH ASPARAGINE, THREONINE OR SERINE Oligonucleotides are prepared containing the triplet GXT at each of the positions 37,39,45,47,91,93 and 103 (where X is a random mixture of the bases C,G and T; figure 5). Use of these as mutagenesis primers as in example 1 would generate the insertion of Ser, Thr and Asn respectively depending on which base was incorporated. Derivatives generated are then screened for antigen binding and improved properties.
- EXAMPLE 12 ASSESSMENT OF ANTIGEN BINDING STATUS OF VHTHY-1 AND VHTHY-2 MUTANT SINGLE DOMAIN ANTIBODIES VH D1.3 interface mutants VHThy-1 and VHThy-2 constructed as described in example 8 and 9 were assessed for lysozyme binding activity. Antigen binding status of mutant single domain antibodies was determined by ELISA (Enzyme Linked Immuno adsorbent Assay) according to techniques well known in the art.
- the reaction was stopped by adding 0.05% sodium azide in 50mM citric acid pH4.3.
- ELISA plates were read at 405nm in a Titertek Multiskan M.C. to give an optical density reading for each well.
- the optical density reading is in proportion to the amount and affinity of the primary antibody used in the ELISA, in this case a single domain antibody.
- the result shown in figure 6 demonstrates that these mutants had retained their ability to bind lysozyme.
- the VHThy-1 mutant appears to have higher affinity/quantity of lysozyme binding activity than the parent VH D1.3, whereas mutant VHThy-2 has slightly less.
- VHD1.3 interface mutants VHMutLeu, VHMutTrp and VHThy-3 constructed as described in examples 3,7 and 9 respectively were assessed for lysozyme binding activity.
- Antigen binding status of mutant single binding domains was determined by ELISA as described in example 12. The result shown in figure 7 demonstrates that these mutants had retained their ability to bind lysozyme.
- EXAMPLE 14 ASSESSMENT OF ANTIGEN BINDING STATUS OF VHTHY- 1, THY-2; VHTHY-1, THY-3 AND VHMUTWD MUTANT SINGLE DOMAIN ANTIBODIES VHD1.3 interface mutants VHThy-1, Thy-2; VHThy-1, Thy-3 and VHMutWD constructed as described in examples 10 and 4 respectively were assessed for lysozyme binding activity. Antigen binding status of mutant single binding domains was determined by ELISA as described in example 12. The result shown in figure 8 demonstrates that these mutants had retained their ability to bind lysozyme.
- the vector fdPs/Bs is similar to fdCATl (McCafferty, J. et al, 1990 Nature 348 p552-554) except that it contains Pstl and BstBll restriction sites for cloning ( Figure 9).
- VHThy-1, Thy-2 DNA was prepared using standard procedures (Sambrook et al, 1989 supra).
- the VHThy-1, Thy-2 encoding sequences were amplified by PCR using the primers RVHTHYFOR and KSJ6.
- PCR was performed using 20mM Tris (pH7.3 at 70 ⁇ C), 50mM KC1, 4mM MgCl 2 , 0.01% gelatin with lO ⁇ M each oligonucleotide, ImM each dNTP, 5 units Taq polymerase and approximately 50ng pUC119VHThy-l, Thy-2 DNA in a total volume of lOO ⁇ l.
- the product of the PCR reaction was ethanol precipitated and resuspended in 20 ⁇ l lOmM Tris, pH8.0, 0.1 mM EDTA, A lO ⁇ l portion was digested using Pstl (20 units) and BstEll (20 units) in NEB buffer 2 in a total volume of 50 ⁇ l at 37°C for 2h (restriction enzymes obtained from New England Biolabs, CP Labs, Bishops Stortford). Following digestion, the reaction mixture was phenol extracted and ethanol precipitated. The product was electrophoresed on a 1% agarose Tris- acetate-EDTA gel and the band of approximately 350bp excised and the DNA purified using Geneclean (Bio 101, La Jolla, California).
- Vector DNA (fdPs/Bs RF form) was prepared using standard procedures (Sambrook et al, 1989 supra). This DNA (1.2 ⁇ g) was digested with Pstl and BstEll (50 units) in lOO ⁇ l NEB buffer 3 at 37°C for 90 min. The products were phenol extracted and ethanol precipitated and the resuspended DNA was phosphatased as described by Sambrook et al, (1989 supra). A preparative 0.7% Tris-borate-EDTA agarose gel was performed and th band of approximately 9kb excised and the DNA purifie using Geneclean and resuspended in 10 ⁇ l lOmM Tris, pH8.0, O.lmM EDTA.
- Ligation was performed using 5 ⁇ l eac of the digested vector and insert DNA using 200 units o T4 DNA ligase in lO ⁇ l NEB ligase buffer.
- the ligatio mixture (8 ⁇ l) was transformed into competent E.col MC1061 cells prepared according to Sambrook et al, 1989 supra) and the mixture plated on 2YT agar containing 20 ⁇ g/ml tetracycline. Colonies were picked, single stranded DNA was prepared (Sambrook et al, 1989 supra) and the DNA was sequenced using a Sequenase 2.0 kit (United Sates Biochemical, Cleveland, U.S.A.). The sequence of the insert corresponded to VHThy-1, Thy-2. The derivative has been named fdVHThy-1, Thy-2.
- VHD1.3 A clone of VHD1.3 in fdPs/Bs was prepared starting from pUCll9VHD1.3.
- the insert encoding VHD1.3 was prepared by digestion of pSWl-VHD1.3-TAGl (Ward E.S. et al., 1989 supra) with Pstl and BstEll. Other procedures were as above. This derivative has been named fdVHD1.3.
- EXAMPLE 16 ELISA ASSAY OF VHTHY-1, THY-2 DOMAIN DISPLAYED ON PHAGE
- the fdVHThy-1, Thy-2 phage constructed in example 15 was shown to be functional in the binding of the antigen, lysozyme, using an ELISA assay.
- Viral particles were prepared by growing E.coli MC1061 cells containing fdVHThy-1, Thy-2; fdVHD1.3; phage antibody D1.3 (displaying scFvD1.3; McCafferty, J. et al, 1990 Nature 348 p552-554) or fdPs/Bs in 50ml 2YT medium containing 15 ⁇ g/ml tetracycline for 16 to 24h. The culture supernatant was collected by centrifugation for 10 min at lOOOOrpm in an 8 x 50ml rotor. Phage particles were precipitated by adding 1/5 volume 20% polyethylene glycol (PEG)/2.5M NaCl and leaving at 4 ⁇ C for lh. Phage particles were pelleted by centrifugation for 15 min as described above and the pellets resuspended in sterile lOmM Tris, pH8.0 ImM EDTA containing 1% gelatin to 1/40 the of the original volume.
- PEG polyethylene
- ELISA plates were coated with lysozyme and blocked with PBS containing skimmed milk powder as described in example 12.
- Sheep anti-M13 serum 200 ⁇ l; 1 in 1000
- PBS containing 2% skimmed milk powder was added to each well and incubated for lh.
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Abstract
Description
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Priority Applications (1)
Application Number | Priority Date | Filing Date | Title |
---|---|---|---|
JP3512577A JPH06502526A (en) | 1990-07-25 | 1991-07-25 | binding domain |
Applications Claiming Priority (2)
Application Number | Priority Date | Filing Date | Title |
---|---|---|---|
GB909016299A GB9016299D0 (en) | 1990-07-25 | 1990-07-25 | Binding substances |
GB9016299.1 | 1990-07-25 |
Publications (1)
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WO1992001787A1 true WO1992001787A1 (en) | 1992-02-06 |
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Family Applications (1)
Application Number | Title | Priority Date | Filing Date |
---|---|---|---|
PCT/GB1991/001253 WO1992001787A1 (en) | 1990-07-25 | 1991-07-25 | Binding domains |
Country Status (6)
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---|---|
EP (1) | EP0540586A1 (en) |
JP (1) | JPH06502526A (en) |
AU (1) | AU8238291A (en) |
CA (1) | CA2087095A1 (en) |
GB (1) | GB9016299D0 (en) |
WO (1) | WO1992001787A1 (en) |
Cited By (23)
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WO1993022332A2 (en) * | 1992-04-24 | 1993-11-11 | Board Of Regents, The University Of Texas System | Recombinant production of immunoglobulin-like domains in prokaryotic cells |
WO1993025686A1 (en) * | 1992-06-05 | 1993-12-23 | Baxter Diagnostics Inc. | Rabbit single domain antibody and use thereof |
WO1996004557A2 (en) * | 1994-08-03 | 1996-02-15 | Dgi Technologies, Inc. | Target specific screens and their use for discovering small organic molecular pharmacophores |
EP0672068A4 (en) * | 1992-09-25 | 1997-02-26 | Commw Scient Ind Res Org | Target binding polypeptide. |
WO1998002462A1 (en) * | 1996-07-16 | 1998-01-22 | Morphosys Gesellschaft Für Proteinoptimierung Mbh | Immunoglobulin superfamily domains and fragments with increased solubility |
US5759808A (en) * | 1992-08-21 | 1998-06-02 | Vrije Universiteit Brussel | Immunoglobulins devoid of light chains |
US5922537A (en) * | 1996-11-08 | 1999-07-13 | N.o slashed.AB Immunoassay, Inc. | Nanoparticles biosensor |
US6005079A (en) * | 1992-08-21 | 1999-12-21 | Vrije Universiteit Brussels | Immunoglobulins devoid of light chains |
EP1058728A1 (en) * | 1998-03-06 | 2000-12-13 | Diatech Pty. Ltd. | V-like domain binding molecules |
US6399368B1 (en) | 1992-01-17 | 2002-06-04 | Board Of Regents, The University Of Texas System | Secretion of T cell receptor fragments from recombinant Escherichia coli cells |
WO2003002609A3 (en) * | 2001-06-28 | 2003-08-21 | Domantis Ltd | Dual-specific ligand and its use |
WO2003035694A3 (en) * | 2001-10-24 | 2003-10-02 | Vlaams Interuniv Inst Biotech | Functional heavy chain antibodies, fragments thereof, library thereof and methods of production thereof |
US6765087B1 (en) | 1992-08-21 | 2004-07-20 | Vrije Universiteit Brussel | Immunoglobulins devoid of light chains |
EP2135879A3 (en) * | 2002-06-28 | 2010-06-23 | Domantis Limited | Ligand |
EP2364999A3 (en) * | 2001-06-28 | 2012-01-04 | Domantis Limited | Dual-specific ligand and its use |
US8188223B2 (en) | 2005-05-18 | 2012-05-29 | Ablynx N.V. | Serum albumin binding proteins |
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US9320792B2 (en) | 2002-11-08 | 2016-04-26 | Ablynx N.V. | Pulmonary administration of immunoglobulin single variable domains and constructs thereof |
US9371381B2 (en) | 2002-11-08 | 2016-06-21 | Ablynx, N.V. | Single domain antibodies directed against tumor necrosis factor-alpha and uses therefor |
US9393304B2 (en) | 2008-10-29 | 2016-07-19 | Ablynx N.V. | Formulations of single domain antigen binding molecules |
US10118962B2 (en) | 2008-10-29 | 2018-11-06 | Ablynx N.V. | Methods for purification of single domain antigen binding molecules |
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US11644471B2 (en) | 2010-09-30 | 2023-05-09 | Ablynx N.V. | Techniques for predicting, detecting and reducing aspecific protein interference in assays involving immunoglobulin single variable domains |
CN108663504B (en) | 2011-06-23 | 2021-06-22 | 埃博灵克斯股份有限公司 | Techniques for predicting, detecting, and reducing non-specific protein interference in assays involving immunoglobulin single variable domains |
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WO1988009344A1 (en) * | 1987-05-21 | 1988-12-01 | Creative Biomolecules, Inc. | Targeted multifunctional proteins |
EP0368684B1 (en) * | 1988-11-11 | 1994-03-09 | Medical Research Council | Cloning immunoglobulin variable domain sequences. |
-
1990
- 1990-07-25 GB GB909016299A patent/GB9016299D0/en active Pending
-
1991
- 1991-07-25 AU AU82382/91A patent/AU8238291A/en not_active Abandoned
- 1991-07-25 CA CA 2087095 patent/CA2087095A1/en not_active Abandoned
- 1991-07-25 WO PCT/GB1991/001253 patent/WO1992001787A1/en not_active Application Discontinuation
- 1991-07-25 JP JP3512577A patent/JPH06502526A/en active Pending
- 1991-07-25 EP EP19910913263 patent/EP0540586A1/en not_active Withdrawn
Patent Citations (2)
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WO1988009344A1 (en) * | 1987-05-21 | 1988-12-01 | Creative Biomolecules, Inc. | Targeted multifunctional proteins |
EP0368684B1 (en) * | 1988-11-11 | 1994-03-09 | Medical Research Council | Cloning immunoglobulin variable domain sequences. |
Non-Patent Citations (4)
Title |
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JOURNAL OF MOLECULAR BIOLOGY, Vol. 204, No. 1, 5 November 1988, ACADEMIC PRESS, H.B. JOVANICH, Publ., JANIN J. et al., "Surface, Subunit Interfaces and Interior of Oligomeric Proteins", pages 155-164. * |
NATURE, Vol. 341, 12 October 1989, London, GB., WARD E.S. et al., "Binding Activities of a Repertoire of Single Immunoglobulin Variable Domains Secreted from Escherichia Coli", pages 544-546. * |
PROC. NATL. ACAD. SCI. U.S.A., Vol. 82, July 1985, Washington, US., NOVOTNY J. et al., "Structural Invariants of Antigen Binding: Comparison of Immunoglobulin VL-VH and VL-VL Domain Dimers", pages 4592-4596. * |
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Also Published As
Publication number | Publication date |
---|---|
JPH06502526A (en) | 1994-03-24 |
GB9016299D0 (en) | 1990-09-12 |
EP0540586A1 (en) | 1993-05-12 |
AU8238291A (en) | 1992-02-18 |
CA2087095A1 (en) | 1992-01-26 |
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