EP1812032A2 - Tissue factor composition and methods - Google Patents

Tissue factor composition and methods

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Publication number
EP1812032A2
EP1812032A2 EP05825139A EP05825139A EP1812032A2 EP 1812032 A2 EP1812032 A2 EP 1812032A2 EP 05825139 A EP05825139 A EP 05825139A EP 05825139 A EP05825139 A EP 05825139A EP 1812032 A2 EP1812032 A2 EP 1812032A2
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European Patent Office
Prior art keywords
seq
amino acids
phospholipid
nanoscale
particles
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EP05825139A
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German (de)
French (fr)
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EP1812032A4 (en
Inventor
James H. Morrissey
Vincent S. Pureza
Stephen G. Sligar
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University of Illinois at Urbana Champaign
University of Illinois System
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University of Illinois at Urbana Champaign
University of Illinois System
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Publication of EP1812032A2 publication Critical patent/EP1812032A2/en
Publication of EP1812032A4 publication Critical patent/EP1812032A4/en
Withdrawn legal-status Critical Current

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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
    • C07K14/745—Blood coagulation or fibrinolysis factors
    • A—HUMAN NECESSITIES
    • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61K—PREPARATIONS FOR MEDICAL, DENTAL OR TOILETRY PURPOSES
    • A61K38/00—Medicinal preparations containing peptides
    • A61K38/16—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof
    • A61K38/17—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof from animals; from humans
    • A61K38/36—Blood coagulation or fibrinolysis factors
    • A61K38/363—Fibrinogen
    • A—HUMAN NECESSITIES
    • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61K—PREPARATIONS FOR MEDICAL, DENTAL OR TOILETRY PURPOSES
    • A61K9/00—Medicinal preparations characterised by special physical form
    • A61K9/10—Dispersions; Emulsions
    • A61K9/127—Synthetic bilayered vehicles, e.g. liposomes or liposomes with cholesterol as the only non-phosphatidyl surfactant
    • A—HUMAN NECESSITIES
    • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61K—PREPARATIONS FOR MEDICAL, DENTAL OR TOILETRY PURPOSES
    • A61K9/00—Medicinal preparations characterised by special physical form
    • A61K9/48—Preparations in capsules, e.g. of gelatin, of chocolate
    • A61K9/50—Microcapsules having a gas, liquid or semi-solid filling; Solid microparticles or pellets surrounded by a distinct coating layer, e.g. coated microspheres, coated drug crystals
    • A61K9/51—Nanocapsules; Nanoparticles
    • A61K9/5107—Excipients; Inactive ingredients
    • A61K9/5123—Organic compounds, e.g. fats, sugars
    • A—HUMAN NECESSITIES
    • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61K—PREPARATIONS FOR MEDICAL, DENTAL OR TOILETRY PURPOSES
    • A61K9/00—Medicinal preparations characterised by special physical form
    • A61K9/48—Preparations in capsules, e.g. of gelatin, of chocolate
    • A61K9/50—Microcapsules having a gas, liquid or semi-solid filling; Solid microparticles or pellets surrounded by a distinct coating layer, e.g. coated microspheres, coated drug crystals
    • A61K9/51—Nanocapsules; Nanoparticles
    • A61K9/5107—Excipients; Inactive ingredients
    • A61K9/513—Organic macromolecular compounds; Dendrimers
    • A61K9/5169—Proteins, e.g. albumin, gelatin

Definitions

  • the field of this invention is the area of therapeutic nanoscale particulate compositions, in particular to formulations of improved solubility and stability for the delivery of tissue factor. These formulations can be used to kill tumors, to stop bleeding, as topical hemostatic agents and as reagents in prothrombin time assays.
  • Tissue factor is the integral membrane protein that triggers blood coagulation.
  • TF is composed of two fibronectin type 3 domains, a single membrane-spanning domain, and a short cytoplasmic domain (Fig. 1A).
  • TF is typically expressed on the cell surface.
  • a type I integral membrane protein, TF has its N-terminus located outside the cell and its C-terminus is in the cytoplasm.
  • TF is abundant in adventitial cells, found exterior to the smooth muscle of blood vessels. This layer can be considered a hemostatic envelope (Drake et al. 1989. Amer. J. Pathol. 134:1087-1097). Where there is damage to a blood vessel, TF participates in the clotting cascade to form a "patch" to stop further blood loss from the vasculature. Where blood vessels contain plaque and there is a rupture of the plaque, TF participates in the formation of a hemostatic "patch" at the point of rupture. This serves as a focus for clotting, leading to further occlusion of the blood vessel at that location.
  • TF functions to initiate blood clotting by selectively binding one of the soluble plasma proteins (factor VII or the activated form, factor Vila) with high affinity. This results in the formation of TF:Vlla complexes on the cell surface.
  • Factor Vila the first enzyme in the blood clotting cascade, is a serine protease that circulates as a soluble protein in the plasma.
  • Factor Vila is an extremely weak enzyme (low activity) unless it is bound to its protein cofactor (TF).
  • Factor Vila is allosterically activated when it binds TF, creating an extremely potent, two subunit enzyme (TF:Vlla).
  • the TF:Vlla complex then triggers blood clotting by proteolytically activating two plasma serine protease zymogens (factors IX and X), which then go on to propagate the clotting cascade.
  • the ultimate result is the formation of blood clots composed of polymerized fibrin and activated platelets.
  • TF is thought to be involved in thrombotic diseases in addition to its beneficial role in preventing blood loss from the vasculature.
  • TF is a type I integral membrane protein composed of an extracellular domain, a single membrane-spanning domain and a short cytoplasmic tail.
  • TF must be incorporated into suitable phospholipid membranes in order to exhibit maximal activity.
  • Soluble TF is thousands of times less active than TF embedded in a suitable membrane, underscoring the essential role of membrane anchoring for TF function.
  • the membrane or disc in which it is embedded must contain negatively charged phospholipids, desirably phosphatidylserine.
  • Nanoscale disc-like particles comprising a membrane scaffold protein (MSP, naturally occurring or engineered) and phospholipid have been successfully used to provide stable, soluble and biologically active hydrophobic proteins. See, for example, WO 02/40501 and US Published Applications 2004/0053384 and 2005/0182243 for a thorough discussion of these particles, the structural proteins in them and their formation. These particles contain the phospholipid in the form of a disc which is surrounded by a "belt" formed of the amphiphilic membrane scaffold protein (MSP). Where there is a hydrophobic protein incorporated, it is bound in, within or to the phospholipid portion and may or may not have peripheral association with the encircling MSP. These particles are typically from about 5 to about 50 nm, usually about 5 to about 20 nm, in diameter, depending on the specific composition.
  • MSP membrane scaffold protein
  • tissue factor is incorporated into nanoscale particles comprising at least one membrane scaffold protein and phospholipid, desirably but not necessarily including at least one net negatively charged phospholipid.
  • the phospholipid is phosphatidylserine (PS) and phosphatidylcholine (PC) at a molar ratio of 1:99 to 50:50, or from 5:95, 10:40 or 20:80.
  • the membrane scaffold protein can be a naturally occurring protein such as apolipoprotein A1, apolipoprotein C or E, or other predominantly amphipathic helical protein, or it can be any of a number of engineered (designed and produced by the hand of man) membrane scaffold proteins, for example as described in United States Patent Publications 2005/0182243 and 2004/0053384, both of which are incorporated by reference to the extent there is no inconsistency with the present disclosure.
  • MSPs include, but are not limited to, SEQ ID NO:2, SEQ ID NO: 4, SEQ ID NO:6, SEQ ID NO:8, amino acids 13-414 of SEQ ID NO:8, SEQ ID NO:10, amino acids 13-422 of SEQ ID NO:10, SEQ ID NO:12, amino acids 13-168 of SEQ ID NO:12, SEQ ID NO:14, amino acids 13-168 of SEQ ID NO:14, SEQ ID NO:16, amino acids 13-201 of SEQ ID NO:16, SEQ ID NO:17, amino acids 13-201 of SEQ ID NO:17, SEQ ID NO:18, amino acids 13- 392 of SEQ ID NO:18, SEQ ID NO:50, amino acids 13-234 of SEQ ID NO:50, SEQ ID NO:51 , amino acids 13-256 of SEQ ID NO:51 , SEQ ID NO:52, amino
  • the molar ratio of phospholipid to membrane scaffold protein to tissue factor or truncated recombinant tissue factor in the mixture from which the nanoscale particles are prepared can be from about 45:1 :0.1 to about 80:1 :0.1, desirably about 50:1:0.1 to 70:1:0.1, or 65:1 :0.1 , where the membrane scaffold protein in MSP1 , rTF and a 20:80 molar ratio of PS:PC.
  • phospholipid mixtures can comprise net-negative charged phospholipids (including but not limited to PS) present from 1 to 50, from 3 to 50, from 10 to 40 or 20, on a mol% basis, with the balance being net-neutral phospholipids such as phosphatidylcholine (PC) or phosphatidylethanolamine (PE).
  • PC phosphatidylcholine
  • PE phosphatidylethanolamine
  • MSP net-negative charged phospholipids
  • MSP1 E3D1 net-neutral phospholipids
  • a higher molar ratio of lipid to MSP is used (from 70:1 to 140:1, from 90:1 to 125:1 , or from 115:1). It is understood that if more than one TF (or rTF) molecule per nanoscale particle is acceptable the ratio of that TF or rTF in the preparation mixture can be higher than those specified above.
  • tissue factor- containing compositions useful as topical hemostatic agents comprise tissue factor incorporated into nanoscale particles as described above.
  • the topical hemostatic agent can be applied to a site of trauma in a human or animal patient, or it can be applied to a surgical incision, a site of post-surgical bleeding, soft tissue trauma or to patient afflicted with hemophilia or thrombocytopenia, in an amount sufficient to control bleeding in the patient.
  • the nanoparticles containing the tissue factor can be attached to or adsorbed onto a solid support such as to a collagen sponge or netting, or microcrystalline collagen powder, which is convenient for use at a surgical or trauma locus.
  • such nanoparticles can be attached to a solid support such as beads or coated onto biologically inert particles or to materials such as ground chitin, chitosan or chitosan derivatives, which can then be applied at a trauma site in a patient or introduced into a solid tumor.
  • tissue factor is attached to solid supports so that it will not be allowed to migrate freely into and/or throughout the bloodstream, and so that it will not be washed out of a wound by hemorrhaging blood.
  • the TF-containing particles can be embedded in a slow release composition.
  • the present invention provides a useful therapeutic composition to supplement a deficiency in the clotting system in a human or animal patient, for example, as a result of a genetic or acquired deficiency, due to chemotherapy, or as a result of inhibitory antibodies.
  • the tissue factor and the membrane scaffold protein in the nanoparticles are from the same species as the patient to which the composition is administered.
  • a therapeutic composition comprising tissue factor-containing nanoscale particles as described above to the patient in need of said treatment, in an amount sufficient to control or stop bleeding in said patient.
  • the TF-containing particles are immobilized on a solid support so that migration into the bloodstream or loss of the particles from the wound site is limited.
  • the tumor can be a neoplastic growth in the patient.
  • the particles further comprise a targeting agent which specifically binds to the tumor cells and tissue, including but not limited to a lectin an antibody, single chain body, or an antigen-binding antibody fragment.
  • Fig. 1A diagrammatically illustrates the catalytically active, membrane-bound complex of TF and factor Vila.
  • Fig. 2B diagrammatically illustrates the TF:Vlla complex bound to factor IX or X, which is activated by the proteolytic action of the TF:Vlla complex bound to the membrane.
  • Fig. 1 B shows the complex of Factor Vila, TF and Factor IX or X with the relative position of the membrane.
  • Fig. 2 (prior art) is a simplified schematic of the clotting cascades, with the two action points of the TF:Vlla complex shown.
  • Fig. 3 shows the response of TF:Vlla to the phospholipid content.
  • Fig. 4A shows the results of sodium dodecyl sulfate polyacrylamide gel electrophoresis of solubilized TF-containing, MSP1 -supported nanoscale disc- like particles purified by HPLC, where those particles were prepared under different conditions.
  • Fig. 4B shows that the ratio of TF:MSP1 is 0.51 in the nanoscale particle preparation.
  • Fig. 5A shows the results of gel filtration (on a Superdex 200 sizing column) of a crude preparation of nanoscale disc-like particles containing rTF that were prepared using the detergent, deoxycholate.
  • the x-axis is retention time on the column and the y-axis is A 28 o- The nanoscale disc-like particles eluted from the column between 20 and 30 min.
  • Fig. 5B shows the results of gel filtration (on a Superdex 200 sizing column) of the same preparation of nanoscale disc-like particles containing rTF shown in Fig. 5A, after they were enriched for TF-containing nanodiscs by immunoaffinity chromatography using immobilized HPC4 antibody.
  • Fig. 5C shows the superimposition of the chromatograms from Fig. 7A and Fig. 7B.
  • Fig. 6 shows the clotting activity of TF-Nanodiscs containing varying proportions of PS (remainder of phospholipid is PC). Clotting time is measured as a function time.
  • Fig. 7 provides a comparison of the clotting activities of TF-liposomes, TF-Nanodiscs and a mixture of sTF and PCPS vesicles.
  • Fig.8 shows the results of SPR (Biacore 3000) analysis of factor X binding to Nanodiscs of varying phospholipid content.
  • Nanodiscs (no TF) were prepared using mixtures of the indicated percent POPS, with the balance being POPC. The Nanodiscs were then immobilized on NTA chips via the oligohistidine tag present as part of MSP1. Factor X was flowed over the immobilized discs starting at 100 seconds (association phase) followed by buffer only at 280 seconds (dissociation phase) Nanodiscs containing 100% POPC employed as a control showed no evidence of factor X binding; they only exhibited the RU shift due to the refractive index of the factor X solution (not shown).
  • Fig. 9 provides a comparison of the rate of factor X activation in TF- Nanodiscs with no or with 40% (mol%) PE and varying amounts of PS in a PC background.
  • Fig. 10 demonstrates that factor Vila binding to TF-Nanodiscs is faster than to Nanodiscs containing only MSP and phospholipids, as measured by SPR.
  • the upper trace is that of the TF-Nanodiscs and the lower is that for containing only MSP and phospholipids.
  • DOPC 1, 2-dioleoyl-sn-glycero-3- phosphocholine
  • DOPS 1, 2-dioleoyl-sn-glycero-3-phosphoserine
  • DPPC 1,2- dipalmitoyl-sn-glycero-phosphocholine
  • GIa ⁇ -carboxyglutamate
  • Gla-domain Gla-rich domain
  • PC phosphatidylcholine
  • PCPS vesicles composed of mixtures of PC and PS, typically 80% PC, 20% PS
  • PE phosphatidylethanolamine
  • PS phosphatidylserine
  • SPR surface plasmon resonance
  • sTF soluble TF (extracellular domain of TF)
  • TF:Vlla the 1 :1 complex of TF and factor Vila
  • rTF recombinant grapplnated TF
  • PL phospholipid
  • POPC palmitoyl
  • Tissue factor is the integral membrane protein that triggers blood coagulation (Morrissey, JH. Tissue Factor and Factor VII Initiation of Coagulation. In: Hemostasis and Thrombosis: Basic Principles and Clinical Practice (Fourth Edition), RW Colman, J Hirsh, VJ Marder, AW Clowes, and JN George, eds. (Lippincott Williams & Wilkins, Philadelphia), pp 89-101 , 2001).
  • TF is composed of two fibronectin type 3 domains, a single membrane- spanning domain, and a short cytoplasmic domain (Fig. 1A). TF is typically expressed on the cell surface.
  • a type I integral membrane protein, TF has its N-terminus located outside the cell and its C-terminus is in the cytoplasm.
  • Membrane (or Matrix) Scaffold Proteins as used herein may be naturally occurring, recombinant or artificial (do not occur in nature) amphiphilic proteins which self-assemble phospholipids and phospholipid mixtures into nanometer size membrane bilayers.
  • a subset of these nanometer size assemblies are discoidal in shape, and are referred to as nanoscale discs or nanoscale disc-like particles.
  • Typical nanoscale disc-like particles are from about 9 to about 13 nm in diameter. Such particles comprise about 65 to about 120 phospholipid molecules per side, ringed by one or more amphipathic membrane scaffold proteins, also call matrix scaffold protein.
  • the MSPs comprise several helical domains, wherein successive helical domains are separated by a punctuation region, made up of one to five amino acids which do not favor helix formation or which tend to stop helix formation of adjacent amino acids.
  • a punctuation region made up of one to five amino acids which do not favor helix formation or which tend to stop helix formation of adjacent amino acids.
  • MSPs can be designed using helical segments of proteins other than human apolipoprotein A-1 , for example, apo A-1 of other species, or apo C, apo E, myoglobin or hemoglobin proteins of various species. Helical segments from more than one protein can be combined, with the appropriate punctuation sequences (where the punctuation sequence confers flexibility it can also be called a hinge region or hinge sequence) to form an MSP having the useful properties described herein. See Tables 4-56 below for specifically exemplified MSPs and their coding sequences.
  • functional MSPs can be generated by de novo protein design wherein the desired traits of amphipathic helical protein structures are produced. It is also understood that conservative amino acid substitutions can be made in the sequences specifically exemplified, with the proviso that the self-association function is maintained. Such substitution variants can be termed homologs of the specifically exemplified sequences.
  • Various helix-forming, amphiphilic proteins of interest are described in Bolanos-Garcia et al. (2003) Progress in Biophys. Molec. Biol. 83:47-68.
  • MSPs for packaging tissue factor (natural or truncated) proteins or complexes where the MSP assumes an amphophilic conformation based on beta sheets, where the amino acid sequence of the protein is punctuated so that there are regions of beta sheet forming portions separated by a flexible region of amino acids.
  • the region of beta sheet-forming sequence is desirably from about 10 to about 30 amino acids, and the punctuation region can include from 3 to 10 amino acids, where there are antiparallel beta sheets in the MSP or from about 10 to about 30 amino acids where the beta sheets are parallel.
  • Functional MSPs may or may not have punctuation regions between domains of secondary structure within the protein.
  • the punctuation region disrupts regions of secondary structure within a protein.
  • Proline and/or glycine residues are preferred punctuation regions in a protein having helical domains.
  • the punctuation regions can provide flexibility to the structure of a protein, especially in the case of two to three amino acids, desirably including glycine and alanine residues.
  • a punctuation region (or sequence) can include from 5 to 30 amino acids, especially 1 or 2 when the secondary structure elements or domains are alpha helices and 3 to 10, where there are antiparallel beta sheets in the MSP.
  • Apolipoprotein C sequences include, without limitation, bovine, XP 77416; mouse, AAH 28816; human NP 000032; and monkey, Q28995.
  • Myoglobin sequences include, for example, those of mouse, NP 038621; bovine, NP 776306; rat, NP 067599; and human, NP 005359.
  • Hemoglobin alpha chain sequences include human, AAH 32122 or NP 000549; beta chain sequences include human, NP 000509 or P02023; rat, NP 150237; mouse NP032246; bovine, NP 776342. Others may be found at the NCBI website and in the scientific literature.
  • amphiphilic and amphipathic are used synonymously in reference to membrane scaffold proteins.
  • An amphiphilic protein or an amphiphilic helical region of a protein is one which has both hydrophobic and hydrophilic regions.
  • the MSPs used in preparing the nanoscale disc-like particles of the present invention must be amphipathic, with one part of its structure more or less hydrophilic and facing the aqueous solvent and another part more or less hydrophobic and facing the center of the hydrophobic bilayer that is to be stabilized.
  • the elements of secondary structure of the protein generate the hydrophilic and hydrophobic regions in three dimensional space. Examination of the basic biochemical literature reveals two candidate protein structures that can have this required amphipathic character: the helix and the pleated sheet.
  • the MSPs useful in packaging TF into soluble and stable nanoscale discs have a helix as the fundamental amphipathic building block.
  • Each MSP has an amino acid sequence which forms amphipathic helices with more hydrophobic residues (such as A, C, F, I, L, M, V, W or Y, using one letter abbreviations for amino acids as well known to the art) predominantly on one face of the helix and more polar or charged residues (such as D, E, N, Q, S, T, H, K or R and sometimes C) on the other face of the helix.
  • each helical building block can be punctuated (but punctuation is not necessary) with residues such as proline (P) or glycine (G) periodically, which can introduce flexibility into the overall structure by interrupting the general topology of the helix.
  • these punctuations occur about every 20-25 amino acids to form “kinks” or to initiate turns to facilitate the "wrapping" of the MSP around the edge of a discoidal phospholipid bilayer.
  • the punctuation region can include from one to 10 amino acids, especially 3 to 10 where there are antiparallel beta sheets in the MSP.
  • an MSP comprises about 12 to about 20 or more repeating units having this generalized amphipathic sequence.
  • this protein would be composed of amphipathic alpha helices each with a length of between 14 and 25 amino acids, punctuated in the linear sequence by a residue unfavorable for helix formation, such as praline or glycine or a sequence from about 1 to 5 amino acids which does not favor helix formation, which form small helical building blocks that stabilize the hydrophobic core of the phospholipid bilayer.
  • a helix of about 20-25 amino acids (a small helical building block) has a length comparable to the thickness of a membrane bilayer.
  • the helix contains from about 3 to about 18 amino acids per turn, and the type of helix can be an alpha, pi or 3,10 helix, among others.
  • Helices with three to sixteen, three to eight, desirably three to four, amino acids per turn of the helix are useful in the present invention.
  • An MSP of the present invention can comprise from 50 to 400 turns.
  • Secondary structure predictions can be determined using programs readily accessible to the art; see, for example, on the internet at the ExPASy proteomics server of the Swiss Institute of Bioinformatics. Guidance in predicting secondary structure is also given in publications such as Chou et al. (1974) Biochemistry 13:211 , 222; Chou et al. (1978) Ann. Rev Biochem. 47:251-278; Fasman (1987) Biopolymers 26(supp.):S59-S79.
  • the MSP used is ideally capable of forming a nanoscale disc-like particle with a diameter greater than 9-10 nm.
  • MSP1 MSP1T2 and others can be used as well. See, e.g., US Patent Publication 2004/0053384 or US 2005/0182243 and herein below.
  • MSP1E1 yields a particle 8.5 nm in diameter.
  • MSP1E1 9.7 nm, MSP1E2, 10.9 nm and MspE3 12.1 nm, when assembled only with phospholipids.
  • the average number of DPPC (fully saturated phospholipid) molecules assembled in these particles increases from 164 ⁇ 2 for MSP1 particles to 334 ⁇ 12 for MSP1E3 particles.
  • the numbers of phospholipid molecules for MSP1 particles was 122 ⁇ 10 and for MSP 1E3 particles there were 248 ⁇ 24 molecules per disc.
  • MSP 1E3 particles there were 248 ⁇ 24 molecules per disc.
  • the engineered amphiphilic MSP contains regions of secondary structure in three dimensional space, such as parallel or antiparallel beta sheets, with spacer regions of appropriate length to allow association of hydrophobic regions with a target hydrophobic molecule which is protected from the aqueous milieu, and thus stabilized and solubilized.
  • compositions and methods of the present invention utilize recombinant human tissue factor (rTF) that has been expressed in, and purified from, Escherichia coli, although other forms of native tissue factor and recombinant tissue factor can be used.
  • rTF human tissue factor
  • the human rTF used in the experiments described herein differs from wild-type human TF in several ways.
  • a small peptide epitope HPC4 epitope
  • HPC4 epitope small peptide epitope
  • the presence of this epitope on the N-terminus of TF does not affect its function in blood clotting.
  • cytoplasmic domain of TF has been deleted (this is also termed des-cyto-TF, dcTF or rTF).
  • the reason for removing most of the cytoplasmic domain is that it causes problems in expression and purification of rTF.
  • the cytoplasmic domain of TF is dispensable for TF clotting functions, so there is no harm in removing this portion of TF. (See Figs. 1A-1B).
  • rTF expressed in bacteria lacks the N-linked carbohydrate chains normally found on human TF, but the carbohydrate chains are not required for TF procoagulant activity (Paborsky et al. 1989. Biochemistry 28:8072-8077).
  • TF In order for TF to have optimal activity, it must be embedded into a phospholipid (PL) membrane which contains net-negatively charged phospholipids (Neuenschwander et al. 1995. Biochemistry 34, 13988-13993).
  • the most active negatively charged phospholipid is phosphatidylserine (PS), although other phospholipids with a net negative charge, e.g., phosphatidic acid, phosphatidylglycerol or phosphatidylinositol, can be used.
  • PS phosphatidylserine
  • PS is used in these phospholipid mixtures at levels ranging from 3 to 50 mol%.
  • the phospholipid preparations used in the present invention contain 20 mol% PS and 80 mol% PC. This mixture is referred to herein as PCPS.
  • Other neutral phospholipids such as phosphatidylethanolamine (PE), can be incorporated into the mixture in place of some of the PC.
  • PE phosphatidylethanolamine
  • An example of such a mixture is 10 mol% PS, 40 mol% PE and 50 mol% PC.
  • Phospholipids purchased from Avanti Polar Lipids, Inc., Alabaster, AL, are derived from natural sources, although synthetic phospholipids can also be used.
  • TF functions as the cell-surface binding protein (and essential protein cofactor) for coagulation factor Vila (FVIIa).
  • FVIIa is a trypsin-like plasma serine protease (see Fig. 3 for clotting cascade).
  • TF binds to FVIIa with high affinity (K d ⁇ 50 pM) and with 1 :1 stoichiometry.
  • the TF:Vlla complex is the first enzyme in the extrinsic pathway of the blood clotting cascade, in which TF can be considered the regulatory subunit, and FVIIa the catalytic subunit.
  • TF:Vlla activates the clotting cascade by converting two serine protease zymogens (factors IX and X) into active enzymes (factors IXa and Xa) via limited proteolysis.
  • sTF soluble tissue factor
  • rTF can be incorporated into supported phospholipid bilayers (nanoscale disc-like particles) in such a way as to retain procoagulant activity. To do this, it was necessary to identify conditions under which TF could be reliably inserted into the nanoscale disc bilayer. In addition, it was necessary to incorporate a mixture of negatively charged phospholipids (in this case, a mixture of PC and PS) into the supported phospholipid bilayer to insure optimal activity, although activity can be modulated (i.e., dampened) by increasing the proportion of neutral phospholipids in the core of the particle.
  • a mixture of negatively charged phospholipids in this case, a mixture of PC and PS
  • TF-Nanodiscs When preparing TF-Nanodiscs, we typically use molar ratios of phospholipid:MSP1:membTF of 140 : 2 : 0.2. Using a tenfold molar excess of MSP over TF means that, on average, one TF molecule is incorporated for every five Nanodiscs. This ensures that, statistically, the majority of TF- Nanodiscs contain only one TF molecule, but only about 20% of the Nanodiscs contain TF. Pure populations of TF-Nanodiscs are isolated from the Nanodisc mixture as follows. First, the products of the Nanodisc self-assembly reactions are chromatographed by size-exclusion chromatography.
  • Nanodisc fraction which contains a mixture of Nanodiscs with and without membTF, is then subjected to immunoaffinity chromatography using immobilized HPC4 monoclonal antibody.
  • a small epitope tag incorporated at the N-terminus of membTF facilitates purification from the E. coli expression system (Rezaie et al. 1992. Prot. Expr. Purif. 3:453-460).
  • the HPC4 antibody binds to this peptide epitope with very high affinity in a Ca 2+ -dependent manner, which allows for gentle elution of the tagged protein using EDTA.
  • the presence of this epitope tag on the N-terminus of TF has no effect on its activity.
  • the HPC4 epitope tag enables isolation of a pure population of TF-Nanodiscs. When re- chromatographed on size-exclusion chromatography, TF-Nanodiscs elute in a much more symmetrical peak whose Stokes diameter is slightly larger than that of Nanodiscs not containing TF (Fig. 5B).
  • TF and MSP content of the purified TF-Nanodisc preparation was analyzed by SDS-PAGE followed by Coomassie staining. Densitometry scanning of the lane (calibrated against known quantities of TF and MSP loaded on the same gel) revealed a 0.51 molar ratio of TF:MSP protein. Since each Nanodisc contains two MSP molecules, this equates to 1.02 TF molecules per Nanodisc.
  • Clotting of plasma in PT assays is dependent upon the sequential functioning of two membrane-bound protease-cofactor complexes: The first is the TF:Vlla complex, and the second is the prothrombinase complex (factor Va:factor Xa complex).
  • the procoagulant activity of TF-Nanodiscs indicates that at least the first reaction (TF:Vlla activation of factor X) can occur on the Nanodisc surface.
  • Those disc-like particles containing TF which has been engineered to contain an HPC4 epitope tag can be purifying by chromatography over an immunoaffinity column to which HPC4-specific antibody is bound.
  • sodium deoxycholate has been used successfully in the preparation of the tissue factor-containing nanoscale particles, other detergents can be used as well.
  • tissue factor can be used to assist in the incorporation of tissue factor into phospholipid bilayers, including t-octylphenoxypolyethoxyethanol (Triton X-100, Union Carbide Chemicals and Plastics Co., Inc.), n-octyl-beta-D-glucopyranoside (octylglucoside), octaethylene glycol monododecyl ether (C 12 E 8 ), and nonaethylene glycol monododecyl ether (Ci 2 E 9 ).
  • Triton X-100 Triton X-100, Union Carbide Chemicals and Plastics Co., Inc.
  • octylglucoside n-octyl-beta-D-glucopyranoside
  • octaethylene glycol monododecyl ether C 12 E 8
  • nonaethylene glycol monododecyl ether Ci 2 E 9
  • Tissue factor activity of rTF containing nanoscale disc-like particles, prepared as described herein, was then studied.
  • the nanoscale discoid particles were fractionated using size-exclusion chromatography, and the various fractions were tested for TF procoagulant activity (the ability to shorten the clotting time of pooled normal human plasma).
  • the shortest clotting times corresponded to the major absorption peak on the chromatogram. This indicates that active rTF was successfully incorporated into the nanoscale discs.
  • rTF that is not incorporated into a suitable phospholipid surface has negligible activity in this clotting test.
  • the nanoscale disc preparation was made 5 mM in CaCI 2, and then the preparation was pumped over an HPC4 column, which column consists of the monoclonal antibody HPC4 attached covalently to AffiGel beads.
  • HPC4 binds tightly, in a calcium-dependent manner, to the HPC4 epitope.
  • HPC4 beads can be readily used to purify recombinant proteins containing this tag (Rezaie et al. 1992. vide infra).
  • Purified HPC4 IgG is attached to a N-hydroxysuccinimide ester chromatography matrix (AffiGel, Bio- Rad Laboratories, Hercules, CA).
  • HPC4 IgG and HPC4 attached to beads can also be purchased from Roche Applied Science.
  • the nanoscale discs containing rTF bind to the HPC4 column, while "empty" nanoscale discs do not bind.
  • the rTF- containing particles were eluted with buffer containing 10 mM EDTA.
  • the published procedure for purifying rTF and sTF on HPC4 columns includes a step in which the column is washed in a "high-salt" (contains 1 M NaCI) buffer just prior to elution.
  • factor Vila binds to rTF in PCPS vesicles, however, there are both protein-protein interactions (between factor Vila and TF) and protein-phospholipid interactions (between the GIa domain of factor Vila and negatively-charged phospholipids). The protein-phospholipid interactions are thought to provide additional binding energy, giving rise to the tighter K d .
  • factor Vila binds to rTF-PCPS-nanoscale discs with a K d that is also in the pM range, and is only slightly higher than that observed for binding of factor Vila to rTF in PCPS vesicles. This indicates that rTF-PCPS-nanoscale discs provide an environment for binding factor Vila that is very similar to rTF incorporated into phospholipid vesicles.
  • rTF recombinant human tissue factor
  • PCPS-nanoscale discs The purpose of this study was to compare the binding and enzyme kinetic properties of recombinant human tissue factor (rTF) incorporated into PCPS-nanoscale discs to rTF incorporated into PCPS vesicles.
  • the rTF used in these studies is recombinant human tissue factor produced in bacteria.
  • rTF was incorporated into PCPS-nanoscale discs as described, and then further purified on an HPC4 column to isolate nanoscale disc-like particles that contain rTF.
  • rTF was also incorporated into PCPS vesicles using a Bio-Bead method (Smith and Morrissey. 2004. supra).
  • the compositions of the two preparations are given as follows:
  • factor Vila bound to rTF very tightly when rTF was incorporated into either nanoscale discs or phospholipid vesicles. Both K d values were in the low pM range, in agreement with literature values (Neuenschwander and Morrissey. 1994. J. Biol. Chem. 269: 8007- 8013). The binding of factor Vila to rTF was slightly stronger when rTF was in phospholipid vesicles compared to nanoscale discs, but in both cases the binding was sufficiently tight to ensure complete binding of factor VII to rTF at plasma concentrations of factor VII, which is approximately 10 nM (Fair. 1983. Blood 62: 784-791).
  • K m and k cat values obtained for factor Vila bound to rTF in PCPS vesicles are comparable to literature values (Fiore et al. 1994. supra). Note that the K m values for factor X activation by rTF:Vlla are given as apparent K m values because this number depends strongly on the phospholipid concentration used in the assay. The K m and k cat values obtained for the two forms of rTF:Vlla complexes were similar. Both forms of the enzyme exhibited K m values that are below the factor X concentration in plasma, indicating that they are both efficient in recognizing factor X as a substrate in plasma.
  • the k ca t value obtained with factor Vila bound to rTF- PCPS-nanoscale disc-like particles was approximately 1.6-fold lower than the value obtained for factor Vila bound to PCPS vesicles.
  • This indicates that the rTF:Vlla complex on nanoscale discs is only slightly less active than rTF:Vlla complexes in phospholipid vesicles in converting factor X to Xa. This may be a consequence of the much smaller membrane surface available for binding factor X or Xa in a nanoscale disc of about 10 nm to about 14 nm in diameter, compared to a phospholipid vesicle of some 300 nm diameter.
  • TF can be incorporated into Nanodiscs with high yield, and that TF-Nanodiscs can be purified from mixtures containing Nanodiscs lacking TF using immunoaffinity chromatography, providing a highly homogeneous population, containing on average one TF molecule per disc.
  • TF-Nanodiscs exhibit significant procoagulant activity, orders of magnitude more active in clotting assays than is the combination of sTF and PCPS vesicles.
  • TF incorporated into Nanodiscs containing PS is highly functional, and the TF-Nanodisc system is capable of supporting membrane-dependent blood clotting reactions.
  • TF incorporated into pure PC vesicles binds factor Vila with a K d in the nM range, while TF-liposomes containing 20% PS bind factor Vila with a K d in the low pM range. Therefore, we expect that some of the PS molecules in TF-Nanodiscs are bound to factor Vila's GIa domain when the TF:Vlla complex forms on these discs.
  • factor X In order for TF:Vlla complexes on TF-Nanodiscs to exhibit significant procoagulant activity, the remaining phospholipid surface must have sufficient room, and sufficient free PS, to reversibly bind protein substrates, which in the case of the clotting assay in Fig. 7 is factor X. Like factor Vila, factor X also interacts with negatively charged phospholipids including PS via its GIa domain, and these interactions are important for efficient recognition as a substrate by TF:VIIa.
  • the apparent K m for factor X activation by the TF:Vlla complex is in the ⁇ M range in the absence of PS, but this falls to the nM range (generally, 20 to 100 nM depending upon the experimental conditions) in the presence of PS. Binding of factor X's GIa domain to PS molecules in the immediate vicinity of TF:VIIa therefore contributes to stabilizing the enzyme-substrate complex, lowering the apparent K m .
  • the TF-Nanodisc system provides a system for analyzing highly localized protein-phospholipid interactions within the immediate vicinity of the membrane-bound enzyme and the binding characteristics of the enzyme, factor Vila, to TF-Nanodiscs, and also the binding of substrates (factors IX and X) to both Nanodiscs and TF-Nanodiscs
  • Table 2 shows that factor Vila bound to TF-liposomes with a 26.4 pM Kd, which is in agreement with published values (Neuenschwander and Morrissey. 1994. supra).
  • TF in Nanodiscs containing mixtures of PS and PC binds factor Vila with similarly high affinity with which TF in conventional liposomes binds factor Vila.
  • SPR Biacore
  • Biacore Biacore
  • a desired composition are bound to a sensorchip and then the protein of interest is allowed to flow over the Nanodisc-chip to quantify binding.
  • immobilizing Nanodiscs has the advantage that the binding rates of various membrane-binding proteins are measured as they associate with the identical membrane surface that are used in functional studies, in solution, of the catalytic activities of membrane-bound protease complexes.
  • Nanodiscs can be attached to the sensorchip surface using a variety of approaches, owing to the adaptability built into the recombinant MSPs that encircle them.
  • One approach used successfully is to simply flow Nanodiscs over an NTA chip.
  • the MSP encircling the Nanodiscs have an oligohistidine tag engineered therein for ease of purification, and this same oligohistidine tag can be exploited to immobilize the Nanodiscs onto a Nickel-Nitriloacetic acid (NTA) chip.
  • Nickel chelated by nitrilotriacetic acid (NTA) is pre-immobilized on a carboxymethylated dextran matrix of the sensor chip.
  • the sensor chip can be regenerated with the use of the metal chelating compound (ethylenedinitrilo)tetraacetic acid (EDTA).
  • EDTA metal chelating compound
  • the heterobifunctional linker sulfosuccinimidyl 4-N- maleimidomethyl cyclohexane-1 -carboxylate (Sulfo-SMCC) has been used to bind amine-labeled DNA to the thiol group of a cysteine mutant engineered into MSPs.
  • the same DNA has also been attached to carboxyl groups present on MSPs using (1-Ethyl-3-[3-dimethylaminopropyl]carbodiimide hydrochloride) (EDC). Both methods of DNA attachment show specific binding to the complementary strand immobilized on Biacore chips, and the chips are regenerated using a high salt solution containing sodium hydroxide which separates the strands of DNA.
  • Nanodiscs lacking TF but containing 5 to 25% POPS were immobilized on NTA Biacore chips and analyzed using a Biacore 3000 instrument. Nanodiscs were loaded onto the chips at a concentration of 50 nM MSP using a flow rate of 5 ⁇ L/min. Nanodisc loading was monitored by the Biacore sensorgram and was stopped when 500 RU of discs were loaded for each sample. We chose to examine factor X binding to these immobilized Nanodiscs. Factor X was injected at a concentration of 1 ⁇ M using a flow rate of 10 ⁇ L/min.
  • Fig. 8 demonstrates that we can successfully use Biacore analysis to study binding of vitamin K-dependent clotting factor (factor X) to immobilized Nanodiscs.
  • factor X vitamin K-dependent clotting factor
  • factor X binding to the immobilized Nanodiscs depended strongly on the PS content of the supported bilayers, with both the rate and extent of binding being highest at the highest PS contents.
  • dissociation rates were slowest in Nanodiscs containing the highest % PS.
  • This system can be used to quantify the binding of factors Vila, IX and X to immobilized Nanodiscs containing varying phospholipid compositions.
  • Nanodiscs Data obtained from such studies are used to characterize the Nanodisc system and to provide a baseline from which to calculate affinities of both enzyme and substrate to the same membrane microenvironment enclosed within Nanodiscs, with care taken to ensure that apparent binding and dissociation rate constants are not complicated by artifacts arising from mass transport limitations and rebinding effects, for example, by limiting the quantity of Nanodiscs attached to the membrane surface and examining the effects of altering the flow rate and concentration of the ligand that is being flowed over the sensorchip. It is understood that other strategies can be employed to immobilize the nanoscale particles comprising TF, for example by anchoring via the cytoplasmic tail or truncated cytoplasmic tail of the TF, or via at least one phospholipid molecule.
  • TF-Nanodiscs have substantial procoagulant activity, although their specific activities in clotting assays were somewhat lower than TF-liposomes when compared at the same TF concentrations (Fig. 7).
  • the lower specific activity in clotting assays could be due to lower catalytic efficiency of TF:Vlla complexes on Nanodiscs compared to TF-liposomes, or it could be due to lower ability to support the prothrombinase complex, since both reactions are required in a typical PT clotting assay.
  • TF:Vlla complexes assembled on Nanodiscs exhibited kcat values that differed from by less than a factor of two from those of TF:Vlla complexes assembled on liposomes of the same phospholipid composition.
  • TF:Vlla complexes assembled on liposomes exhibited lower apparent Km values than did TF:Vlla complexes assembled on Nanodiscs. There was a trend toward lower Km values as the PS content of the Nanodiscs increased.
  • the higher apparent Km values of TF-Nanodiscs compared with TF-liposomes may explain, at least in part, the somewhat lower specific procoagulant activity of TF-Nanodiscs compared with TF-liposomes in PT clotting assays.
  • the plasma is diluted threefold in the final clotting reaction.
  • the plasma concentration of factor X is approximately 170 nM, so diluting the plasma in the PT clotting assay reduces its concentration to about 57 nM.
  • these clotting assays are desirably supplemented with sufficient factor X to keep its final concentration at 170 nM, as a more direct estimation of specific activities that these various TF complexes exhibit in undiluted plasma.
  • rTF in nanoscale discs exhibits properties that are surprisingly similar to rTF in large unilamellar vesicles.
  • Factor Vila bound very tightly to rTF in nanoscale discs, and the rTF:Vlla complex on these discs exhibited enzyme kinetic properties that are surprisingly similar to rTF:Vlla complexes on the surface of phospholipid vesicles.
  • TF especially as rTF
  • TF formulated within nanoscale disc-like particles as described herein can be administered for killing tumors.
  • sTF truncated recombinant TF
  • This general targeting strategy appears to work by concentrating sTF at the surface of the tumor vasculature, whereupon sTF triggers the blood clotting cascade locally, forming a thrombus that infarcts the tumor vascular bed and kills the tumor.
  • sTF vascular cell adhesion molecule-1
  • VCAM-1 vascular cell adhesion molecule-1
  • VAGFR1 vascular endothelial growth factor 1
  • FAP fibroblast activation protein
  • TF formulated within nanoscale disc-like particles can be targeted to the tumor vasculature using the same targeting strategies and targeting molecules as have been used to target sTF.
  • targeting can be accomplished by linking the targeting antibody (or other suitable targeting molecule) to the supported phospholipid bilayers within the nanoscale disc-like particles.
  • TF formulated within nanoscale disc- like particles has much higher procoagulant activities than sTF and therefore has superior efficacy in triggering the blood clotting cascade locally once targeted.
  • the TF-containing particles can be administered locally to the tumor, for example, incorporated within slowly dissolved materials, or they can be administered intravenously and targeted to the tumor by incorporating targeting molecules, such as antibodies, single chain tumor-binding antibodies or tumor- binding fragments of antibodies, within the nanoscale particles so that the tumor-binding portion is external to the disc and free to bind to the target tissue.
  • the dose of TF administered should be about 0.5 mg TF incorporated in particles per kg body weight to about 5 mg TF incorporated in particles per kg body weight.
  • a targeting molecule be included within the particle either within the MSP or TF derivative so that clotting activity is not systemic or excessive so as to cause harm to the patient to whom the particles have been administered.
  • Clinical situations in which excessive bleeding is encountered include surgery or trauma in patients with hereditary or acquired deficiencies in the blood clotting system.
  • Patients with such deficiencies include patients with thrombocytopenia and hemophilia (patients lacking factor VIII or IX), especially patients who have developed inhibitory antibodies against therapeutically administered factor VIII or IX.
  • Current therapies for such refractory patients include injection of coagulation factor concentrates or recombinant factor Vila, which are generally very expensive (Carr and Martin, 2004. Expert Rev. Cardiovasc. Ther. 2: 661-674).
  • topical hemostatic agents such as collagen sponges, oxidized cellulose, chitosan derivatives, and "fibrin glue" (which contains a mixture of thrombin, fibrinogen and factor XIII).
  • Topical agents containing materials like collagen, cellulose or chitosan are designed to activate blood platelets and stimulate vasoconstriction, both of which can facilitate hemostasis. Additionally, these agents may be used in conjunction with thrombin or "fibrin glue" to stimulate the formation of cross-linked fibrin in order to enhance the formation of hemostatic plugs, thereby helping to control bleeding (Pusateri et al. 2003. J. Trauma 55: 518-526; Softer et al. 2003.
  • TF in a suitable phospholipid membrane is the most potent known initiator of blood clotting and, because of its extremely potent procoagulant activity, would be advantageous to incorporate into topical hemostatic agents in place of thrombin.
  • phospholipid vesicles containing TF are relatively unstable and are difficult to immobilize onto solid surfaces.
  • Nanoscale, disc-like particles comprising a membrane scaffold protein are known to be stable after lyophilization and they can be attached to solid supports via crosslinking between the membrane scaffold protein and sites on the solid support matrices.
  • the present invention provides nanoscale particles comprising TF, which can be applied topically, either alone or administered bound to a solid support, desirably a macroscopic support material, such as a collagen sponge, microcrystalline collagen, chitosan derivatives, cellulose or latex beads, in applications of nanoscale disc-like particles containing TF (or rTF) as described herein for controlling bleeding.
  • a cellulosic material useful in the present context is a gauze used in bandages or wound dressings.
  • nanoscale particles comprising TF alone is a mouthwash containing a suspension of such particles, which can be used to control bleeding in the oral cavity following dental surgery.
  • nanoscale particles comprising TF in which the nanoscale particles are bound to solid support matrices can be applied to surgical sites and sites of trauma in order to activate the blood clotting cascade locally.
  • immobilization of nanoscale particles comprising TF has the additional advantage that the TF particle is not washed out of the wound site by hemorrhaging blood, and furthermore, that the TF particle is not readily released back into the circulation of the patient.
  • such bound TF can be advantageously administered to a patient who does not suffer from a hemophilia but who is experiencing bleeding due to trauma or surgery or any other reason.
  • the target incorporated into the nanoscale disc-like particles can be attached to the surface of a solid support, including collagen sponges or other macroscopic pieces, microcrystalline collagen, or latex beads, in a variety of ways. The first is the easiest and nonspecific way, which is to rely on physisorption to the surface of the material using either hydrophobic or electrostatic forces. More stable incorporation or attachment can be via covalent bonding. This can be accomplished through chemical cross-linking between the scaffold protein and the solid support.
  • the nanoscale disc-like particles can also be immobilized through incorporation of derivatized phospholipids or fatty acyl chains, or including biotinylated phospholipids, which can then be attached to the support matrix via interaction with immobilized avidin or streptavidin.
  • the TF is bound to a collagen sponge or similar solid support at a density of from about 1 ng to about 100 ⁇ g rTF (incorporated in nanoscale particles) per gram (dry weight) of solid support matrix.
  • a cysteine-containing MSP allows the use of a heterofunctional cross linker where one reactive group reacts with a free sulfhydryl to effect bonding the TF particle to the solid material (such as a collagen sponge). Descriptions of immobilization reactions using bifunctional cross linking molecules are given herein.
  • the particles containing the TF can be injected intravenously and targeted to adhesion molecules that are exposed on activated platelets or to other molecules such as collagen or tissue adhesive proteins that are not normally exposed to blood in intact blood vessels but are exposed to blood at sites of wounds.
  • This can be achieved by binding or crosslinking a targeting antibody or other targeting agent to the MSP with nanoscale particles containing TF, although care must be taken to avoid excessive or uncontrolled clotting factor activation in circulation.
  • nanoscale particles containing TF In addition to hemophiliac patients, other patients subject to excessive bleeding can also benefit from the administration, especially local administration, of nanoscale particles containing TF. Victims of accidents or other traumatic injuries or surgical patients, including but not limited to liver surgery patients, can be treated with the particles of the present invention. Other types of patients who can be treated by administration of nanoscale particles containing TF to control bleeding include patients with acquired or congenital coagulopathies including patients with thrombocytopenia, sepsis, liver failure, disseminated intravascular coagulation, and other coagulopathies.
  • the target incorporated into nanoscale disc-like particles can be attached to a surface, either a sponge or latex bead, in one of three ways.
  • the first, easiest but also non-specific, is to rely on physisorbtion to the material using either hydrophobic or electrostatic forces. More stable incorporation is via covalent linkages. This can be accomplished through crosslinking with the scaffold protein or through incorporation of labeled phospholipids or fatty acyl chains.
  • TF-containing nanoscale disc-like particles of the present invention is as a reagent in Prothrombin Time (PT) assays which are employed to screen for defects in the blood clotting system and to monitor patients who are being treated with anticoagulants.
  • This assay uses a source of TF activity (a thromboplastin reagent) to trigger clotting of blood or plasma in vitro, and the time interval between adding the TF reagent and the formation of the blood or plasma clot is the PT value.
  • a source of TF activity a thromboplastin reagent
  • the thromboplastin reagent was simply an extract of homogenized tissue, most commonly animal or human brain or human placenta.
  • thromboplastins More recently recombinant thromboplastins have been developed based on purified recombinant human or rabbit TF that has been reconstituted into suitable phospholipid vesicles.
  • TF-containing nanoscale discs-like particles can be used as the thromboplastin reagent in PT assays. They have the advantages of stability to aggregation in aqueous environments as well as excellent stability of the procoagulant activity of TF in these particles.
  • TF can be embedded into the phospholipid portion of membrane scaffold protein-supported nanoscale disc-like particles by virtue of the interaction of the membrane-spanning domain of TF with the phospholipid of the particles.
  • the nanoscale particles provide the necessary phospholipid surface to support the TF:Vlla enzymatic activity.
  • TF in the nanoscale discs can bind and allosterically activate factor Vila, because the resultant discs exhibit strong procoagulant activity.
  • the TF:Vlla complex in the nanoscale particles can proteolytically activate its natural substrate, factor X.
  • the TF in the nanoscale particles provides a unique way to deliver and control TF activity.
  • the procoagulant activity of TF can, for example, be controlled by modulating the content of negatively charged phospholipids in the nanoscale disc-like particles.
  • fluorescein-labeled nanoscale discs which served as a model for rTF-containing discs, were prepared using MSP1 and phospholipid (PSPC 80:1) and injected intravenously into a rat. Based on measurement of the absorbance at 280 nm, 20.6 ⁇ M particles (about 255 ⁇ g particles) were injected in a 0.5 ml bolus. The estimate based on absorbance at 497 nm was 16.7 ⁇ M particles, with an assumption of 2 molecules fluorescein conjugated per particle. The rats used were about 200 g, with an estimated blood volume of about 13 ml. 0.2 ml aliquots of blood were taken at time intervals after injection.
  • the blood was collected into dry heparin, with a final concentration of heparin of 333 U/ml.
  • the heparinized blood was centrifuged to remove cells, and the emission of fluorescein was measured at 520 nm.
  • the estimated half-life of the particles in circulation was about 5.5 hours.
  • Recombinant tissue factor consists of an extracellular domain, a transmembrane anchor and a truncated cytosolic domain.
  • the truncation increases the homogeneity of the protein by removing the C-terminal portions of the protein which are subject to proteolysis by bacterial enzymes, but this modification does not affect TF activity.
  • Additional modifications to the protein include an N-terminal trafficking peptide and an HPC4 epitope tag.
  • the trafficking peptide directs the expressed protein to the intermembrane space of the recombinant E. coli host cell, in which space the peptide sequence is cleaved.
  • the HPC4 epitope allows for affinity purification with Ca 2+ dependent antibody (Rezaie et al., 1992) and does not affect TF activity.
  • rTF-containing nanoscale disc-like particles can be prepared using cholate and dialysis as follows. A 25 mM lipid mixture containing 80% phosphatidylcholine and 20% phosphatidylserine was solubilized with 50 mM sodium cholate in 10 mM Tris Cl 1 150 mM NaCI at pH 8.0. TF, MSP1 and phospholipid (in a ratio of 1 :10:1000) were combined and incubated overnight at 37 0 C. The sample was then dialyzed at 37 0 C (10,000 dalton molecular weight cutoff membrane) against buffer containing 10 mM Tris Cl, 150 mM NaCI at pH 8.0 (lacking sodium cholate) for 2 hours.
  • Dialysis was then continued at 4 0 C for an additional 6 hours with buffer changes every 2 hours.
  • the approximately 1 ml sample was then concentrated to ⁇ 250 ⁇ l using a YM- 10 centrifuge concentrator and injected into a Pharmacia 10/30 Superdex 200 HR gel filtration column. Samples were eluted with buffer identical to that described above (no sodium cholate) at 0.5 ml per minute. Fractions from chromatography were run on an 8-25% gradient SDS polyacrylamide gel to determine apparent size and then checked for coagulation activity. The chromatogram showing elution of TF incorporated into an excess population of MSP1 nanoscale discs is shown in Figs. 4A-4B.
  • TF The activity of TF in several disc fractions was determined by coagulation assays with human plasma. Activity was monitored in fractions 25- 28 as the inverse of coagulation time. Activity was highest in fraction 25 at 40 and decreased through fraction 28 at 30 hr "1 . This is expected from the size chromatogram in that the leading edge of the nanoscale disc peak has a larger effective mass due to the incorporation of TF in the MSP-supported bilayer. This assay thus demonstrates that TF is incorporated into nanoscale discs in an active conformation and that the membrane environment of the nanoscale disc closely mimics that of the native membrane system.
  • rTF-containing nanoscale disc-like particles can be prepared using deoxycholate and Bio-Beads as follows. Purified phospholipids for these studies were obtained from Avanti Polar Lipids (Alabaster, AL) and consisted of egg yolk L- ⁇ -phosphatidylcholine (PC) and porcine brain L- ⁇ - phosphatidylserine (PS), both of which were provided as solutions in chloroform. Before use, aliquots of the phospholipid solutions were dispensed into a glass test tube and the chloroform was evaporated under a stream of nitrogen. To ensure the removal of any traces of remaining chloroform, the dried-down lipids were placed under high vacuum overnight.
  • PC egg yolk L- ⁇ -phosphatidylcholine
  • PS porcine brain L- ⁇ - phosphatidylserine
  • the dried phospholipids were dissolved in a solution of 10.4 mM sodium deoxycholate in TBS buffer (50 mM Tris Cl, 100 mM NaCI, 0.1% sodium azide at pH 7.5) to yield a final concentration of 5.2 mM total phospholipid, with sonication being used to facilitate the complete solubilization of the phospholipids.
  • the phospholipids were mixed to give 80% PC and 20% PS (abbreviated PCPS).
  • Recombinant human TF (rTF) was combined with the solubilized lipid mixture and incubated for 1 hour at room temperature, after which MSP1 was added and incubated at room temperature for an additional 4 hours.
  • the final reaction mixture contained 8 ⁇ M rTF and 80 ⁇ M MSP1 , with a molar ratio of rTF to MSP1 to total phospholipid of 1 :10:650.
  • the deoxycholate detergent was then selectively removed from the sample by adsorption to Bio-Beads SM2 (Bio-Rad Laboratories, Hercules, CA). This was achieved by adding 0.5 mg washed Bio-Beads per ml of sample and incubating for an additional hour at room temperature with gentle agitation on a rocking platform. The Bio-Beads were then removed by filtration through a 0.22 ⁇ M sterilizing filter, yielding a crude preparation of rTF in nanoscale disc-like particles.
  • the rTF-containing nanoscale discs were further purified by immunoaffinity chromatography using the calcium-dependent antibody, HPC4, essentially as described (Rezaie, A.R. et al. 1992. Protein Expr. Purif. 3:453-460), except that the wash step with 1 M NaCI was not performed because this appeared to disrupt the integrity of the nanodiscs.
  • This purification method takes advantage of the fact that the peptide epitope for the HPC4 antibody was engineered into the N-terminus of recombinant TF. It resulted in an essentially pure population of nanodiscs into which rTF was embedded. When a sample of this highly purified material was rechromatographed on a 10/30 Superdex 200 HR gel filtration column, it eluted as a single, highly homogeneous peak.
  • procoagulant activity of TF in disc fractions was determined by clotting assays with pooled human plasma essentially as described (Smith, SA and Morrissey, J. H. 2004. J. Thromb. Haemost. 2:1155-1162).
  • TF-Nanodiscs are prepared using these cysteine-containing versions of MSP by the same methodology as for preparing TF-Nanodiscs using conventional MSP. After TF-Nanodiscs are prepared, they are reacted with APDP as follows (with all of the following steps carried out in the dark): First, 3 mg APDP is dissolved in 50 ⁇ l of dimethylsulfoxide (DMSO). Then, 1 microliter of the APDP/DMSO solution is added to 199 ⁇ l of phosphate- buffered saline (PBS: 20 mM sodium phosphate, 150 mM NaCI, pH 7.2).
  • DMSO dimethylsulfoxide
  • the crosslinking reaction is commenced by mixing 0.1 ml of the APDP/PBS solution to 0.3 ml of a preparation of TF-Nanodiscs that had previously been dialyzed into 0.1 M sodium borate buffer, pH 8.4, and allowing the reaction mixture to incubate for 30 minutes at room temperature in the dark.
  • the TF-Nanodisc preparation in borate buffer can contain up to 2 mg/ml MSP, in order to maintain an excess of APDP over MSP to ensure complete labeling.
  • Excess unreacted APDP is then separated from labeled TF-Nanodiscs by applying the mixture to a desalting column, such as a D-SaIt Execellulose Desalting Column (Pierce Biotechnology, Inc.), that has previously been equilibrated with PBS.
  • TF-Nanodiscs elute in the void volume of such desalting columns, yielding TF- Nanodiscs that are specifically derivatized with APDP on the cysteine residues in the MSP protein.
  • the APDP-labeled TF-Nanodiscs can be immobilized onto solid supports by photoactivatable crosslinking as follows:
  • the APDP-labeled TF- Nanodiscs are mixed in the dark with the substance to which they are to be crosslinked (for example, collagen sponges).
  • the mixture is then irradiated with an ultraviolet light (302 nm) for 5 minutes at a distance of 3.5 cm at room temperature.
  • Ultraviolet light activates the hydroxyphenyl azide functional group of APDP, allowing it to react covalently and non-selectively with proteins or other organic compounds.
  • Any TF-Nanodiscs that fail to react with the collagen sponge are removed by gentle washing of the sponges with PBS.
  • Examples of publications using APDP to react with free cysteine residues of target proteins, and then crosslinking the derivatized protein to other molecules include, without limitation, Yasui N, and Koide T. J. Am. Chem. Soc. 125:15728-15729, 2003 and van Voorst et al. FEBS Lett. 486:57- 62, 2000.
  • conventional TF-Nanodiscs can also be immobilized onto solid supports using amine- reactive crosslinking agents such as Sulfo-SASD (Sulfosuccinimidyl-2-[p- azidosalicylamido]ethyl-1 ,3'-dithiopropionate), also available from Pierce. Sulfo-SASD is reacted with TF-Nanodiscs in the dark according to the manufacturer's directions, which allows the crosslinker to react with primary amines present on the TF-Nanodiscs.
  • Sulfo-SASD Sulfosuccinimidyl-2-[p- azidosalicylamido]ethyl-1 ,3'-dithiopropionate
  • the derivatized TF-Nanodiscs are then reacted with solid supports such as collagen sponges using ultraviolet light as above.
  • the final result is immobilized TF-Nanodiscs.
  • This method is slightly less preferable since the site of attachment of the crosslinker to the TF- Nanodiscs cannot be as precisely controlled as with the combination of MSP containing cysteine residues and a sulfhydryl-specific crosslinker such as APDP.
  • Targeted TF- Nanodiscs can be used to confer hemostasis or to induce the formation of an occlusive thrombus in the vasculature of a tumor, killing it by infarction. This depends on the in vivo location to which the TF-Nanodiscs are targeted.
  • Targeting of TF-Nanodiscs to specific in vivo locations can be accomplished in several ways.
  • Monoclonal antibodies specific for desired in vivo targets can be chemically cross-linked to the TF-Nanodiscs using the Sulfo-SASD or APDP crosslinkers as described above.
  • the crosslinker is first attached to the TF-Nanodiscs using the same methodology described above for immobilizing TF-Nanodiscs on solid supports. Once the crosslinker is attached to TF-Nanodiscs, the purified targeting antibody IgG is added and crosslinking between the TF-Nanodiscs and IgG molecules is initiated by exposing the reaction mixture to ultraviolet light as described above and according to the manufacturer's instructions.
  • fusion proteins between a targeting molecule such as the antibody combining regions of monoclonal antibodies
  • TF or MSP can be created in order to target TF-Nanodiscs to desired in vivo locations.
  • a targeting molecule such as the antibody combining regions of monoclonal antibodies
  • MSP membrane-anchored form of TF
  • the membrane-anchored form of TF is used for preparing the fusion proteins.
  • the targeting molecule can be fused either to the N- or C-terminus of membrane TF.
  • the targeting molecule can be fused to either the N- or C-terminus of MSP.
  • fusion proteins with MSP instead of TF
  • ligands factors Vila, IX and X
  • attaching the targeting molecule to the C-terminus of TF is expected also to avoid problems with steric hindrance, since the targeting molecule is on the other side of the membrane bilayer relative to the ligand binding surface of TF.
  • TF-Nanodiscs instead of sTF using such fusion proteins or cross-linked proteins is the much greater procoagulant activity of TF-Nanodiscs compared with sTF.
  • MSPs including the precursor of the naturally occurring apolipoprotein A1
  • coding sequences which could be employed in preparing the TF- nanoscale disc-like particles of the present invention.
  • MSP2 (with histidine tag, without long linker) DNA sequence (SEQ ID NO:7).
  • the translation start and stop codons are in bold type, and the restriction endonuclease recognition sites used in cloning are underlined.
  • MSP2L (with histidine tag, with long linker) DNA sequence (SEQ ID NO:9). Translation start and stop codons are in bold type; restriction endonuclease sites used in cloning are underlined.
  • AAGCTCAACACCCAGTAATAAGCTTGC Table 13 MSP2 (with histidine tag, with long linker, in bold type) amino acid sequence (SEQ ID NO:10).
  • MSP1 D6D7 DNA sequence (SEQ ID NO: 13). Translation start and stop codons are shown in bold type, and restriction endonuclease recognition sites used in cloning are underlined.
  • ATAAGCTTGG [0098] The following is the amino acid sequence of a MSP polypeptide in which half repeats are deleted:
  • Plasmids for the expression of extended MSPs were constructed from plasmid for MSP1 described in Bayburt et al. (2002) Nanoletters 2:853-856 using a "Seamless" cloning kit (Stratagene) according to the manufacturer recommendations.
  • An alternative N-terminus for MSP1TEV was added by PCR; the primers were designed to include Nco I and Hind III restriction sites.
  • the PCR product was cloned into the pET28a plasmid (Novagen). Truncated mutants of MSP were produced with a Quick-change kit (Stratagene) using the MSP1TEV plasmid as a template. The presence of the desired insertions or deletions and absence of PCR-induced mutations were verified by DNA sequencing.
  • the amino acid sequences of the extended mutants were generated so that each of the central helices (from H3 to H7) (see Figure 19), was inserted sequentially at every position between other central helices, i.e. after H3, H4, H5, and H6, and the number of favorable salt links minus number of unfavorable contacts of the same charges was calculated for all possible configurations of antiparallel dimers in the resulting scaffold protein (Segrest (1999) supra). As a result, the insertion mutants were selected as optimal for maximum salt link scores.
  • These extended scaffold proteins, as well as truncated scaffold proteins, also containing different tag sequences at the N. terminus were engineered in E. coli and expressed with a high yield and purified by standard procedures.
  • H1 H2 refer to the sequences of Helix #1 etc.
  • His is a (His)6 tag
  • TEV is the tobacco viral protease
  • X is the Factor X (ten) protease site.
  • Helix 1 (H1): LKLLDNWDSVTSTFSKLREQLG (SEQ ID NO:22)
  • Helix 2 (H2): PVTQEFWDNLEKETEGLRQEMS (SEQ ID NO:23)
  • Helix 3 KDLEEVKAKVQ (SEQ ID NO:24)
  • Helix 4 PYLDDFQKKWQEEMELYRQKVE (SEQ ID NO:25)
  • Helix 5 (H5): PLRAELQEGARQKLHELQEKLS (SEQ ID NO:26)
  • Helix 6 (H6): PLGEEMRDRARAHVDALRTHLA (SEQ ID NO:27)
  • Helix 7 (H7): PYSDELRQRLAARLEALKENGG (SEQ ID NO:28)
  • Helix 8 (H8): ARLAEYHAKATEHLSTLSEKAK (SEQ ID NO:29)
  • Helix 9 (H9): PALEDLRQGLL (SEQ ID NO:30)
  • Helix 10(H10) PVLESFKVSFLSALEEYTKKLNTQ (SEQ ID NO:31)
  • Helix 0.5 H0.5: STFSKLREQLG (SEQ ID NO:32)
  • Helix 2S (H2): PVTQEFWDNLEKETEGLRQEMS (SEQ ID NO:34)
  • Helix 3 AAAGATTTAGAAGAGGTGAAGGCCAAGGTTCAG
  • Helix 8 (H8):
  • Helix 9 (H9): CCGGCGCTGGAAGATCTACGCCAGGGCTTATTG
  • Helix 0.5 (H0.5): TCTACCTTCAGTAAACTTCGCGAACAACTGGGC
  • H2S Helix 2S
  • MSP1T2 HisTev-H0.5 -H2-H3-H4-H5-H6-H7-H8-H9-H10 (SEQ ID NO:55) MSP1T2NH H0.5-H2-H3-H4-H5-H6-H7-H8-H9-H10 (SEQ ID NO:56) MSP1T3 HisTev-H2-H3-H4-H5-H6-H7-H8-H9-H10 (SEQ ID NO:57) MSP1D3 HisX-H1-H2-H4-H5-H6-H7-H8-H9-H10 (SEQ ID NO: 16) MSP1D9 HisX-H1-H2-H3-H4-H5-H6-H7-H8-H10 (SEQ ID NO: 17) MSP1D5D6 HisX-H1-H2-H3-H4-H7-H8-H9-H10 (SEQ ID NO: 12)
  • MSP1T5 HisTev-H2.5-H3-H4-H5-H6-H7-H8-H9-H10 SEQ ID NO:62
  • MSP1T6 HisTev- H3-H4-H5-H6-H7-H8-H9-H10 SEQ ID NO:63
  • MSP1 E3TEV HisTev-H1-H2-H3-H4-H5-H6-H4-H5-H6-H7-H8-H9-H10
  • MSP1 E3D1 HisTev-H0.5-H2-H3-H4-H5-H6-H4-H5-H6-H7-H8-H9-H10
  • MSP2TEV HisTev-H 1 -H2-H3-H4-H5-H6-H7-H8-H9-H 10-GT-H 1 -H2-H3-H4-H5- H6-H7-H8-H9-H10 (SEQ ID NO:66)
  • MSP1N1 His-TEV -H2S-H3-H4-H4-H5-H6-H7-H8-H9 (SEQ ID NO:
  • MSP2N1 HisTev-H0.5-H2-H3-H4-H5-H6-H7-H8-H9-H10-GT-H0.5- H2-H3- H4-H5-H6-H7-H8-H9-H10 (SEQ ID NO:68)
  • MSP2N2 HisTev-H0.5-H2-H3-H4-H5-H6-H7-H8-H9-H10-GT-H2-H3-H4- H5-H6-H7-H8-H9-H10 (SEQ ID NO:69)
  • tandem repeat MSP constructs of reference are composed of two MSP1 constructs linked by a Gly-Thr linker:
  • MSP2 MSP1-Gly-Thr-MSP1 , SEQ ID NO:8
  • constructs that can be readily produced include permutations of the above, i.e., MSP1 or a tandemly repeated MSP with either a short or long linker sequence with any combination of the following: hinge deletion, hinge replacement, half-repeat deletion, histidine tag, different linkers for MSP2 analogs.
  • H2.5 indicates the second half of the H2 helical sequence, i.e. the last 33 nucleotides or 11 amino acids is not included in the MSP sequence.
  • the coding and amino acid sequence for this protein is given in Tables 27 and 28, respectively.
  • MSP1T5 and MSP1T6 discs preps are not homogeneous under all assembly conditions. The results are highly dependent on the particular assembly conditions.
  • MSP1 N1 MSP1 N1
  • H10 is not included, and two H4 motifs are inserted.
  • the coding and amino acid sequences are given in Tables 31 and 32, respectively. This MSP is designed to increase the number of possible salt bridges on the interhelical interface.
  • MSPs incorporate a cleavable His-tag and use a TEV protease recognition site.
  • a protein corresponding to MSP2 with a N-terminal TEV cleavable His-tag has been designed.
  • the coding and amino acid sequences are given in Tables 37 and 38, respectively.
  • MSP2N3 A further MSP2 derivative (MSP2N3) has been designed to include helices 2-10 following the linker part of the H1 helix sequence.
  • the DNA coding and amino acid sequences are given in Tables 43 and 44, respectively.
  • Additional dimer sequences i.e., tandem repeat MSP
  • the fusion region to be composed of two different linkers which have high propensity to form beta-turns (Creighton, Proteins, p. 226).
  • These scaffold proteins are specifically designed to promote the anti-parallel helix-turn-helix structure in Nanodiscs.
  • the constituent scaffold proteins include MSP1T3, as well as the specially designed new scaffold proteins as described herein, MSP1 N1 and the circularly permuted MSP2N5 which has a modified sequence of amphipathic helices to optimize the salt bridges formed between two scaffold proteins in the antiparallel helix-turn-helix structure.
  • Linker may be either the Linker 1 or Linker 2 sequence defined below and MSP may be any of the monomeric membrane scaffold proteins previously defined.
  • Linker 1 (Lb1) is composed of 4 amino acids, preferably the sequence Asn-Pro-Gly-Thr (SEQ ID NO:96).
  • Linker 2 (Lb2) is composed of 6 amino acids with one additional residue on both ends to provide more flexibility, preferably the sequence Ser-Asn-Pro-Gly-Thr-Gln (SEQ ID NO:94).
  • MSP derivatives have been prepared with the incorporation of cysteine residues into the scaffold proteins by point mutation.
  • DNA coding and amino acid sequences are given in Tables 51 and 52, respectively.
  • MSP1 RC12' a cysteine residue is incorporated at the last residue in the Factor X recognition site. This mutant is used to prepare fluorescently labeled discs and attach to surfaces or matrices, for example, using heterofunctional cross linker molecules.
  • Lysine90 is replaced by a cysteine. See Tables 53 and 54 for coding and amino acid sequences respectively.
  • MSP1 K152C Lysine 152 is replaced by cysteine; see Tables 55 and 56.
  • Table 51 DNA sequence encoding MSP1RC12' (SEQ ID NO:88)
  • MSP1 K90C and in MSP1K152C are located on inter-helical interfaces. Discs were formed in the presence of DTT. The discs are more stable toward temperature-induced irreversible degradation. These are variants of the "Milano" mutations.
  • MSP1-Gly-Thr-MSP1 SEQ ID NO:8
  • MSP2D1 D1 MSP1T3-Gly-Thr- H2-H3-H4-H5-H6-H7-H8-H9-H10, SEQ ID NO:70.
  • Other constructs that can be readily produced include permutations of the above, i.e. MSP1 or MSP2 or MSP2a with any combination of the following: hinge deletion, hinge replacement, half-repeat deletion, histidine tag, different linkers for MSP2 analogs.
  • the nucleic acid constructs were inserted between the Ncol and Hindlll sites in the pET28 expression vector and transformed into E. coli BL21(DE3). Transformants were grown on LB plates using kanamycin for selection. Colonies were used to inoculate 5 ml starter cultures grown in LB broth containing 30 ⁇ g/ml kanamycin. For overexpression, cultures were inoculated by adding 1 volume overnight culture to 100 volumes LB broth containing 30 ⁇ g/ml kanamycin and grown in shaker flasks at 37 0 C.
  • IPTG isopropyl- ⁇ -D-thiogalactopyranoside
  • a frozen cell pellet from 1 liter of expression culture was resuspended in 25 milliliters of 20 mM Tris HCI pH 7.5 containing 1 mM phenylmethylsulfonyl fluoride.
  • Triton X-100 t-octylphenoxypolyethoxyethanol was added from a 10% (w/v) stock in distilled H20 to a final concentration of 1%.
  • the resuspended cells were sonicated on ice at 50% duty cycle at a power setting of 5 for four cycles of 1 minute on, 5 minutes off with a Branson probe sonifier.
  • the resulting lysate was centrifuged for 30 minutes at 30,000 rpm in a Beckman Ti 45 rotor in an ultracentrifuge. The resulting supernatant was filtered through a 0.22 ⁇ m nylon syringe filter. The salt concentration was adjusted to 0.5 M from a 4 M NaCI stock in water and applied to a 5 ml Hi-Trap nickel loaded column (Pharmacia, Piscataway, NJ).
  • the mature rTF lacks the 22 N-terminal amino acids.
  • the HPC4 epitope which allows immunoaffinity purification is at amino acids 23-35.
  • the TF extracellular domain is amino acids 36-254; the transmembrane domain which inserts into the phospholipid bilayer of the disc- like nanoscale particles occurs at amino acids 255-277; and amino acids 278- 279 are the remnants of the cytoplasmic domain (most of which has been deleted. Expression of this rTF is carried out as described in Rezaie et al. 1992. Protein Expr. Purif. 3:453-460, 1992 and Smith SA and Morrissey J. H. 2004. J. Thromb. Haemost. 2:1610-1616. In general, although TF may not be specified as rTF, TF incorporated into nanoscale disc-like particles is the truncated rTF.
  • the attending physician would know how to and when to terminate, interrupt, or adjust administration due to toxicity, or to organ dysfunctions, or to other adverse effects. Conversely, the attending physician would also know to adjust treatment to higher levels if the clinical response were not adequate (precluding toxicity).
  • the magnitude of an administered dose in the management of the disorder of interest will vary with the severity of the condition to be treated and to the route of administration. The severity of the condition may, for example, be evaluated, in part, by standard prognostic evaluation methods. Further, the dose and dose frequency may also vary according to the age, body weight, and response of the individual patient. A program comparable to that discussed above also may be used in veterinary medicine.
  • Such agents may be formulated and administered systemically or locally.
  • Techniques for formulation and administration may be found in Alfonso and Gennaro (1995). Suitable routes may include, for example, oral, rectal, transdermal, vaginal, transmucosal, or intestinal administration; parenteral delivery, including intramuscular, subcutaneous, or intramedullary injections, as well as intrathecal, intravenous, or intraperitoneal injections.
  • the agents of the invention may be formulated in aqueous solutions, preferably in physiologically compatible buffers such as Hanks' solution, Ringer's solution, or physiological saline buffer.
  • physiologically compatible buffers such as Hanks' solution, Ringer's solution, or physiological saline buffer.
  • penetrants appropriate to the barrier to be permeated are used in the formulation. Such penetrants are generally known in the art.
  • compositions of the present invention in particular those formulated as solutions, may be administered parenterally, such as by intravenous injection.
  • Appropriate compounds can be formulated readily using pharmaceutically acceptable carriers well known in the art into dosages suitable for oral administration.
  • Such carriers enable the compounds of the invention to be formulated as tablets, pills, capsules, liquids, gels, syrups, slurries, suspensions and the like, for oral ingestion by a patient to be treated.
  • compositions suitable for use in the present invention include compositions wherein the active ingredients are contained in an effective amount to achieve the intended purpose. Determination of the effective amounts is well within the capability of those skilled in the art, especially in light of the detailed disclosure provided herein.
  • these pharmaceutical compositions may contain suitable pharmaceutically acceptable carriers comprising excipients and auxiliaries which facilitate processing of the active compounds into preparations which can be used pharmaceutically.
  • the preparations formulated for oral administration may be in the form of tablets, dragees, capsules, or solutions, including those formulated for delayed release or only to be released when the pharmaceutical reaches the small or large intestine.
  • compositions of the present invention may be manufactured in a manner that is itself known, e.g., by means of conventional mixing, dissolving, granulating, dragee-making, levitating, emulsifying, encapsulating, entrapping or lyophilizing processes.
  • compositions for parenteral administration include aqueous solutions of the active compounds in water-soluble form. Additionally, suspensions of the active compounds may be prepared as appropriate oily injection suspensions. Suitable lipophilic solvents or vehicles include fatty oils such as sesame oil, or synthetic fatty acid esters, such as ethyl oleate or triglycerides, or liposomes. Aqueous injection suspensions may contain substances which increase the viscosity of the suspension, such as sodium carboxymethyl cellulose, sorbitol, or dextran. Optionally, the suspension may also contain suitable stabilizers or agents which increase the solubility of the compounds to allow for the preparation of highly concentrated solutions.
  • compositions for oral use can be obtained by combining the active compounds with solid excipient, optionally grinding a resulting mixture, and processing the mixture of granules, after adding suitable auxiliaries, if desired, to obtain tablets or dragee cores.
  • suitable excipients are, in particular, fillers such as sugars, including lactose, sucrose, mannitol, or sorbitol; cellulose preparations such as, for example, maize starch, wheat starch, rice starch, potato starch, gelatin, gum tragacanth, methyl cellulose, hydroxypropylmethyl-cellulose, sodium carboxymethylcellulose, and/or polyvinylpyrrolidone (PVP).
  • disintegrating agents may be added, such as the cross-linked polyvinyl pyrrolidone, agar, or alginic acid or a salt thereof such as sodium alginate.
  • Dragee cores are provided with suitable coatings.
  • suitable coatings may be used, which may optionally contain gum arabic, talc, polyvinyl pyrrolidone, carbopol gel, polyethylene glycol, and/or titanium dioxide, lacquer solutions, and suitable organic solvents or solvent mixtures.
  • Dyestuffs or pigments may be added to the tablets or dragee coatings for identification or to characterize different combinations of active compound doses.
  • compositions which can be used orally include push-fit capsules made of gelatin, as well as soft, sealed capsules made of gelatin and a plasticizer, such as glycerol or sorbitol.
  • the push-fit capsules can contain the active ingredients in admixture with filler such as lactose, binders such as starches, and/or lubricants such as talc or magnesium stearate and, optionally, stabilizers.
  • the active compounds may be dissolved or suspended in suitable liquids, such as fatty oils, liquid paraffin, or liquid polyethylene glycols.
  • stabilizers may be added.

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Abstract

Tissue Factor (natural or recombinant truncated) can be incorporated into stable, soluble nanoscale particles so that activity is maintained. These particles can be used as a reagent in prothrombin clotting time assays or they can be used in therapeutic compositions for use in humans or animals. Therapeutic settings can include supplementation in the case of a genetic deficiency, uncontrolled bleeding, surgical incisions or seepage, thrombocytopenia, soft tissue trauma or other trauma, to effect tumor regression or to inhibit tumor growth.

Description

TISSUE FACTOR COMPOSITION AND METHODS
CROSS-REFERENCE TO RELATED APPLICATIONS
[0001] This application claims benefit of United States Provisional Application No. 60/622,737, filed October 27, 2004.
STATEMENT REGARDING FEDERALLY SPONSORED RESEARCH OR DEVELOPMENT
[0002] This invention was made with government support under Grant Nos. GM33775 and R01 HL 47014 awarded by the National Institutes of Health. The government has certain rights in the invention.
BACKGROUND OF THE INVENTION
[0003] The field of this invention is the area of therapeutic nanoscale particulate compositions, in particular to formulations of improved solubility and stability for the delivery of tissue factor. These formulations can be used to kill tumors, to stop bleeding, as topical hemostatic agents and as reagents in prothrombin time assays.
[0004] Tissue factor (TF) is the integral membrane protein that triggers blood coagulation. TF is composed of two fibronectin type 3 domains, a single membrane-spanning domain, and a short cytoplasmic domain (Fig. 1A). TF is typically expressed on the cell surface. A type I integral membrane protein, TF has its N-terminus located outside the cell and its C-terminus is in the cytoplasm.
[0005] TF is abundant in adventitial cells, found exterior to the smooth muscle of blood vessels. This layer can be considered a hemostatic envelope (Drake et al. 1989. Amer. J. Pathol. 134:1087-1097). Where there is damage to a blood vessel, TF participates in the clotting cascade to form a "patch" to stop further blood loss from the vasculature. Where blood vessels contain plaque and there is a rupture of the plaque, TF participates in the formation of a hemostatic "patch" at the point of rupture. This serves as a focus for clotting, leading to further occlusion of the blood vessel at that location.
[0006] TF functions to initiate blood clotting by selectively binding one of the soluble plasma proteins (factor VII or the activated form, factor Vila) with high affinity. This results in the formation of TF:Vlla complexes on the cell surface. Factor Vila, the first enzyme in the blood clotting cascade, is a serine protease that circulates as a soluble protein in the plasma. Factor Vila is an extremely weak enzyme (low activity) unless it is bound to its protein cofactor (TF). Factor Vila is allosterically activated when it binds TF, creating an extremely potent, two subunit enzyme (TF:Vlla). The TF:Vlla complex then triggers blood clotting by proteolytically activating two plasma serine protease zymogens (factors IX and X), which then go on to propagate the clotting cascade. The ultimate result is the formation of blood clots composed of polymerized fibrin and activated platelets. TF is thought to be involved in thrombotic diseases in addition to its beneficial role in preventing blood loss from the vasculature.
[0007] Structurally, TF is a type I integral membrane protein composed of an extracellular domain, a single membrane-spanning domain and a short cytoplasmic tail. TF must be incorporated into suitable phospholipid membranes in order to exhibit maximal activity. Soluble TF is thousands of times less active than TF embedded in a suitable membrane, underscoring the essential role of membrane anchoring for TF function. In order for TF to exhibit strong procoagulant activity, the membrane or disc in which it is embedded must contain negatively charged phospholipids, desirably phosphatidylserine. There are several methods available for incorporating purified TF into phospholipid vesicles and nanoscale disc-like structures of varying composition.
[0008] Nanoscale disc-like particles comprising a membrane scaffold protein (MSP, naturally occurring or engineered) and phospholipid have been successfully used to provide stable, soluble and biologically active hydrophobic proteins. See, for example, WO 02/40501 and US Published Applications 2004/0053384 and 2005/0182243 for a thorough discussion of these particles, the structural proteins in them and their formation. These particles contain the phospholipid in the form of a disc which is surrounded by a "belt" formed of the amphiphilic membrane scaffold protein (MSP). Where there is a hydrophobic protein incorporated, it is bound in, within or to the phospholipid portion and may or may not have peripheral association with the encircling MSP. These particles are typically from about 5 to about 50 nm, usually about 5 to about 20 nm, in diameter, depending on the specific composition.
SUMMARY OF THE INVENTION
[0009] It is an object of the present invention to provide improved compositions comprising tissue factor, including but not limited to human tissue factor, which compositions are improved in stability, solubility and handling characteristics. As specifically exemplified herein, tissue factor is incorporated into nanoscale particles comprising at least one membrane scaffold protein and phospholipid, desirably but not necessarily including at least one net negatively charged phospholipid. Desirably, the phospholipid is phosphatidylserine (PS) and phosphatidylcholine (PC) at a molar ratio of 1:99 to 50:50, or from 5:95, 10:40 or 20:80. If phosphatidylethanolamine (PE) is present instead of PC, then the proportion of PS or other net negatively charged phospholipid can be lower. Where a net negatively charged phospholipid is incorporated, it can make up from 1 to 50% (molar basis) of the total phospholipid. The membrane scaffold protein can be a naturally occurring protein such as apolipoprotein A1, apolipoprotein C or E, or other predominantly amphipathic helical protein, or it can be any of a number of engineered (designed and produced by the hand of man) membrane scaffold proteins, for example as described in United States Patent Publications 2005/0182243 and 2004/0053384, both of which are incorporated by reference to the extent there is no inconsistency with the present disclosure. For coding and amino acid sequences of MSPs useful in the practice of the present invention, see Tables 4-56 herein below. Specifically exemplified MSPs include, but are not limited to, SEQ ID NO:2, SEQ ID NO: 4, SEQ ID NO:6, SEQ ID NO:8, amino acids 13-414 of SEQ ID NO:8, SEQ ID NO:10, amino acids 13-422 of SEQ ID NO:10, SEQ ID NO:12, amino acids 13-168 of SEQ ID NO:12, SEQ ID NO:14, amino acids 13-168 of SEQ ID NO:14, SEQ ID NO:16, amino acids 13-201 of SEQ ID NO:16, SEQ ID NO:17, amino acids 13-201 of SEQ ID NO:17, SEQ ID NO:18, amino acids 13- 392 of SEQ ID NO:18, SEQ ID NO:50, amino acids 13-234 of SEQ ID NO:50, SEQ ID NO:51 , amino acids 13-256 of SEQ ID NO:51 , SEQ ID NO:52, amino acids 13-278 of SEQ ID NO:52, SEQ ID NO:53, amino acids 24-223 of SEQ ID NO:53, SEQ ID NO:54, SEQ ID NO:55, amino acids 24-212 of SEQ ID NO:55, SEQ ID NO:56, SEQ ID NO:57, amino acids 24-201 of SEQ ID NO:57, SEQ ID NO:58, amino acids 13-190 of SEQ ID NO:58, SEQ ID NO:59, amino acids 13- 201 of SEQ ID NO:59, SEQ ID NO:60, amino acids 13-190 of SEQ ID NO:60, SEQ ID NO:61 , amino acids 24-201 of SEQ ID NO:61 , SEQ ID NO:62, amino acids 24-190 of SEQ ID NO:62, SEQ ID NO:63, amino acids 24-179 of SEQ ID NO:63, SEQ ID NO:64, amino acids 24-289 of SEQ ID NO:64, SEQ ID NO:65, amino acids 24-289 of SEQ ID NO:64, SEQ ID NO:65, amino acids 24-278 of SEQ ID NO:65, SEQ ID NO:66, amino acids 24-423 of SEQ ID NO:66, SEQ ID NO:67, amino acids 24-199 of SEQ ID NO:67, SEQ ID NO:68, amino acids 24- 401 of SEQ ID NO:68, SEQ ID NO:69, amino acids 24-392 of SEQ ID NO:69, SEQ ID NO:81 , amino acids 24-397 of SEQ ID NO:81 , SEQ ID NO:83, amino acids 24-383 of SEQ ID NO:83, SEQ ID NO:85, amino acids 24-379 of SEQ ID NO:85, SEQ ID NO:87, amino acids 24-381 of SEQ ID NO:87, SEQ ID NO:89, amino acids 25-212 of SEQ ID NO:89, SEQ ID NO:91 , amino acids 25- 212 of SEQ ID NO:91 , SEQ ID NO:93 and amino acids 13-212 of SEQ ID 93.
[0010] The molar ratio of phospholipid to membrane scaffold protein to tissue factor or truncated recombinant tissue factor in the mixture from which the nanoscale particles are prepared can be from about 45:1 :0.1 to about 80:1 :0.1, desirably about 50:1:0.1 to 70:1:0.1, or 65:1 :0.1 , where the membrane scaffold protein in MSP1 , rTF and a 20:80 molar ratio of PS:PC. Other phospholipid mixtures can comprise net-negative charged phospholipids (including but not limited to PS) present from 1 to 50, from 3 to 50, from 10 to 40 or 20, on a mol% basis, with the balance being net-neutral phospholipids such as phosphatidylcholine (PC) or phosphatidylethanolamine (PE). In the specifically exemplified case where an MSP is larger than MSP1, for example MSP1 E3D1, then a higher molar ratio of lipid to MSP is used (from 70:1 to 140:1, from 90:1 to 125:1 , or from 115:1). It is understood that if more than one TF (or rTF) molecule per nanoscale particle is acceptable the ratio of that TF or rTF in the preparation mixture can be higher than those specified above.
[0011] It is a further object of the present invention to provide tissue factor- containing compositions useful as topical hemostatic agents. These compositions comprise tissue factor incorporated into nanoscale particles as described above. The topical hemostatic agent can be applied to a site of trauma in a human or animal patient, or it can be applied to a surgical incision, a site of post-surgical bleeding, soft tissue trauma or to patient afflicted with hemophilia or thrombocytopenia, in an amount sufficient to control bleeding in the patient. The nanoparticles containing the tissue factor can be attached to or adsorbed onto a solid support such as to a collagen sponge or netting, or microcrystalline collagen powder, which is convenient for use at a surgical or trauma locus. Alternatively, such nanoparticles can be attached to a solid support such as beads or coated onto biologically inert particles or to materials such as ground chitin, chitosan or chitosan derivatives, which can then be applied at a trauma site in a patient or introduced into a solid tumor. In some embodiments, tissue factor is attached to solid supports so that it will not be allowed to migrate freely into and/or throughout the bloodstream, and so that it will not be washed out of a wound by hemorrhaging blood. Alternatively, the TF-containing particles can be embedded in a slow release composition.
[0012] The present invention provides a useful therapeutic composition to supplement a deficiency in the clotting system in a human or animal patient, for example, as a result of a genetic or acquired deficiency, due to chemotherapy, or as a result of inhibitory antibodies. Desirably, the tissue factor and the membrane scaffold protein in the nanoparticles are from the same species as the patient to which the composition is administered.
[0013] It is another object of the invention to provide a method for stopping bleeding in a human or animal patient, said method comprising the step of administering a therapeutic composition comprising tissue factor-containing nanoscale particles as described above to the patient in need of said treatment, in an amount sufficient to control or stop bleeding in said patient. Advantageously, the TF-containing particles are immobilized on a solid support so that migration into the bloodstream or loss of the particles from the wound site is limited.
[0014] It is further object of the invention to provide a method for killing or inhibiting growth of a tumor in a human or animal patient, said method comprising the step of administering a therapeutic composition comprising tissue factor-containing nanoscale particles as described above to the patient in need of said treatment. The tumor can be a neoplastic growth in the patient. Especially in this method, the particles further comprise a targeting agent which specifically binds to the tumor cells and tissue, including but not limited to a lectin an antibody, single chain body, or an antigen-binding antibody fragment.
[0015] It is yet another object of the invention to provide a reagent for use in prothrombin time assays, specifically nanoscale particles comprising tissue factor, as described above.
BRIEF DESCRIPTION OF THE DRAWINGS
[0016] Fig. 1A (prior art) diagrammatically illustrates the catalytically active, membrane-bound complex of TF and factor Vila. Fig. 2B diagrammatically illustrates the TF:Vlla complex bound to factor IX or X, which is activated by the proteolytic action of the TF:Vlla complex bound to the membrane.
[0017] Fig. 1 B (prior art) shows the complex of Factor Vila, TF and Factor IX or X with the relative position of the membrane.
[0018] Fig. 2 (prior art) is a simplified schematic of the clotting cascades, with the two action points of the TF:Vlla complex shown.
[0019] Fig. 3 (prior art, Neuenschwander and Morrissey. 1993. Biochemistry 34:13988-13993) shows the response of TF:Vlla to the phospholipid content.
[0020] Fig. 4A shows the results of sodium dodecyl sulfate polyacrylamide gel electrophoresis of solubilized TF-containing, MSP1 -supported nanoscale disc- like particles purified by HPLC, where those particles were prepared under different conditions. Fig. 4B shows that the ratio of TF:MSP1 is 0.51 in the nanoscale particle preparation.
[0021] Fig. 5A shows the results of gel filtration (on a Superdex 200 sizing column) of a crude preparation of nanoscale disc-like particles containing rTF that were prepared using the detergent, deoxycholate. The x-axis is retention time on the column and the y-axis is A28o- The nanoscale disc-like particles eluted from the column between 20 and 30 min. Fig. 5B shows the results of gel filtration (on a Superdex 200 sizing column) of the same preparation of nanoscale disc-like particles containing rTF shown in Fig. 5A, after they were enriched for TF-containing nanodiscs by immunoaffinity chromatography using immobilized HPC4 antibody. Note that the elution profile is more symmetrical and therefore the preparation appears to be more homogeneous than the crude nanoscale particle preparation exhibited in Fig. 5A. Fig. 5C shows the superimposition of the chromatograms from Fig. 7A and Fig. 7B.
[0022] Fig. 6 shows the clotting activity of TF-Nanodiscs containing varying proportions of PS (remainder of phospholipid is PC). Clotting time is measured as a function time.
[0023] Fig. 7 provides a comparison of the clotting activities of TF-liposomes, TF-Nanodiscs and a mixture of sTF and PCPS vesicles.
[0024] Fig.8 shows the results of SPR (Biacore 3000) analysis of factor X binding to Nanodiscs of varying phospholipid content. Nanodiscs (no TF) were prepared using mixtures of the indicated percent POPS, with the balance being POPC. The Nanodiscs were then immobilized on NTA chips via the oligohistidine tag present as part of MSP1. Factor X was flowed over the immobilized discs starting at 100 seconds (association phase) followed by buffer only at 280 seconds (dissociation phase) Nanodiscs containing 100% POPC employed as a control showed no evidence of factor X binding; they only exhibited the RU shift due to the refractive index of the factor X solution (not shown). Sensorgrams for POPC Nanodiscs run in parallel were therefore subtracted from the sensorgrams presented herein. Traces from top to bottom are 25%, 20%, 15%, 10% and 5% POPS. [0025] Fig. 9 provides a comparison of the rate of factor X activation in TF- Nanodiscs with no or with 40% (mol%) PE and varying amounts of PS in a PC background.
[0026] Fig. 10 demonstrates that factor Vila binding to TF-Nanodiscs is faster than to Nanodiscs containing only MSP and phospholipids, as measured by SPR. The upper trace is that of the TF-Nanodiscs and the lower is that for containing only MSP and phospholipids.
DETAILED DESCRIPTION OF THE INVENTION
[0027] Abbreviations used herein include DOPC, 1 , 2-dioleoyl-sn-glycero-3- phosphocholine; DOPS, 1 , 2-dioleoyl-sn-glycero-3-phosphoserine; DPPC, 1 ,2- dipalmitoyl-sn-glycero-phosphocholine; GIa, γ-carboxyglutamate; Gla-domain, Gla-rich domain; PC, phosphatidylcholine; PCPS, vesicles composed of mixtures of PC and PS, typically 80% PC, 20% PS; PE, phosphatidylethanolamine; PS, phosphatidylserine; SPR, surface plasmon resonance; sTF, soluble TF (extracellular domain of TF); TF:Vlla, the 1 :1 complex of TF and factor Vila; rTF, recombinant trucnated TF; PL, phospholipid; POPC, palmitoyl-oleoyl-sn-glycero-3-phosphatidylcholine; POPS, palmitoyl-oleoyl-sn-glycero-3-phosphatidylserine.
[0028] Tissue factor (TF) is the integral membrane protein that triggers blood coagulation (Morrissey, JH. Tissue Factor and Factor VII Initiation of Coagulation. In: Hemostasis and Thrombosis: Basic Principles and Clinical Practice (Fourth Edition), RW Colman, J Hirsh, VJ Marder, AW Clowes, and JN George, eds. (Lippincott Williams & Wilkins, Philadelphia), pp 89-101 , 2001). TF is composed of two fibronectin type 3 domains, a single membrane- spanning domain, and a short cytoplasmic domain (Fig. 1A). TF is typically expressed on the cell surface. A type I integral membrane protein, TF has its N-terminus located outside the cell and its C-terminus is in the cytoplasm.
[0029] Membrane (or Matrix) Scaffold Proteins (MSPs) as used herein may be naturally occurring, recombinant or artificial (do not occur in nature) amphiphilic proteins which self-assemble phospholipids and phospholipid mixtures into nanometer size membrane bilayers. A subset of these nanometer size assemblies are discoidal in shape, and are referred to as nanoscale discs or nanoscale disc-like particles. Typical nanoscale disc-like particles are from about 9 to about 13 nm in diameter. Such particles comprise about 65 to about 120 phospholipid molecules per side, ringed by one or more amphipathic membrane scaffold proteins, also call matrix scaffold protein. Desirably the MSPs comprise several helical domains, wherein successive helical domains are separated by a punctuation region, made up of one to five amino acids which do not favor helix formation or which tend to stop helix formation of adjacent amino acids. These assembled structures of MSP and phospholipid preserve the overall bilayer structure of normal membranes but provide a system which is both soluble in solution and can be assembled or affixed to a variety of surfaces.
[0030] An example of a naturally occurring MSP is apolipoprotein Al In addition, MSPs can be designed using helical segments of proteins other than human apolipoprotein A-1 , for example, apo A-1 of other species, or apo C, apo E, myoglobin or hemoglobin proteins of various species. Helical segments from more than one protein can be combined, with the appropriate punctuation sequences (where the punctuation sequence confers flexibility it can also be called a hinge region or hinge sequence) to form an MSP having the useful properties described herein. See Tables 4-56 below for specifically exemplified MSPs and their coding sequences. Additionally, functional MSPs can be generated by de novo protein design wherein the desired traits of amphipathic helical protein structures are produced. It is also understood that conservative amino acid substitutions can be made in the sequences specifically exemplified, with the proviso that the self-association function is maintained. Such substitution variants can be termed homologs of the specifically exemplified sequences. Various helix-forming, amphiphilic proteins of interest are described in Bolanos-Garcia et al. (2003) Progress in Biophys. Molec. Biol. 83:47-68.
[0031] It is also readily within the grasp of the skilled artisan to design other MSPs for packaging tissue factor (natural or truncated) proteins or complexes where the MSP assumes an amphophilic conformation based on beta sheets, where the amino acid sequence of the protein is punctuated so that there are regions of beta sheet forming portions separated by a flexible region of amino acids. The region of beta sheet-forming sequence is desirably from about 10 to about 30 amino acids, and the punctuation region can include from 3 to 10 amino acids, where there are antiparallel beta sheets in the MSP or from about 10 to about 30 amino acids where the beta sheets are parallel.
[0032] Functional MSPs may or may not have punctuation regions between domains of secondary structure within the protein. The punctuation region disrupts regions of secondary structure within a protein. Proline and/or glycine residues are preferred punctuation regions in a protein having helical domains. Besides disrupting a domain with a particular characteristic secondary structure, the punctuation regions can provide flexibility to the structure of a protein, especially in the case of two to three amino acids, desirably including glycine and alanine residues. A punctuation region (or sequence) can include from 5 to 30 amino acids, especially 1 or 2 when the secondary structure elements or domains are alpha helices and 3 to 10, where there are antiparallel beta sheets in the MSP.
[0033] Sequences of several apolipoproteins, hemoglobins and myoglobins are available on the internet at the site of The National Center for Biotechnology Information (NCIB), National Institutes of Health. The coding sequences can be found on the internet and used in the construction of artificial MSP coding sequences or the sequences can be tailored to optimize expression in the recombinant host cell of choice. There is a large body of information about codon choice and nontranslated sequences in the art. Apoliprotein C sequences include, without limitation, bovine, XP 77416; mouse, AAH 28816; human NP 000032; and monkey, Q28995. Myoglobin sequences include, for example, those of mouse, NP 038621; bovine, NP 776306; rat, NP 067599; and human, NP 005359. Hemoglobin alpha chain sequences include human, AAH 32122 or NP 000549; beta chain sequences include human, NP 000509 or P02023; rat, NP 150237; mouse NP032246; bovine, NP 776342. Others may be found at the NCBI website and in the scientific literature. [0034] As used herein, amphiphilic and amphipathic are used synonymously in reference to membrane scaffold proteins. An amphiphilic protein or an amphiphilic helical region of a protein is one which has both hydrophobic and hydrophilic regions.
[0035] The MSPs used in preparing the nanoscale disc-like particles of the present invention must be amphipathic, with one part of its structure more or less hydrophilic and facing the aqueous solvent and another part more or less hydrophobic and facing the center of the hydrophobic bilayer that is to be stabilized. The elements of secondary structure of the protein generate the hydrophilic and hydrophobic regions in three dimensional space. Examination of the basic biochemical literature reveals two candidate protein structures that can have this required amphipathic character: the helix and the pleated sheet. The MSPs useful in packaging TF into soluble and stable nanoscale discs have a helix as the fundamental amphipathic building block. Each MSP has an amino acid sequence which forms amphipathic helices with more hydrophobic residues (such as A, C, F, I, L, M, V, W or Y, using one letter abbreviations for amino acids as well known to the art) predominantly on one face of the helix and more polar or charged residues (such as D, E, N, Q, S, T, H, K or R and sometimes C) on the other face of the helix. In addition, each helical building block can be punctuated (but punctuation is not necessary) with residues such as proline (P) or glycine (G) periodically, which can introduce flexibility into the overall structure by interrupting the general topology of the helix. In one embodiment, these punctuations occur about every 20-25 amino acids to form "kinks" or to initiate turns to facilitate the "wrapping" of the MSP around the edge of a discoidal phospholipid bilayer. The punctuation region (or sequence) can include from one to 10 amino acids, especially 3 to 10 where there are antiparallel beta sheets in the MSP.
[0036] In order to generate smaller belts around the bilayer structure, the overall length of the helical building blocks can be reduced, and the punctuations may be introduced more frequently. The exact amino acid sequence can vary in the positioning and number of the hydrophobic amino acids within the designed linear sequence. Simple models in which either the helical axis is parallel or perpendicular to the normal of the nanoscale disc bilayer can be generated. To generate a disc with a diameter of roughly 10 nm, an MSP comprises about 12 to about 20 or more repeating units having this generalized amphipathic sequence. Preferably, this protein would be composed of amphipathic alpha helices each with a length of between 14 and 25 amino acids, punctuated in the linear sequence by a residue unfavorable for helix formation, such as praline or glycine or a sequence from about 1 to 5 amino acids which does not favor helix formation, which form small helical building blocks that stabilize the hydrophobic core of the phospholipid bilayer. A helix of about 20-25 amino acids (a small helical building block) has a length comparable to the thickness of a membrane bilayer. These small helical segments are linked together (punctuated) with from 0 to about 5, optimally 1 or 2, amino acid residues, especially G or P. To cover the edge of a 10 nm discoidal particle in either of the "belt" models presented, one would need between 10-20 such helices, with 16 being a useful number. Desirably, the helix contains from about 3 to about 18 amino acids per turn, and the type of helix can be an alpha, pi or 3,10 helix, among others. Helices with three to sixteen, three to eight, desirably three to four, amino acids per turn of the helix are useful in the present invention. An MSP of the present invention can comprise from 50 to 400 turns.
[0037] Secondary structure predictions can be determined using programs readily accessible to the art; see, for example, on the internet at the ExPASy proteomics server of the Swiss Institute of Bioinformatics. Guidance in predicting secondary structure is also given in publications such as Chou et al. (1974) Biochemistry 13:211 , 222; Chou et al. (1978) Ann. Rev Biochem. 47:251-278; Fasman (1987) Biopolymers 26(supp.):S59-S79. Where there is a dimer or higher oligomer of a protein such as a 7-TM membrane protein or where more than one protein is to be incorporated within a single nanoscale disc, for example a reductase and a cytochrome, the MSP used is ideally capable of forming a nanoscale disc-like particle with a diameter greater than 9-10 nm. Many of the examples described herein utilize MSP1 , but MSP1T2 and others can be used as well. See, e.g., US Patent Publication 2004/0053384 or US 2005/0182243 and herein below. The increasingly larger nanoscale discs are prepared using increasingly longer MSP sequences, such as MSP1E1, MSP1E2 or MSP1E3, with or without polyhistidine tags (see US 2004/0053384 and US 2005/0182243). MSP1 yields a particle 8.5 nm in diameter. MSP1E1 9.7 nm, MSP1E2, 10.9 nm and MspE3 12.1 nm, when assembled only with phospholipids. Concomitantly, the average number of DPPC (fully saturated phospholipid) molecules assembled in these particles increases from 164 ± 2 for MSP1 particles to 334 ± 12 for MSP1E3 particles. With the unsaturated phospholipids, e.g., POPC (1-palmitoyl-2-oleyoyl-sn- glycero-3-phosphocholine) the numbers of phospholipid molecules for MSP1 particles was 122 ± 10 and for MSP 1E3 particles there were 248 ± 24 molecules per disc. Without wishing to be bound by theory, it is believed that using a larger rather than a smaller MSP results in TF-containing nanoscale with improved clotting, antitumor or hemostatic activity.
[0038] In an alternative embodiment, the engineered amphiphilic MSP contains regions of secondary structure in three dimensional space, such as parallel or antiparallel beta sheets, with spacer regions of appropriate length to allow association of hydrophobic regions with a target hydrophobic molecule which is protected from the aqueous milieu, and thus stabilized and solubilized.
[0039] As specifically exemplified herein, the compositions and methods of the present invention utilize recombinant human tissue factor (rTF) that has been expressed in, and purified from, Escherichia coli, although other forms of native tissue factor and recombinant tissue factor can be used. The human rTF used in the experiments described herein differs from wild-type human TF in several ways. First, a small peptide epitope (HPC4 epitope) has been added to the N-terminus of rTF for ease of purification (Rezaie et al. 1992. Protein Express. Purif. 3: 453-460). The presence of this epitope on the N-terminus of TF does not affect its function in blood clotting. Second, all but two of the amino acids in the cytoplasmic domain of TF have been deleted (this is also termed des-cyto-TF, dcTF or rTF). The reason for removing most of the cytoplasmic domain is that it causes problems in expression and purification of rTF. The cytoplasmic domain of TF is dispensable for TF clotting functions, so there is no harm in removing this portion of TF. (See Figs. 1A-1B). Third, rTF expressed in bacteria lacks the N-linked carbohydrate chains normally found on human TF, but the carbohydrate chains are not required for TF procoagulant activity (Paborsky et al. 1989. Biochemistry 28:8072-8077).
[0040] In order for TF to have optimal activity, it must be embedded into a phospholipid (PL) membrane which contains net-negatively charged phospholipids (Neuenschwander et al. 1995. Biochemistry 34, 13988-13993). The most active negatively charged phospholipid is phosphatidylserine (PS), although other phospholipids with a net negative charge, e.g., phosphatidic acid, phosphatidylglycerol or phosphatidylinositol, can be used. However, it is not possible to prepare phospholipid bilayers composed of just PS or other net negatively charged phospholipid. Therefore, PS is mixed with a net-neutral phospholipid, usually phosphatidylcholine (PC). Typically, PS is used in these phospholipid mixtures at levels ranging from 3 to 50 mol%. Most commonly, the phospholipid preparations used in the present invention contain 20 mol% PS and 80 mol% PC. This mixture is referred to herein as PCPS. Other neutral phospholipids, such as phosphatidylethanolamine (PE), can be incorporated into the mixture in place of some of the PC. An example of such a mixture is 10 mol% PS, 40 mol% PE and 50 mol% PC. Phospholipids, purchased from Avanti Polar Lipids, Inc., Alabaster, AL, are derived from natural sources, although synthetic phospholipids can also be used.
[0041] TF functions as the cell-surface binding protein (and essential protein cofactor) for coagulation factor Vila (FVIIa). FVIIa is a trypsin-like plasma serine protease (see Fig. 3 for clotting cascade). TF binds to FVIIa with high affinity (Kd < 50 pM) and with 1 :1 stoichiometry. The TF:Vlla complex is the first enzyme in the extrinsic pathway of the blood clotting cascade, in which TF can be considered the regulatory subunit, and FVIIa the catalytic subunit. TF:Vlla activates the clotting cascade by converting two serine protease zymogens (factors IX and X) into active enzymes (factors IXa and Xa) via limited proteolysis.
[0042] The isolated extracellular domain of TF has been expressed and purified using recombinant means. This truncated protein is water-soluble, so it is often referred to as soluble tissue factor (sTF). sTF has drastically reduced procoagulant activity relative to membrane-anchored TF (Neuenschwander and Morrissey. 1992. J. Biol. Chem. 267: 14477-14482; Fiore, M. M et al. 1994. J. Biol. Chem. 269: 143-149; Paborsky et al. 1991. J. Biol. Chem. 266:21911- 21916) This underscores the importance of the membrane surface in supporting the enzymatic activity of the TF:Vlla complex.
[0043] rTF can be incorporated into supported phospholipid bilayers (nanoscale disc-like particles) in such a way as to retain procoagulant activity. To do this, it was necessary to identify conditions under which TF could be reliably inserted into the nanoscale disc bilayer. In addition, it was necessary to incorporate a mixture of negatively charged phospholipids (in this case, a mixture of PC and PS) into the supported phospholipid bilayer to insure optimal activity, although activity can be modulated (i.e., dampened) by increasing the proportion of neutral phospholipids in the core of the particle.
[0044] Initial studies were carried out to optimize PCPS nanoscale disc assembly without rTF. Our first optimization studies were aimed at determining which molar ratios of phospholipids (PL) to scaffold protein (MSP1) yielded the most homogeneous preparations of nanoscale discs when using PCPS as phospholipid. A molar ratio of 65:1 (PLMSP) gave satisfactory result, with quite homogeneous preparations of nanoscale discs, as judged by size- exclusion chromatography.
[0045] When preparing TF-Nanodiscs, we typically use molar ratios of phospholipid:MSP1:membTF of 140 : 2 : 0.2. Using a tenfold molar excess of MSP over TF means that, on average, one TF molecule is incorporated for every five Nanodiscs. This ensures that, statistically, the majority of TF- Nanodiscs contain only one TF molecule, but only about 20% of the Nanodiscs contain TF. Pure populations of TF-Nanodiscs are isolated from the Nanodisc mixture as follows. First, the products of the Nanodisc self-assembly reactions are chromatographed by size-exclusion chromatography. A small peak consisting of aggregated material elutes first and is discarded, while Nanodiscs elute between 20 and 27 min on this column and are collected. The Nanodisc fraction, which contains a mixture of Nanodiscs with and without membTF, is then subjected to immunoaffinity chromatography using immobilized HPC4 monoclonal antibody. A small epitope tag incorporated at the N-terminus of membTF facilitates purification from the E. coli expression system (Rezaie et al. 1992. Prot. Expr. Purif. 3:453-460). The HPC4 antibody binds to this peptide epitope with very high affinity in a Ca2+-dependent manner, which allows for gentle elution of the tagged protein using EDTA. The presence of this epitope tag on the N-terminus of TF has no effect on its activity. The HPC4 epitope tag enables isolation of a pure population of TF-Nanodiscs. When re- chromatographed on size-exclusion chromatography, TF-Nanodiscs elute in a much more symmetrical peak whose Stokes diameter is slightly larger than that of Nanodiscs not containing TF (Fig. 5B).
[0046] The TF and MSP content of the purified TF-Nanodisc preparation was analyzed by SDS-PAGE followed by Coomassie staining. Densitometry scanning of the lane (calibrated against known quantities of TF and MSP loaded on the same gel) revealed a 0.51 molar ratio of TF:MSP protein. Since each Nanodisc contains two MSP molecules, this equates to 1.02 TF molecules per Nanodisc. We have also quantified the TF content of Nanodisc preparations using a TF ELISA (after detergent solubilization), and by titrating a fixed concentration of factor Vila with increasing TF-Nanodisc concentrations, using the increase in factor Vila amidolytic activity as the readout. These approaches all confirm an average of one TF molecule per Nanodisc.
[0047] It was demonstrated that we could make Nanodiscs with a phospholipid composition that was known, at least in liposomes, to optimally support blood clotting reactions and that we could incorporate a single molecule of TF per Nanodisc. TF-Nanodiscs function was evaluated in plasma clotting assays using three different preparations of TF-Nanodiscs in which the PS content was varied from 10 to 30 mol% (Fig. 6). The ability of TF- Nanodiscs to shorten the clotting time of plasma in a standard Prothrombin Time (PT) clotting test was tested as a function of TF concentration. This result demonstrated that TF-Nanodiscs do indeed possess procoagulant activity, and furthermore, that 20% PS was optimal. This finding parallels the known PS-dependence of TF procoagulant activity in liposomes (Neuenschwander et al. 1995. Biochemistry 34:13988-13993). We next compared the procoagulant activity of TF-Nanodiscs (containing 20% PS) to that of TF-liposomes (also containing 20% PS), and to a mixture of sTF and phospholipid vesicles containing 20% PS (Fig. 7). These results showed that TF-Nanodiscs exhibit appreciable procoagulant activity, although their specific activity is somewhat lower than that of TF-liposomes. Interestingly, the procoagulant activity of TF-Nanodiscs was at least 100-fold higher than that of sTF. Clotting of plasma in PT assays is dependent upon the sequential functioning of two membrane-bound protease-cofactor complexes: The first is the TF:Vlla complex, and the second is the prothrombinase complex (factor Va:factor Xa complex). The procoagulant activity of TF-Nanodiscs indicates that at least the first reaction (TF:Vlla activation of factor X) can occur on the Nanodisc surface.
[0048] A comparison of sodium cholate-solubilized phospholipids vs. sodium deoxycholate-solubilized phospholipids in discs was carried out. The detergent, sodium cholate, has typically been used previously in the preparation of nanoscale disc-like particles. However, recent studies have shown that sodium cholate is a relatively poor detergent for incorporating TF into phospholipid vesicles (Smith and Morrissey. 2004. J. Thromb. Haemost. 2: 1155-1162). Sodium deoxycholate, on the other hand, works very well for reconstituting TF into PCPS vesicles. We reasoned that sodium deoxycholate may also be preferable to cholate for incorporating rTF into PCPS-containing nanoscale discs. Our studies confirmed that more homogeneous preparations of PCPS-nanoscale discs were obtained using sodium deoxycholate than sodium cholate, as determined by size-exclusion chromatography. TF, MSP, deoxycholate and phospholipids (especially 80% PC, 20% PS) are incubated together at room temperature. Detergent is removed, for example using Biobeads, and the nanoscale disc-like particles self-assemble so that the TF is biologically active and associated with the particles. Size exclusion chromatography separates unincorporated molecules and aggregates from the nanoscale-disc-like particles. Those disc-like particles containing TF which has been engineered to contain an HPC4 epitope tag can be purifying by chromatography over an immunoaffinity column to which HPC4-specific antibody is bound. [0049] While sodium deoxycholate has been used successfully in the preparation of the tissue factor-containing nanoscale particles, other detergents can be used as well. In addition to cholate and deoxycholate, other detergents can be used to assist in the incorporation of tissue factor into phospholipid bilayers, including t-octylphenoxypolyethoxyethanol (Triton X-100, Union Carbide Chemicals and Plastics Co., Inc.), n-octyl-beta-D-glucopyranoside (octylglucoside), octaethylene glycol monododecyl ether (C12E8), and nonaethylene glycol monododecyl ether (Ci2E9).
[0050] Once we had determined the optimal PLMSP ratio for preparing PCPS-nanoscale discs and had found that sodium deoxycholate was preferable to sodium cholate, we incorporated rTF into PCPS-nanoscale discs. In this experiment, a molar ratio of 65:1 :0.1 was used (PL:MSP:rTF) in the preparation mixture. This resulted in apparently homogeneous rTF-PCPS- nanoscale disc assemblies (as judged by size-exclusion chromatography). Further experiments identified an advantageous molar ratio of phospholipid:MSP:TF of 70:1 :0.1. Useful range includes from 50:1 :0.1 to 80:1 :0.1. The proportion of rTF in the mixture from which the nanoscale particles is greater where more rTF molecules on average per particle is acceptable.
[0051] Tissue factor activity of rTF containing nanoscale disc-like particles, prepared as described herein, was then studied. The nanoscale discoid particles were fractionated using size-exclusion chromatography, and the various fractions were tested for TF procoagulant activity (the ability to shorten the clotting time of pooled normal human plasma). The shortest clotting times (highest TF activity) corresponded to the major absorption peak on the chromatogram. This indicates that active rTF was successfully incorporated into the nanoscale discs. By contrast, rTF that is not incorporated into a suitable phospholipid surface has negligible activity in this clotting test.
[0052] Because the starting ratio of MSP:rTF was 1 :0.1 (i.e., a tenfold excess of MSP over rTF), and because there are two MSP molecules per nanoscale disc, it is estimated that even if one obtained 100% incorporation of rTF into discs, only about 20% of the discs would have rTF in them under these conditions. If the rate of rTF incorporation were less, then even fewer than 20% of the nanoscale discs would contain rTF. Therefore it is desirable to enrich for those nanoscale discs containing rTF. To do so, we took advantage of the HPC4 epitope tag on the N-terminus of rTF to purify the discs that contained rTF. The nanoscale disc preparation was made 5 mM in CaCI2, and then the preparation was pumped over an HPC4 column, which column consists of the monoclonal antibody HPC4 attached covalently to AffiGel beads. HPC4 binds tightly, in a calcium-dependent manner, to the HPC4 epitope. HPC4 beads can be readily used to purify recombinant proteins containing this tag (Rezaie et al. 1992. vide infra). Purified HPC4 IgG is attached to a N-hydroxysuccinimide ester chromatography matrix (AffiGel, Bio- Rad Laboratories, Hercules, CA). HPC4 IgG and HPC4 attached to beads can also be purchased from Roche Applied Science. The nanoscale discs containing rTF bind to the HPC4 column, while "empty" nanoscale discs do not bind. After washing the column to remove any unbound particles, the rTF- containing particles were eluted with buffer containing 10 mM EDTA. Some material eluted from the HPC4 column in this initial experiment; it appeared to be severely aggregated material, as determined by size-exclusion chromatography. The published procedure for purifying rTF and sTF on HPC4 columns includes a step in which the column is washed in a "high-salt" (contains 1 M NaCI) buffer just prior to elution. Without wishing to be bound by theory, it is believed that the 1 M NaCI disrupted the nanoscale discs and promoted aggregation. The HPC4 purification procedure was repeated using a fresh preparation of nanoscale discs, and the HPC4 column was washed with a buffer containing 0.1 M NaCI instead of 1 M NaCI. This was successful and yielded a homogeneous preparation of nanoscale discs that eluted at the correct position when analyzed by size-exclusion chromatography (Fig. 5B).
[0053] An experiment was carried out to examine the optimum ratio of MSP:rTF when making rTF-PCPS-nanoscale disc-like particles. As the rTF content was increased, an increasingly large shoulder on the nanoparticle peak was observed when the preparations were subjected to size-exclusion chromatography. The shoulder region elutes before the main nanoscale disc peak, and is therefore apparently larger than nanoscale discs which did not contain TF. TF procoagulant activity eluted approximately with the main disc peak. Without wishing to be bound by any particular theory, it is believed that the shoulder includes aggregated material. A ratio of 1 :0.1 MSPTTF is used routinely, but higher proportions of rTF result in greater average incorporation of rTF per particle.
[0054] Some clotting tests were carried out with unoptimized nanoscale disc preparations. The experiments showed that even the unoptimized particles had readily measurable TF procoagulant activity.
[0055] More extensive studies with optimized rTF-PCPS-nanoscale disc-like particles were conducted, including measuring the Kd for binding of factor Vila to rTF within nanoscale discs. Factor Vila binds to rTF in PCPS vesicles with a Kd <50 pM. On the other hand, it binds to sTF, or to rTF in pure PC vesicles, with a Kd of about 2 to 5 nM. The explanation for the difference in binding affinity between rTF and sTF is that the protein-protein interactions between factor Vila and TF are sufficient to provide a Kd of 2 to 5 nM. When factor Vila binds to rTF in PCPS vesicles, however, there are both protein-protein interactions (between factor Vila and TF) and protein-phospholipid interactions (between the GIa domain of factor Vila and negatively-charged phospholipids). The protein-phospholipid interactions are thought to provide additional binding energy, giving rise to the tighter Kd. We have observed that factor Vila binds to rTF-PCPS-nanoscale discs with a Kd that is also in the pM range, and is only slightly higher than that observed for binding of factor Vila to rTF in PCPS vesicles. This indicates that rTF-PCPS-nanoscale discs provide an environment for binding factor Vila that is very similar to rTF incorporated into phospholipid vesicles.
[0056] The purpose of this study was to compare the binding and enzyme kinetic properties of recombinant human tissue factor (rTF) incorporated into PCPS-nanoscale discs to rTF incorporated into PCPS vesicles. The rTF used in these studies is recombinant human tissue factor produced in bacteria. rTF was incorporated into PCPS-nanoscale discs as described, and then further purified on an HPC4 column to isolate nanoscale disc-like particles that contain rTF. For comparison purposes, rTF was also incorporated into PCPS vesicles using a Bio-Bead method (Smith and Morrissey. 2004. supra). The compositions of the two preparations are given as follows:
rTF-PCPS-nanoscale discs:
20 mol% phosphatidylserine (PS) 80 mol% phosphatidylcholine (PC) molar ratio of PLMSP was 65:1
rTF in PCPS vesicles: 20 mol% PS 80 mol% PC molar ratio of PLrTF was 8700:1
[0057] We determined the apparent Kd for binding of factor Vila to rTF in both settings using the TF-dependent enhancement of factor Vila enzymatic activity as the readout for complex formation. We also determined apparent Km and kcat values for factor X activation by the rTF:Vlla complex using either 500 pM factor Vila and 5 pM rTF. Factor X concentrations varied from 0 to 800 nM. Table 2 lists the Kd, Km, and kcat values obtained.
Table 1. Kinetic parameters for Factor X Activation
κd, app Km, app kcat
-1 (pM) (nM) (s ) rTF in PCPS vesicles 26.4 + 2.8 20.2 + 1.0 2.4 + 0.4
rTF-PCPS-nanoscale discs 65.1 + 3.7 68.6 + 4.3 1.5 + 0.3
[0058] As can be seen from this data, factor Vila bound to rTF very tightly when rTF was incorporated into either nanoscale discs or phospholipid vesicles. Both Kd values were in the low pM range, in agreement with literature values (Neuenschwander and Morrissey. 1994. J. Biol. Chem. 269: 8007- 8013). The binding of factor Vila to rTF was slightly stronger when rTF was in phospholipid vesicles compared to nanoscale discs, but in both cases the binding was sufficiently tight to ensure complete binding of factor VII to rTF at plasma concentrations of factor VII, which is approximately 10 nM (Fair. 1983. Blood 62: 784-791).
[0059] We have also measured kcat and Km values for the activation of factor X by factor Vila bound to rTF-PCPS-nanoscale discs; kinetic constants for this reaction are very similar to those of factor Vila bound to rTF in PCPS vesicles. This is another important test of the ability of factor Vila bound to rTF within nanoscale discs to function as the activating enzyme of the blood clotting system. A priori, it was unclear whether or not rTF-PCPS-nanoscale discs would be comparable to rTF in PCPS vesicles in supporting factor Vila proteolytic activity. The lipid bilayer encompassed by the nanoscale discs is relatively small, with only approximately 65 phospholipid molecules per side. This relatively tiny lipid bilayer has to bind both the enzyme (factor Vila) and the substrate (factor X) onto the same side of the nanoscale disc-like particle in order for catalysis to occur efficiently.
[0060] The Km and kcat values obtained for factor Vila bound to rTF in PCPS vesicles (given in the table above) are comparable to literature values (Fiore et al. 1994. supra). Note that the Km values for factor X activation by rTF:Vlla are given as apparent Km values because this number depends strongly on the phospholipid concentration used in the assay. The Km and kcat values obtained for the two forms of rTF:Vlla complexes were similar. Both forms of the enzyme exhibited Km values that are below the factor X concentration in plasma, indicating that they are both efficient in recognizing factor X as a substrate in plasma. The kcat value obtained with factor Vila bound to rTF- PCPS-nanoscale disc-like particles was approximately 1.6-fold lower than the value obtained for factor Vila bound to PCPS vesicles. This indicates that the rTF:Vlla complex on nanoscale discs is only slightly less active than rTF:Vlla complexes in phospholipid vesicles in converting factor X to Xa. This may be a consequence of the much smaller membrane surface available for binding factor X or Xa in a nanoscale disc of about 10 nm to about 14 nm in diameter, compared to a phospholipid vesicle of some 300 nm diameter. [0061] We have shown TF can be incorporated into Nanodiscs with high yield, and that TF-Nanodiscs can be purified from mixtures containing Nanodiscs lacking TF using immunoaffinity chromatography, providing a highly homogeneous population, containing on average one TF molecule per disc. We also showed that TF-Nanodiscs exhibit significant procoagulant activity, orders of magnitude more active in clotting assays than is the combination of sTF and PCPS vesicles. TF incorporated into Nanodiscs containing PS is highly functional, and the TF-Nanodisc system is capable of supporting membrane-dependent blood clotting reactions.
[0062] A priori, it had been uncertain whether or not TF could efficiently initiate clotting when embedded in such small membrane bilayers (approximately 65 phospholipid molecules per side) because TF, as an integral membrane protein, occupies some of the membrane surface, and factor Vila occupies a bit more, owing to interactions between its GIa domain and phospholipids. We previously quantified the ability of interactions between the factor Vila GIa domain and PS to stabilize the TF:Vlla complex (Neuenschwander and Morrissey 1994. J. Biol. Chem. 269:8007-8013). TF incorporated into pure PC vesicles binds factor Vila with a Kd in the nM range, while TF-liposomes containing 20% PS bind factor Vila with a Kd in the low pM range. Therefore, we expect that some of the PS molecules in TF-Nanodiscs are bound to factor Vila's GIa domain when the TF:Vlla complex forms on these discs.
[0063] In order for TF:Vlla complexes on TF-Nanodiscs to exhibit significant procoagulant activity, the remaining phospholipid surface must have sufficient room, and sufficient free PS, to reversibly bind protein substrates, which in the case of the clotting assay in Fig. 7 is factor X. Like factor Vila, factor X also interacts with negatively charged phospholipids including PS via its GIa domain, and these interactions are important for efficient recognition as a substrate by TF:VIIa. With conventional TF-liposomes, the apparent Km for factor X activation by the TF:Vlla complex is in the μM range in the absence of PS, but this falls to the nM range (generally, 20 to 100 nM depending upon the experimental conditions) in the presence of PS. Binding of factor X's GIa domain to PS molecules in the immediate vicinity of TF:VIIa therefore contributes to stabilizing the enzyme-substrate complex, lowering the apparent Km. The TF-Nanodisc system provides a system for analyzing highly localized protein-phospholipid interactions within the immediate vicinity of the membrane-bound enzyme and the binding characteristics of the enzyme, factor Vila, to TF-Nanodiscs, and also the binding of substrates (factors IX and X) to both Nanodiscs and TF-Nanodiscs
[0064] Two methods are used for quantifying the binding affinity of factor Vila to TF-Nanodiscs. In the first method, we use the large increase in factor Vila enzymatic activity as the readout for complex formation (see Neuenschwander and Morrissey. 1994. supra). In the second method, surface plasmon resonance (SPR) in a Biacore 3000 instrument is used to quantify association of factor Vila with TF-Nanodiscs. We have used the first method (change in enzyme activity) to quantify binding of factor Vila to TF-Nanodiscs in which the supported phospholipid bilayer contained 10, 20 or 30% PS (with the balance being PC). This was compared to binding of factor Vila to TF in liposomes containing 20% PS using the same method. Table 2 shows that factor Vila bound to TF-liposomes with a 26.4 pM Kd, which is in agreement with published values (Neuenschwander and Morrissey. 1994. supra). Factor Vila bound to TF in Nanodiscs with similarly tight Kd values (in the low pM range) when the TF-Nanodiscs contained 10, 20 or 30% PS. TF in Nanodiscs containing mixtures of PS and PC binds factor Vila with similarly high affinity with which TF in conventional liposomes binds factor Vila.
Table 2. Binding constants for TF:Vlla complexes
Factor Vila binding
Phospholipid Kd (pM)
TF-liposomes 20%PS, 80% PC 26.4 + 2.8
10%PS, 90% PC 83.7 + 6.0
TF- Nanodiscs 20%PS, 80% PC 65.1 + 3.7
30%PS, 70%PC 57.4 + 1.3 sTF about 3000 The TF-dependent enhancement of factor Vila enzymatic activity is used to quantify the binding affinity of factor Vila to TF on Nanodiscs of variable phospholipid composition and variable Nanodisc size.
[0065] SPR (Biacore) approaches are used to quantify the equilibrium binding affinities as well as association and dissociation rate constants for the binding of clotting factors to Nanodiscs of varying size and composition. Nanodiscs of a desired composition are bound to a sensorchip and then the protein of interest is allowed to flow over the Nanodisc-chip to quantify binding. While other types of immobilized phospholipid membrane surfaces can be prepared on sensorchips, immobilizing Nanodiscs has the advantage that the binding rates of various membrane-binding proteins are measured as they associate with the identical membrane surface that are used in functional studies, in solution, of the catalytic activities of membrane-bound protease complexes.
[0066] Nanodiscs can be attached to the sensorchip surface using a variety of approaches, owing to the adaptability built into the recombinant MSPs that encircle them. One approach used successfully is to simply flow Nanodiscs over an NTA chip. The MSP encircling the Nanodiscs have an oligohistidine tag engineered therein for ease of purification, and this same oligohistidine tag can be exploited to immobilize the Nanodiscs onto a Nickel-Nitriloacetic acid (NTA) chip. Nickel chelated by nitrilotriacetic acid (NTA) is pre-immobilized on a carboxymethylated dextran matrix of the sensor chip. The sensor chip can be regenerated with the use of the metal chelating compound (ethylenedinitrilo)tetraacetic acid (EDTA).
[0067] To form a more specific linkage to sensor chips, as well as one that could be used in the presence of other divalent cations, such as calcium, which can disrupt the histidine tag binding to nickel, a second method was developed. This attachment involves covalently labeling the MSP with a single-stranded DNA; a biotinylated complementary strand of DNA is bound to a sensor chip with pre-immobilized streptavidin and used to capture the DNA-tagged Nanodiscs. The heterobifunctional linker sulfosuccinimidyl 4-N- maleimidomethyl cyclohexane-1 -carboxylate (Sulfo-SMCC) has been used to bind amine-labeled DNA to the thiol group of a cysteine mutant engineered into MSPs. The same DNA has also been attached to carboxyl groups present on MSPs using (1-Ethyl-3-[3-dimethylaminopropyl]carbodiimide hydrochloride) (EDC). Both methods of DNA attachment show specific binding to the complementary strand immobilized on Biacore chips, and the chips are regenerated using a high salt solution containing sodium hydroxide which separates the strands of DNA. The use of these DNA-tagged Nanodiscs has been extended to patterning the discs on DNA chips where highly-fluorescent Nanodiscs have been arrayed and imaged upon binding to microarrayed spots of complementary DNA. When Nanodiscs with oligonucleotide-tagged MSPs are flowed over the sensorchip containing the immobilized complementary oligonucleotide, the discs become immobilized via hybridization between the complementary oligonucleotide sequences. Both approaches work well, and each approach has its own advantages.
[0068] An example of immobilizing Nanodiscs on an NTA sensorchip surface is given in Fig. 8. Nanodiscs lacking TF but containing 5 to 25% POPS (with the balance being POPC) were immobilized on NTA Biacore chips and analyzed using a Biacore 3000 instrument. Nanodiscs were loaded onto the chips at a concentration of 50 nM MSP using a flow rate of 5 μL/min. Nanodisc loading was monitored by the Biacore sensorgram and was stopped when 500 RU of discs were loaded for each sample. We chose to examine factor X binding to these immobilized Nanodiscs. Factor X was injected at a concentration of 1 μM using a flow rate of 10 μL/min. All portions of the experiment were performed using a buffer solution containing 10 mM HEPES pH 7.4, 150 mM NaCI, 2.5 mM CaCI2. Immobilized Nanodiscs containing only POPC were run simultaneously as a control and were subtracted from each sample yielding the binding curves shown in Fig. 8.
[0069] Fig. 8 demonstrates that we can successfully use Biacore analysis to study binding of vitamin K-dependent clotting factor (factor X) to immobilized Nanodiscs. As can be seen from the experiment in Fig. 8, factor X binding to the immobilized Nanodiscs depended strongly on the PS content of the supported bilayers, with both the rate and extent of binding being highest at the highest PS contents. Furthermore, dissociation rates were slowest in Nanodiscs containing the highest % PS. This system can be used to quantify the binding of factors Vila, IX and X to immobilized Nanodiscs containing varying phospholipid compositions. Data obtained from such studies are used to characterize the Nanodisc system and to provide a baseline from which to calculate affinities of both enzyme and substrate to the same membrane microenvironment enclosed within Nanodiscs, with care taken to ensure that apparent binding and dissociation rate constants are not complicated by artifacts arising from mass transport limitations and rebinding effects, for example, by limiting the quantity of Nanodiscs attached to the membrane surface and examining the effects of altering the flow rate and concentration of the ligand that is being flowed over the sensorchip. It is understood that other strategies can be employed to immobilize the nanoscale particles comprising TF, for example by anchoring via the cytoplasmic tail or truncated cytoplasmic tail of the TF, or via at least one phospholipid molecule.
[0070] We have shown that TF-Nanodiscs have substantial procoagulant activity, although their specific activities in clotting assays were somewhat lower than TF-liposomes when compared at the same TF concentrations (Fig. 7). The lower specific activity in clotting assays could be due to lower catalytic efficiency of TF:Vlla complexes on Nanodiscs compared to TF-liposomes, or it could be due to lower ability to support the prothrombinase complex, since both reactions are required in a typical PT clotting assay. We therefore examined, in preliminary experiments, how well the TF:Vlla complex activated factor X on Nanodiscs compared to TF-liposomes with the same phospholipid composition. We already showed that TF-Nanodiscs bound factor Vila with affinities that were comparable to TF-liposomes (Table 3), so we know that assembly of the TF:Vlla complex is not impaired on Nanodiscs. We therefore addressed the catalytic competence of the TF:Vlla complex toward activation of factor X. Initial rates of factor X activation were quantified using TF:Vlla complexes assembled on liposomes and Nanodiscs as a function of increasing factor X concentration. Initial estimates of the rate constants for factor X activation are given in Table 3. Table 3. Kinetic constants for TF:Vlla complexes
Factor X activation
Phospholipid Km (nM) kcat
(S 1)
TF- 20%PS, 80% PC 20.2 + 1 2.4 + liposomes 0.24
10%PS, 90% PC 131.8 + 1.4 +
12.1 0.2
TF-
Nanodiscs 20%PS, 80% PC 68.6 + 1.5 +
4.3 0.3
30%PS, 70%PC 45.2 + 1.4 +
2.4 0.3
[0071] Remarkably, TF:Vlla complexes assembled on Nanodiscs exhibited kcat values that differed from by less than a factor of two from those of TF:Vlla complexes assembled on liposomes of the same phospholipid composition. TF:Vlla complexes assembled on liposomes exhibited lower apparent Km values than did TF:Vlla complexes assembled on Nanodiscs. There was a trend toward lower Km values as the PS content of the Nanodiscs increased. The higher apparent Km values of TF-Nanodiscs compared with TF-liposomes may explain, at least in part, the somewhat lower specific procoagulant activity of TF-Nanodiscs compared with TF-liposomes in PT clotting assays. In a typical PT assay, the plasma is diluted threefold in the final clotting reaction. The plasma concentration of factor X is approximately 170 nM, so diluting the plasma in the PT clotting assay reduces its concentration to about 57 nM. This tends to exaggerate the difference in apparent specific activity between TF- liposomes and TF-Nanodiscs; therefore these clotting assays are desirably supplemented with sufficient factor X to keep its final concentration at 170 nM, as a more direct estimation of specific activities that these various TF complexes exhibit in undiluted plasma.
[0072] In summary, rTF in nanoscale discs exhibits properties that are surprisingly similar to rTF in large unilamellar vesicles. Factor Vila bound very tightly to rTF in nanoscale discs, and the rTF:Vlla complex on these discs exhibited enzyme kinetic properties that are surprisingly similar to rTF:Vlla complexes on the surface of phospholipid vesicles. These studies demonstrate the feasibility of using rTF-PCPS-nanoscale discs as nanoreactors for the activation of plasma factor X to factor Xa, thereby triggering the blood coagulation cascade.
[0073] TF (especially as rTF) formulated within nanoscale disc-like particles as described herein can be administered for killing tumors. Previous studies by others have shown that truncated recombinant TF (sTF) can be attached to a bispecific targeting antibody for delivery of sTF to the vascular bed of tumors in experimental animals, resulting in killing of the tumor (Huang et al. 1997. Science 275: 547-550). This general targeting strategy appears to work by concentrating sTF at the surface of the tumor vasculature, whereupon sTF triggers the blood clotting cascade locally, forming a thrombus that infarcts the tumor vascular bed and kills the tumor. Delivery of sTF to tumor vascular beds as a means of tumor killing has been successfully employed in a number of other model studies, which have used different targeting molecules for addressing the sTF payload to the tumor vasculature. This includes coupling sTF to antibodies to vascular cell adhesion molecule-1 (VCAM-1) (Ran et al. 1998. Cancer Res. 58: 4646-4653); coupling sTF to antibodies to the receptor for vascular endothelial growth factor (VEGFR1) (Brekken and Thorpe 2001. Anticancer Res. 21 : 4221-4229); coupling sTF to single-chain antibody fragments to fibroblast activation protein (FAP) (Rippmann et al. 2000. Biochem. J. 349: 805-812); creating a fusion protein between sTF and portions of fibronectin (Nilsson et al. 2001. Cancer Res. 61 : 711-716; Liu et al. 2004. MoI. Cancer. Then); and coupling sTF to a catalytic site inhibitor of prostate- specific antigen (PSMA) (Liu et al. 2002. Cancer Res. 62: 5470-5475). [0074] TF formulated within nanoscale disc-like particles can be targeted to the tumor vasculature using the same targeting strategies and targeting molecules as have been used to target sTF. This can be accomplished by linking the targeting antibody (or other suitable targeting molecule) directly to rTF within the nanoscale disc-like particles, or it can be accomplished by linking the targeting antibody (or other suitable targeting molecule) directly to the matrix scaffold protein within the nanoscale disc-like particles. Alternatively, targeting can be accomplished by linking the targeting antibody (or other suitable targeting molecule) to the supported phospholipid bilayers within the nanoscale disc-like particles. TF formulated within nanoscale disc- like particles has much higher procoagulant activities than sTF and therefore has superior efficacy in triggering the blood clotting cascade locally once targeted. In addition to the targeting strategies discussed above for targeting sTF to vascular beds, other targeting strategies, both general and specific, have been discussed in the scientific literature which can be utilized for targeting rTF within nanoscale disc-like particles to tumor vasculature, including bispecific antibodies, conjugates with monoclonal antibodies, recombinant single-chain antibodies, and other targeting molecules (Cao and Lam 2003. Adv. Drug Del. Rev. 55: 171-197; Trail et al. 2003. Cancer Immunol. Immunother. 52: 328-337; Carter 2001. Nat. Rev. Cancer 1 : 118- 129; Gottstein et al. 2001. Biotechniques 30: 190-194; Ruoslahti 2002 Drug Discov. Today 7: 1138-1143; and Konig et al. 2002. Endothelium 9:161-171; Ran et al. 1998. Cancer Res. 58:4646-4653).
[0075] The TF-containing particles can be administered locally to the tumor, for example, incorporated within slowly dissolved materials, or they can be administered intravenously and targeted to the tumor by incorporating targeting molecules, such as antibodies, single chain tumor-binding antibodies or tumor- binding fragments of antibodies, within the nanoscale particles so that the tumor-binding portion is external to the disc and free to bind to the target tissue. Desirably, the dose of TF administered should be about 0.5 mg TF incorporated in particles per kg body weight to about 5 mg TF incorporated in particles per kg body weight. It is preferred that a targeting molecule be included within the particle either within the MSP or TF derivative so that clotting activity is not systemic or excessive so as to cause harm to the patient to whom the particles have been administered.
[0076] Clinical situations in which excessive bleeding is encountered include surgery or trauma in patients with hereditary or acquired deficiencies in the blood clotting system. Patients with such deficiencies include patients with thrombocytopenia and hemophilia (patients lacking factor VIII or IX), especially patients who have developed inhibitory antibodies against therapeutically administered factor VIII or IX. Current therapies for such refractory patients include injection of coagulation factor concentrates or recombinant factor Vila, which are generally very expensive (Carr and Martin, 2004. Expert Rev. Cardiovasc. Ther. 2: 661-674). Additionally, bleeding (especially surgical bleeding) is sometimes treated using topical hemostatic agents such as collagen sponges, oxidized cellulose, chitosan derivatives, and "fibrin glue" (which contains a mixture of thrombin, fibrinogen and factor XIII). Topical agents containing materials like collagen, cellulose or chitosan are designed to activate blood platelets and stimulate vasoconstriction, both of which can facilitate hemostasis. Additionally, these agents may be used in conjunction with thrombin or "fibrin glue" to stimulate the formation of cross-linked fibrin in order to enhance the formation of hemostatic plugs, thereby helping to control bleeding (Pusateri et al. 2003. J. Trauma 55: 518-526; Softer et al. 2003. Oral Surg. Oral Med. Oral Pathol. Oral Radiol. Endod. 95: 521-528). TF in a suitable phospholipid membrane is the most potent known initiator of blood clotting and, because of its extremely potent procoagulant activity, would be advantageous to incorporate into topical hemostatic agents in place of thrombin. However, phospholipid vesicles containing TF are relatively unstable and are difficult to immobilize onto solid surfaces. Nanoscale, disc-like particles comprising a membrane scaffold protein, on the other hand, are known to be stable after lyophilization and they can be attached to solid supports via crosslinking between the membrane scaffold protein and sites on the solid support matrices. It would therefore be highly desirable to immobilize nanoscale particles comprising TF in or on topical hemostatic agents in order to stop bleeding. [0077] The present invention provides nanoscale particles comprising TF, which can be applied topically, either alone or administered bound to a solid support, desirably a macroscopic support material, such as a collagen sponge, microcrystalline collagen, chitosan derivatives, cellulose or latex beads, in applications of nanoscale disc-like particles containing TF (or rTF) as described herein for controlling bleeding. An example of a cellulosic material useful in the present context is a gauze used in bandages or wound dressings. An example of topical application of nanoscale particles comprising TF alone is a mouthwash containing a suspension of such particles, which can be used to control bleeding in the oral cavity following dental surgery. In other examples, nanoscale particles comprising TF in which the nanoscale particles are bound to solid support matrices can be applied to surgical sites and sites of trauma in order to activate the blood clotting cascade locally. In these settings, immobilization of nanoscale particles comprising TF has the additional advantage that the TF particle is not washed out of the wound site by hemorrhaging blood, and furthermore, that the TF particle is not readily released back into the circulation of the patient. Similarly, such bound TF can be advantageously administered to a patient who does not suffer from a hemophilia but who is experiencing bleeding due to trauma or surgery or any other reason. The target incorporated into the nanoscale disc-like particles can be attached to the surface of a solid support, including collagen sponges or other macroscopic pieces, microcrystalline collagen, or latex beads, in a variety of ways. The first is the easiest and nonspecific way, which is to rely on physisorption to the surface of the material using either hydrophobic or electrostatic forces. More stable incorporation or attachment can be via covalent bonding. This can be accomplished through chemical cross-linking between the scaffold protein and the solid support. There are a number of chemical cross-linking reagents that can be used to form covalent crosslinks between the scaffold protein and the support matrix, including homobifunctional amine reagents such as glutaraldehyde, bis(imido esters), and bis(succinimidyl esters), and heterobifunctional reagents such as 1-ethyl-3-[3- dimethylaminopropyl]carbodiimide hydrochloride. The nanoscale disc-like particles can also be immobilized through incorporation of derivatized phospholipids or fatty acyl chains, or including biotinylated phospholipids, which can then be attached to the support matrix via interaction with immobilized avidin or streptavidin. The TF is bound to a collagen sponge or similar solid support at a density of from about 1 ng to about 100 μg rTF (incorporated in nanoscale particles) per gram (dry weight) of solid support matrix. The use of a cysteine-containing MSP allows the use of a heterofunctional cross linker where one reactive group reacts with a free sulfhydryl to effect bonding the TF particle to the solid material (such as a collagen sponge). Descriptions of immobilization reactions using bifunctional cross linking molecules are given herein.
[0078] Alternatively, the particles containing the TF can be injected intravenously and targeted to adhesion molecules that are exposed on activated platelets or to other molecules such as collagen or tissue adhesive proteins that are not normally exposed to blood in intact blood vessels but are exposed to blood at sites of wounds. This can be achieved by binding or crosslinking a targeting antibody or other targeting agent to the MSP with nanoscale particles containing TF, although care must be taken to avoid excessive or uncontrolled clotting factor activation in circulation.
[0079] In addition to hemophiliac patients, other patients subject to excessive bleeding can also benefit from the administration, especially local administration, of nanoscale particles containing TF. Victims of accidents or other traumatic injuries or surgical patients, including but not limited to liver surgery patients, can be treated with the particles of the present invention. Other types of patients who can be treated by administration of nanoscale particles containing TF to control bleeding include patients with acquired or congenital coagulopathies including patients with thrombocytopenia, sepsis, liver failure, disseminated intravascular coagulation, and other coagulopathies.
[0080] The target incorporated into nanoscale disc-like particles can be attached to a surface, either a sponge or latex bead, in one of three ways. The first, easiest but also non-specific, is to rely on physisorbtion to the material using either hydrophobic or electrostatic forces. More stable incorporation is via covalent linkages. This can be accomplished through crosslinking with the scaffold protein or through incorporation of labeled phospholipids or fatty acyl chains.
[0081] An additional application of the TF-containing nanoscale disc-like particles of the present invention is as a reagent in Prothrombin Time (PT) assays which are employed to screen for defects in the blood clotting system and to monitor patients who are being treated with anticoagulants. This assay uses a source of TF activity (a thromboplastin reagent) to trigger clotting of blood or plasma in vitro, and the time interval between adding the TF reagent and the formation of the blood or plasma clot is the PT value. Previously, the thromboplastin reagent was simply an extract of homogenized tissue, most commonly animal or human brain or human placenta. More recently recombinant thromboplastins have been developed based on purified recombinant human or rabbit TF that has been reconstituted into suitable phospholipid vesicles. TF-containing nanoscale discs-like particles can be used as the thromboplastin reagent in PT assays. They have the advantages of stability to aggregation in aqueous environments as well as excellent stability of the procoagulant activity of TF in these particles.
[0082] TF can be embedded into the phospholipid portion of membrane scaffold protein-supported nanoscale disc-like particles by virtue of the interaction of the membrane-spanning domain of TF with the phospholipid of the particles. The nanoscale particles provide the necessary phospholipid surface to support the TF:Vlla enzymatic activity. Clearly, TF in the nanoscale discs can bind and allosterically activate factor Vila, because the resultant discs exhibit strong procoagulant activity. It is also clear from the clotting studies that the TF:Vlla complex in the nanoscale particles can proteolytically activate its natural substrate, factor X. The TF in the nanoscale particles provides a unique way to deliver and control TF activity. The procoagulant activity of TF can, for example, be controlled by modulating the content of negatively charged phospholipids in the nanoscale disc-like particles.
[0083] To study the half-life in circulation, fluorescein-labeled nanoscale discs, which served as a model for rTF-containing discs, were prepared using MSP1 and phospholipid (PSPC 80:1) and injected intravenously into a rat. Based on measurement of the absorbance at 280 nm, 20.6 μM particles (about 255 μg particles) were injected in a 0.5 ml bolus. The estimate based on absorbance at 497 nm was 16.7 μM particles, with an assumption of 2 molecules fluorescein conjugated per particle. The rats used were about 200 g, with an estimated blood volume of about 13 ml. 0.2 ml aliquots of blood were taken at time intervals after injection. The blood was collected into dry heparin, with a final concentration of heparin of 333 U/ml. The heparinized blood was centrifuged to remove cells, and the emission of fluorescein was measured at 520 nm. The estimated half-life of the particles in circulation was about 5.5 hours. The equation describing the persistence in circulation is y = -0.055x + 1.64; R2 = 0.9663.
[0084] Recombinant tissue factor consists of an extracellular domain, a transmembrane anchor and a truncated cytosolic domain. The truncation increases the homogeneity of the protein by removing the C-terminal portions of the protein which are subject to proteolysis by bacterial enzymes, but this modification does not affect TF activity. Additional modifications to the protein include an N-terminal trafficking peptide and an HPC4 epitope tag. The trafficking peptide directs the expressed protein to the intermembrane space of the recombinant E. coli host cell, in which space the peptide sequence is cleaved. The HPC4 epitope allows for affinity purification with Ca2+ dependent antibody (Rezaie et al., 1992) and does not affect TF activity.
[0085] rTF-containing nanoscale disc-like particles can be prepared using cholate and dialysis as follows. A 25 mM lipid mixture containing 80% phosphatidylcholine and 20% phosphatidylserine was solubilized with 50 mM sodium cholate in 10 mM Tris Cl1 150 mM NaCI at pH 8.0. TF, MSP1 and phospholipid (in a ratio of 1 :10:1000) were combined and incubated overnight at 370C. The sample was then dialyzed at 370C (10,000 dalton molecular weight cutoff membrane) against buffer containing 10 mM Tris Cl, 150 mM NaCI at pH 8.0 (lacking sodium cholate) for 2 hours. Dialysis was then continued at 40C for an additional 6 hours with buffer changes every 2 hours. The approximately 1 ml sample was then concentrated to <250 μl using a YM- 10 centrifuge concentrator and injected into a Pharmacia 10/30 Superdex 200 HR gel filtration column. Samples were eluted with buffer identical to that described above (no sodium cholate) at 0.5 ml per minute. Fractions from chromatography were run on an 8-25% gradient SDS polyacrylamide gel to determine apparent size and then checked for coagulation activity. The chromatogram showing elution of TF incorporated into an excess population of MSP1 nanoscale discs is shown in Figs. 4A-4B.
[0086] The activity of TF in several disc fractions was determined by coagulation assays with human plasma. Activity was monitored in fractions 25- 28 as the inverse of coagulation time. Activity was highest in fraction 25 at 40 and decreased through fraction 28 at 30 hr"1. This is expected from the size chromatogram in that the leading edge of the nanoscale disc peak has a larger effective mass due to the incorporation of TF in the MSP-supported bilayer. This assay thus demonstrates that TF is incorporated into nanoscale discs in an active conformation and that the membrane environment of the nanoscale disc closely mimics that of the native membrane system.
[0087] Alternatively, rTF-containing nanoscale disc-like particles can be prepared using deoxycholate and Bio-Beads as follows. Purified phospholipids for these studies were obtained from Avanti Polar Lipids (Alabaster, AL) and consisted of egg yolk L-α-phosphatidylcholine (PC) and porcine brain L-α- phosphatidylserine (PS), both of which were provided as solutions in chloroform. Before use, aliquots of the phospholipid solutions were dispensed into a glass test tube and the chloroform was evaporated under a stream of nitrogen. To ensure the removal of any traces of remaining chloroform, the dried-down lipids were placed under high vacuum overnight. The next day, the dried phospholipids were dissolved in a solution of 10.4 mM sodium deoxycholate in TBS buffer (50 mM Tris Cl, 100 mM NaCI, 0.1% sodium azide at pH 7.5) to yield a final concentration of 5.2 mM total phospholipid, with sonication being used to facilitate the complete solubilization of the phospholipids. Typically, the phospholipids were mixed to give 80% PC and 20% PS (abbreviated PCPS). Recombinant human TF (rTF) was combined with the solubilized lipid mixture and incubated for 1 hour at room temperature, after which MSP1 was added and incubated at room temperature for an additional 4 hours. The final reaction mixture contained 8 μM rTF and 80 μM MSP1 , with a molar ratio of rTF to MSP1 to total phospholipid of 1 :10:650. The deoxycholate detergent was then selectively removed from the sample by adsorption to Bio-Beads SM2 (Bio-Rad Laboratories, Hercules, CA). This was achieved by adding 0.5 mg washed Bio-Beads per ml of sample and incubating for an additional hour at room temperature with gentle agitation on a rocking platform. The Bio-Beads were then removed by filtration through a 0.22 μM sterilizing filter, yielding a crude preparation of rTF in nanoscale disc-like particles. The sample was then injected into a gel filtration column (10/30 Superdex 200 HR, Pharmacia, Piscataway, NJ). Samples were eluted with TBS buffer at 0.5 ml per minute and the elution profile monitored by A28o- Fractions from chromatography were analyzed using an 8-25% gradient SDS polyacrylamide gel to determine apparent size and protein content, and then checked for procoagulant activity. The chromatogram showing elution of rTF incorporated into an excess population of MSP1 nanoscale discs is shown in Fig. 7A.
[0088] When desired, the rTF-containing nanoscale discs were further purified by immunoaffinity chromatography using the calcium-dependent antibody, HPC4, essentially as described (Rezaie, A.R. et al. 1992. Protein Expr. Purif. 3:453-460), except that the wash step with 1 M NaCI was not performed because this appeared to disrupt the integrity of the nanodiscs. This purification method takes advantage of the fact that the peptide epitope for the HPC4 antibody was engineered into the N-terminus of recombinant TF. It resulted in an essentially pure population of nanodiscs into which rTF was embedded. When a sample of this highly purified material was rechromatographed on a 10/30 Superdex 200 HR gel filtration column, it eluted as a single, highly homogeneous peak.
[0089] The procoagulant activity of TF in disc fractions was determined by clotting assays with pooled human plasma essentially as described (Smith, SA and Morrissey, J. H. 2004. J. Thromb. Haemost. 2:1155-1162).
[0090] Derivatives of MSP that have a single cysteine residue engineered into the "belt" surrounding Nanodiscs have been designed and prepared. These single cysteine residues have successfully been used to attach compounds that react with sulfydryls, allowing the incorporation of desired chemical functionalities onto Nanodiscs at defined spatial locations. A heterobifunctional crosslinker can be attached to these SH groups. An example of such a crosslinker is APDP (N-[4-(p-Azidosalicylamido) butyl]-3'-(2'- pyridyldithio)propionamide), available from Pierce Biotechnology, Inc., Rockford, IL. TF-Nanodiscs are prepared using these cysteine-containing versions of MSP by the same methodology as for preparing TF-Nanodiscs using conventional MSP. After TF-Nanodiscs are prepared, they are reacted with APDP as follows (with all of the following steps carried out in the dark): First, 3 mg APDP is dissolved in 50 μl of dimethylsulfoxide (DMSO). Then, 1 microliter of the APDP/DMSO solution is added to 199 μl of phosphate- buffered saline (PBS: 20 mM sodium phosphate, 150 mM NaCI, pH 7.2). The crosslinking reaction is commenced by mixing 0.1 ml of the APDP/PBS solution to 0.3 ml of a preparation of TF-Nanodiscs that had previously been dialyzed into 0.1 M sodium borate buffer, pH 8.4, and allowing the reaction mixture to incubate for 30 minutes at room temperature in the dark. (The TF-Nanodisc preparation in borate buffer can contain up to 2 mg/ml MSP, in order to maintain an excess of APDP over MSP to ensure complete labeling.) Excess unreacted APDP is then separated from labeled TF-Nanodiscs by applying the mixture to a desalting column, such as a D-SaIt Execellulose Desalting Column (Pierce Biotechnology, Inc.), that has previously been equilibrated with PBS. TF-Nanodiscs elute in the void volume of such desalting columns, yielding TF- Nanodiscs that are specifically derivatized with APDP on the cysteine residues in the MSP protein.
[0091] The APDP-labeled TF-Nanodiscs can be immobilized onto solid supports by photoactivatable crosslinking as follows: The APDP-labeled TF- Nanodiscs are mixed in the dark with the substance to which they are to be crosslinked (for example, collagen sponges). The mixture is then irradiated with an ultraviolet light (302 nm) for 5 minutes at a distance of 3.5 cm at room temperature. Ultraviolet light activates the hydroxyphenyl azide functional group of APDP, allowing it to react covalently and non-selectively with proteins or other organic compounds. Any TF-Nanodiscs that fail to react with the collagen sponge are removed by gentle washing of the sponges with PBS. Once the APD-labeled TF-Nanodiscs have been crosslinked to a solid support, they can be handled in the light.
[0092] Examples of publications using APDP to react with free cysteine residues of target proteins, and then crosslinking the derivatized protein to other molecules include, without limitation, Yasui N, and Koide T. J. Am. Chem. Soc. 125:15728-15729, 2003 and van Voorst et al. FEBS Lett. 486:57- 62, 2000.
[0093] As an alternative to using MSPs with engineered cysteine residues, conventional TF-Nanodiscs (that is, using conventional MSP that do not contain cysteines) can also be immobilized onto solid supports using amine- reactive crosslinking agents such as Sulfo-SASD (Sulfosuccinimidyl-2-[p- azidosalicylamido]ethyl-1 ,3'-dithiopropionate), also available from Pierce. Sulfo-SASD is reacted with TF-Nanodiscs in the dark according to the manufacturer's directions, which allows the crosslinker to react with primary amines present on the TF-Nanodiscs. The derivatized TF-Nanodiscs are then reacted with solid supports such as collagen sponges using ultraviolet light as above. The final result is immobilized TF-Nanodiscs. This method is slightly less preferable since the site of attachment of the crosslinker to the TF- Nanodiscs cannot be as precisely controlled as with the combination of MSP containing cysteine residues and a sulfhydryl-specific crosslinker such as APDP.
[0094] For targeting TF-Nanodiscs to specific anatomic sites in vivo, it is desirable to attach targeting sequences to the TF-Nanodiscs. Targeted TF- Nanodiscs can be used to confer hemostasis or to induce the formation of an occlusive thrombus in the vasculature of a tumor, killing it by infarction. This depends on the in vivo location to which the TF-Nanodiscs are targeted.
[0095] Targeting of TF-Nanodiscs to specific in vivo locations can be accomplished in several ways. Monoclonal antibodies specific for desired in vivo targets can be chemically cross-linked to the TF-Nanodiscs using the Sulfo-SASD or APDP crosslinkers as described above. In this case, the crosslinker is first attached to the TF-Nanodiscs using the same methodology described above for immobilizing TF-Nanodiscs on solid supports. Once the crosslinker is attached to TF-Nanodiscs, the purified targeting antibody IgG is added and crosslinking between the TF-Nanodiscs and IgG molecules is initiated by exposing the reaction mixture to ultraviolet light as described above and according to the manufacturer's instructions. Alternatively, fusion proteins between a targeting molecule (such as the antibody combining regions of monoclonal antibodies) and either TF or MSP can be created in order to target TF-Nanodiscs to desired in vivo locations. This can be accomplished as has been described previously by others for making fusion proteins between targeting antibodies and a truncated form of TF (soluble tissue factor, or sTF). In the present invention, however, the membrane-anchored form of TF is used for preparing the fusion proteins. The targeting molecule can be fused either to the N- or C-terminus of membrane TF. As an alternative, the targeting molecule can be fused to either the N- or C-terminus of MSP. The advantages to using fusion proteins with MSP instead of TF is that there is less likelihood of steric hindrance between the TF fusion protein and its ligands (factors Vila, IX and X) when the targeting molecule is attached to MSP. Alternatively, attaching the targeting molecule to the C-terminus of TF (which is uniquely accessible to the solution in TF-Nanodiscs but not in TF-liposomes) is expected also to avoid problems with steric hindrance, since the targeting molecule is on the other side of the membrane bilayer relative to the ligand binding surface of TF.
[0096] Published examples describing how to prepare such targeting molecules using fusion proteins with sTF include Hu et al. 2003. Cancer Res. 63:5046-5053; Nilsson et al. 2001. Cancer Res. 61 :711-6; Rippmann et al. 2000. Biochem J. 349 Pt 3:805-812. Examples of specific targeting molecules that can be used to target TF-Nanodiscs include antibody sequences chTNT-3 and chTV-1 (Hu et al. 2003); antibody sequence scFV(L19) (Nilsson et al. 2001) and antibody sequence scSV OS4 (Rippmann et al. 2000); RGD peptide sequence (for example, the amino acid sequence CDCRGDCFC, using the single amino acid abbreviations) (Hu et al. 2003). Any of these targeting molecules could be fused to the N- or C-terminus of either membrane TF or MSP. An important advantage of targeting TF-Nanodiscs instead of sTF using such fusion proteins or cross-linked proteins is the much greater procoagulant activity of TF-Nanodiscs compared with sTF.
[0097] The following provides numerous sequences of specifically exemplified MSPs (including the precursor of the naturally occurring apolipoprotein A1) and their coding sequences which could be employed in preparing the TF- nanoscale disc-like particles of the present invention.
Table 4. ProApo A-I coding sequence (SEQ ID NO:1) Restriction sites used in cloning are underlined, and the translation start and stop signals are shown in bold.
CCATGGCCCATTTCTGGCAGCAAGATGAACCCCCCCAGAGCCCCTGGGATCGA
GTGAAGGACCTGGCCACTGTGTACGTGGATGTGCTCAAAGACAGCGGCAGAGA
CTATGTGTCCCAGTTTGAAGGCTCCGCCTTGGGAAAACAGCTAAACCTAAAGCT
CCTTGACAACTGGGACAGCGTGACCTCCACCTTCAGCAAGCTGCGCGAACAGC
TCGGCCCTGTGACCCAGGAGTTCTGGGATAACCTGGAAAAGGAGACAGAGGG
CCTGAGGCAAGAGATGAGCAAGGATCTGGAGGAGGTGAAGGCCAAGGTGCAG
CCCTACCTGGACGACTTCCAGAAGAAGTGGCAGGAGGAGATGGAGCTCTACCG
CCAGAAGGTGGAGCCGCTGCGCGCAGAGCTCCAAGAGGGCGCGCGCCAGAA
GCTGCACGAGCTGCAAGAGAAGCTGAGCCCACTGGGCGAGGAGATGCGCGAC
CGCGCGCGCGCCCATGTGGACGCGCTGCGCACGCATCTGGCCCCCTACAGCG
ACGAGCTGCGCCAGCGCTTGGCCGCGCGCCTTGAGGCTCTCAAGGAGAACGG
CGGCGCCAGACTGGCCGAGTACCACGCCAAGGCCACCGAGCATCTGAGCACG
CTCAGCGAGAAGGCCAAGCCCGCGCTCGAGGACCTCCGCCAAGGCCTGCTGC
CCGTGCTGGAGAGCTTCAAGGTCAGCTTCCTGAGCGCTCTCGAGGAGTACACT
AAGAAGCTCAACACCCAGTAATAAGCTT
Table 5. ProApo A-I amino acid sequence (SEQ ID NO:2)
MAHFWQQDEPPQSPWDRVKDLATVYVDVLKDSGRDYVSQFEGSALGKQLNLKLL
DNWDSVTSTFSKLREQLGPVTQEFWDNLEKETEGLRQEMSKDLEEVKAKVQPYLD
DFQKKWQEEMELYRQKVEPLRAELQEGARQKLHELQEKLSPLGEEMRDRARAHV DALRTHLAPYSDELRQRLAARLEALKENGGARLAEYHAKATEHLSTLSEKAKPALE DLRQGLLPVLESFKVSFLSALEEYTKKLNTQ
Table 6. Histidine-tagged MSP1 coding sequence (SEQ ID NO:3). Restriction sites used in cloning are underlined, and the translation start and stop signals are shown in bold.
TATACCATGGGCCATCATCATCATCATCATATAGAAGGAAGACTAAAGCTCCTT
GACAACTGGGACAGCGTGACCTCCACCTTCAGCAAGCTGCGCGAACAGCTCGG
CCCTGTGACCCAGGAGTTCTGGGATAACCTGGAAAAGGAGACAGAGGGCCTGA
GGCAGGAGATGAGCAAGGATCTGGAGGAGGTGAAGGCCAAGGTGCAGCCCTA
CCTGGACGACTTCCAGAAGAAGTGGCAGGAGGAGATGGAGCTCTACCGCCAG
AAGGTGGAGCCGCTGCGCGCAGAGCTCCAAGAGGGCGCGCGCCAGAAGCTG
CACGAGCTGCAAGAGAAGTTGAGCCCACTGGGCGAGGAGATGCGCGACCGCG
CGCGCGCCCATGTGGACGCGCTGCGCACGCATCTGGCCCCCTACAGCGACGA
GCTGCGCCAGCGCTTGGCCGCGCGCCTTGAGGCTCTCAAGGAGAACGGCGGC
GCCAGACTGGCCGAGTACCACGCCAAGGCCACCGAGCATCTGAGCACGCTCA
GCGAGAAGGCCAAACCCGCGCTCGAGGACCTCCGCCAAGGCCTGCTGCCCGT
GCTGGAGAGCTTCAAGGTCAGCTTCCTGAGCGCTCTCGAGGAGTACACTAAGA
AGCTCAACACCCAGTAATAAGCTTGC
Table 7. Histidine-tagged MSP1 amino acid sequence (SEQ ID NO:4)
MGHHHHHHIEGRLKLLDNWDSVTSTFSKLREQLGPVTQEFWDNLEKETEGLRQEM SKDLEEVKAKVQPYLDDFQKKWQEEMELYRQKVEPLRAELQEGARQKLHELQEKL SPLGEEMRDRARAHVDALRTHLAPYSDELRQRLAARLEALKENGGARLAEYHAKA TEHLSTLSEKAKPALEDLRQGLLPVLESFKVSFLSALEEYTKKLNTQ
Table 8. Non-Histidine-tagged MSP1 DNA sequence (SEQ ID NO:5). Restriction sites used in cloning are underlined, and the translation start and stop signals are shown in bold.
TACCATGGCAAAGCTCCTTGACAACTGGGACAGCGTGACCTCCACCTTCAGCA
AGCTGCGCGAACAGCTCGGCCCTGTGACCCAGGAGTTCTGGGATAACCTGGAA
AAGGAGACAGAGGGCCTGAGGCAGGAGATGAGCAAGGATCTGGAGGAGGTGA
AGGCCAAGGTGCAGCCCTACCTGGACGACTTCCAGAAGAAGTGGCAGGAGGA
GATGGAGCTCTACCGCCAGAAGGTGGAGCCGCTGCGCGCAGAGCTCCAAGAG GGCGCGCGCCAGAAGCTGCACGAGCTGCAAGAGAAGTTGAGCCCACTGGGCG
AGGAGATGCGCGACCGCGCGCGCGCCCATGTGGACGCGCTGCGCACGCATCT
GGCCCCCTACAGCGACGAGCTGCGCCAGCGCTTGGCCGCGCGCCTTGAGGCT
CTCAAGGAGAACGGCGGCGCCAGACTGGCCGAGTACCACGCCAAGGCCACCG
AGCATCTGAGCACGCTCAGCGAGAAGGCCAAACCCGCGCTCGAGGACCTCCG
CCAAGGCCTGCTGCCCGTGCTGGAGAGCTTCAAGGTCAGCTTCCTGAGCGCTC
TCGAGGAGTACACTAAGAAGCTCAACACCCAGTAATAAGCTTGC
Table 9. Non-Histidine-tagged MSP1 amino acid sequence (SEQ ID NO:6).
MAKLLDNWDSVTSTFSKLREQLGPVTQEFWDNLEKETEGLRQEMSKDLEEVKAKV QPYLDDFQKKWQEEMELYRQKVEPLRAELQEGARQKLHELQEKLSPLGEEMRDR ARAHVDALRTHLAPYSDELRQRLAARLEALKENGGARLAEYHAKATEHLSTLSEKA KPALEDLRQGLLPVLESFKVSFLSALEEYTKKLNTQ
Table 10. MSP2 (with histidine tag, without long linker) DNA sequence (SEQ ID NO:7). The translation start and stop codons are in bold type, and the restriction endonuclease recognition sites used in cloning are underlined.
TATACCATGGGCCATCATCATCATCATCATATAGAAGGAAGACTAAAGCTCCTT
GACAACTGGGACAGCGTGACCTCCACCTTCAGCAAGCTGCGCGAACAGCTCGG
CCCTGTGACCCAGGAGTTCTGGGATAACCTGGAAAAGGAGACAGAGGGCCTGA
GGCAGGAGATGAGCAAGGATCTGGAGGAGGTGAAGGCCAAGGTGCAGCCCTA
CCTGGACGACTTCCAGAAGAAGTGGCAGGAGGAGATGGAGCTCTACCGCCAG
AAGGTGGAGCCGCTGCGCGCAGAGCTCCAAGAGGGCGCGCGCCAGAAGCTG
CACGAGCTGCAAGAGAAGCTGAGCCCACTGGGCGAGGAGATGCGCGACCGCG
CGCGCGCCCATGTGGACGCGCTGCGCACGCATCTGGCCCCCTACAGCGACGA
GCTGCGCCAGCGCTTGGCCGCGCGCCTTGAGGCTCTCAAGGAGAACGGCGGC
GCCAGACTGGCCGAGTACCACGCCAAGGCCACCGAGCATCTGAGCACGCTCA
GCGAGAAGGCCAAGCCCGCGCTCGAGGACCTCCGCCAAGGCCTGCTGCCCGT
GCTGGAGAGCTTCAAGGTCAGCTTCCTGAGCGCTCTCGAGGAGTACACTAAGA
AGCTCAACACCCAGGGTACCCTAAAGCTCCTTGACAACTGGGACAGCGTGACC
TCCACCTTCAGCAAGCTGCGCGAACAGCTCGGCCCTGTGACCCAGGAGTTCTG
GGATAACCTGGAAAAGGAGACAGAGGGCCTGAGGCAGGAGATGAGCAAGGAT
CTGGAGGAGGTGAAGGCCAAGGTGCAGCCCTACCTGGACGACTTCCAGAAGA
AGTGGCAGGAGGAGATGGAGCTCTACCGCCAGAAGGTGGAGCCGCTGCGCGC
AGAGCTCCAAGAGGGCGCGCGCCAGAAGCTGCACGAGCTGCAAGAGAAGCTG
AGCCCACTGGGCGAGGAGATGCGCGACCGCGCGCGCGCCCATGTGGACGCG
CTGCGCACGCATCTGGCCCCCTACAGCGACGAGCTGCGCCAGCGCTTGGCCG
CGCGCCTTGAGGCTCTCAAGGAGAACGGCGGCGCCAGACTGGCCGAGTACCA
CGCCAAGGCCACCGAGCATCTGAGCACGCTCAGCGAGAAGGCCAAGCCCGCG
CTCGAGGACCTCCGCCAAGGCCTGCTGCCCGTGCTGGAGAGCTTCAAGGTCA
GCTTCCTGAGCGCTCTCGAGGAGTACACTAAGAAGCTCAACACCCAGTAATAA
GCTTGC
Table 11. MSP2 (with histidine tag, without long linker) amino acid sequence (SEQ ID NO:8)
MGHHHHHHIEGRLKLLDNWDSVTSTFSKLREQLGPVTQEFWDNLEKETEGLRQEM
SKDLEEVKAKVQPYLDDFQKKWQEEMELYRQKVEPLRAELQEGARQKLHELQEKL
SPLGEEMRDRARAHVDALRTHLAPYSDELRQRLAARLEALKENGGARLAEYHAKA
TEHLSTLSEKAKPALEDLRQGLLPVLESFKVSFLSALEEYTKKLNTQGTLKLLDNWD
SVTSTFSKLREQLGPVTQEFWDNLEKETEGLRQEMSKDLEEVKAKVQPYLDDFQK KWQEEMELYRQKVEPLRAELQEGARQKLHELQEKLSPLGEEMRDRARAHVDALR THLAPYSDELRQRLAARLEALKENGGARLAEYHAKATEHLSTLSEKAKPALEDLRQ GLLPVLESFKVSFLSALEEYTKKLNTQ
Table 12. MSP2L(with histidine tag, with long linker) DNA sequence (SEQ ID NO:9). Translation start and stop codons are in bold type; restriction endonuclease sites used in cloning are underlined.
TACCATGGGCCATCATCATCATCATCATATAGAAGGAAGACTAAAGCTCCTTGA
CAACTGGGACAGCGTGACCTCCACCTTCAGCAAGCTGCGCGAACAGCTCGGCC
CTGTGACCCAGGAGTTCTGGGATAACCTGGAAAAGGAGACAGAGGGCCTGAG
GCAGGAGATGAGCAAGGATCTGGAGGAGGTGAAGGCCAAGGTGCAGCCCTAC
CTGGACGACTTCCAGAAGAAGTGGCAGGAGGAGATGGAGCTCTACCGCCAGAA
GGTGGAGCCGCTGCGCGCAGAGCTCCAAGAGGGCGCGCGCCAGAAGCTGCA
CGAGCTGCAAGAGAAGCTGAGCCCACTGGGCGAGGAGATGCGCGACCGCGCG
CGCGCCCATGTGGACGCGCTGCGCACGCATCTGGCCCCCTACAGCGACGAGC
TGCGCCAGCGCTTGGCCGCGCGCCTTGAGGCTCTCAAGGAGAACGGCGGCGC
CAGACTGGCCGAGTACCACGCCAAGGCCACCGAGCATCTGAGCACGCTCAGC
GAGAAGGCCAAGCCCGCGCTCGAGGACCTCCGCCAAGGCCTGCTGCCCGTGC
TGGAGAGCTTCAAGGTCAGCTTCCTGAGCGCTCTCGAGGAGTACACTAAGAAG
CTCAACACCCAGGGTACCGGTGGAGGTAGTGGAGGTGGTACCCTAAAGCTCCT
TGACAACTGGGACAGCGTGACCTCCACCTTCAGCAAGCTGCGCGAACAGCTCG
GCCCTGTGACCCAGGAGTTCTGGGATAACCTGGAAAAGGAGACAGAGGGCCT
GAGGCAGGAGATGAGCAAGGATCTGGAGGAGGTGAAGGCCAAGGTGCAGCCC
TACCTGGACGACTTCCAGAAGAAGTGGCAGGAGGAGATGGAGCTCTACCGCCA
GAAGGTGGAGCCGCTGCGCGCAGAGCTCCAAGAGGGCGCGCGCCAGAAGCT
GCACGAGCTGCAAGAGAAGCTGAGCCCACTGGGCGAGGAGATGCGCGACCGC
GCGCGCGCCCATGTGGACGCGCTGCGCACGCATCTGGCCCCCTACAGCGACG
AGCTGCGCCAGCGCTTGGCCGCGCGCCTTGAGGCTCTCAAGGAGAACGGCGG
CGCCAGACTGGCCGAGTACCACGCCAAGGCCACCGAGCATCTGAGCACGCTC
AGCGAGAAGGCCAAGCCCGCGCTCGAGGACCTCCGCCAAGGCCTGCTGCCCG
TGCTGGAGAGCTTCAAGGTCAGCTTCCTGAGCGCTCTCGAGGAGTACACTAAG
AAGCTCAACACCCAGTAATAAGCTTGC Table 13. MSP2 (with histidine tag, with long linker, in bold type) amino acid sequence (SEQ ID NO:10).
MGHHHHHHIEGRLKLLDNWDSVTSTFSKLREQLGPVTQEFWDNLEKETEGLRQEM
SKDLEEVKAKVQPYLDDFQKKWQEEMELYRQKVEPLRAELQEGARQKLHELQEKL
SPLGEEMRDRARAHVDALRTHLAPYSDELRQRLAARLEALKENGGARLAEYHAKA
TEHLSTLSEKAKPALEDLRQGLLPVLESFKVSFLSALEEYTKKLNTQGTGGGSGGG
TLKLLDNWDSVTSTFSKLREQLGPVTQEFWDNLEKETEGLRQEMSKDLEEVKAKV
QPYLDDFQKKWQEEMELYRQKVEPLRAELQEGARQKLHELQEKLSPLGEEMRDR
ARAHVDALRTHLAPYSDELRQRLAARLEALKENGGARLAEYHAKATEHLSTLSEKA
KPALEDLRQGLLPVLESFKVSFLSALEEYTKKLNTQ
Table 14. MSP1D5D6 DNA sequence (SEQ ID NO: 11). Translations start and stop codons are in bold type; restriction endonuclease recognition sites are underlined.
TATACCATGGGCCATCATCATCATCATCATATAGAAGGAAGACTAAAGCTCCTT
GACAACTGGGACAGCGTGACCTCCACCTTCAGCAAGCTGCGCGAACAGCTCGG
CCCTGTGACCCAGGAGTTCTGGGATAACCTGGAAAAGGAGACAGAGGGCCTGA
GGCAGGAGATGAGCAAGGATCTGGAGGAGGTGAAGGCCAAGGTGCAGCCCTA
CCTGGACGACTTCCAGAAGAAGTGGCAGGAGGAGATGGAGCTctaccgccagaaggt ggagcCCTACAGCGACGAGCTGCGCCAGCGCTTGGCCGCGCGCCTTGAGGCTC
TCAAGGAGAACGGCGGCGCCAGACTGGCCGAGTACCACGCCAAGGCCACCGA
GCATCTGAGCACGCTCAGCGAGAAGGCCAAACCCGCGCTCGAGGACCTCCGC
CAAGGCCTGCTGCCCGTGCTGGAGAGCTTCAAGGTCAGCTTCCTGAGCGCTCT
CGAGGAGTACACTAAGAAGCTCAACACCCAGTAATAAGCTTGC
Table 15. MSP1D5D6 amino acid sequence (SEQ ID NO:12).
MGHHHHHHIEGRLKLLDNWDSVTSTFSKLREQLGPVTQEFWDNLEKETEGLRQEM
SKDLEEVKAKVQPYLDDFQKKWQEEMELYRQKVEPYSDELRQRLAARLEALKENG
GARLAEYHAKATEHLSTLSEKAKPALEDLRQGLLPVLESFKVSFLSALEEYTKKLNT
Q Table 16. MSP1 D6D7 DNA sequence (SEQ ID NO: 13). Translation start and stop codons are shown in bold type, and restriction endonuclease recognition sites used in cloning are underlined.
TATACCATGGGCCATCATCATCATCATCATATAGAAGGAAGACTAAAGCTCCTT
GACAACTGGGACAGCGTGACCTCCACCTTCAGCAAGCTGCGCGAACAGCTCGG
CCCTGTGACCCAGGAGTTCTGGGATAACCTGGAAAAGGAGACAGAGGGCCTGA
GGCAGGAGATGAGCAAGGATCTGGAGGAGGTGAAGGCCAAGGTGCAGCCCTA
CCTGGACGACTTCCAGAAGAAGTGGCAGGAGGAGATGGAGCTCTACCGCCAG
AAGGTGGAGCCGCTGCGCGCAGAGCTCCAAGAGGGCGCGCGCCAGAAGCTG
CACGAGCTGCAAGAGAAGTTGAGCGCCAGGCTAGCCGAGTACCACGCCAAGG
CCACCGAGCATCTGAGCACGCTCAGCGAGAAGGCCAAACCCGCGCTCGAGGA
CCTCCGCCAAGGCCTGCTGCCCGTGCTGGAGAGCTTCAAGGTCAGCTTCCTGA
GCGCTCTCGAGGAGTACACTAAGAAGCTCAACACCCAGTAATAAGCTTGC
Table 17. MSP1D6D7 amino acid sequence (SEQ ID NO:14).
MGHHHHHHIEGRLKLLDNWDSVTSTFSKLREQLGPVTQEFWDNLEKETEGLRQEM
SKDLEEVKAKVQPYLDDFQKKWQEEMELYRQKVEPLRAELQEGARQKLHELQEKL
SARLAEYHAKATEHLSTLSEKAKPALEDLRQGLLPVLESFKVSFLSALEEYTKKLNT
Q
Table 18. Full synthetic gene sequence for MSP1 (SEQ ID NO:15). Restriction sites used in cloning are underlined, and the translation start and stop signals are shown in bold.
ACCATGGGTCATCATCATCATCATCACATTGAGGGACGTCTGAAGCTGTTGGAC
AATTGGGACTCTGTTACGTCTACCTTCAGTAAACTTCGCGAACAACTGGGCCCC
GTGACGCAGGAATTCTGGGACAACCTGGAAAAAGAAACCGAGGGACTGCGTCA
GGAAATGTCCAAAGATTTAGAAGAGGTGAAGGCCAAGGTTCAGCCATATCTAGA
TGACTTTCAGAAAAAATGGCAGGAAGAGATGGAATTATATCGTCAAAAGGTGGA
ACCGCTGCGTGCGGAACTGCAAGAGGGGGCACGCCAAAAACTCCATGAGCTC
CAAGAGAAGCTCAGCCCATTAGGCGAAGAAATGCGCGATCGCGCCCGTGCACA
TGTTGATGCACTCCGGACTCATTTGGCGCCGTATTCGGATGAACTTCGCCAGC
GTTTGGCCGCACGTCTCGAGGCGCTGAAAGAAAACGGGGGTGCCCGCTTGGC
TGAGTACCACGCGAAAGCGACAGAACACCTGAGCACCTTGAGCGAAAAAGCGA
AACCGGCGCTGGAAGATCTACGCCAGGGCTTATTGCCTGTTCTTGAGAGCTTTA
AAGTCAGTTTTCTGTCAGCTCTGGAAGAATATACTAAAAAGCTGAATACCCAGTA
ATAAGCTTGG [0098] The following is the amino acid sequence of a MSP polypeptide in which half repeats are deleted:
Table 19. MSP1 D3 (SEQ ID NO:16).
MGHHHHHHIEGRLKLLDNWDSVTSTFSKLREQLGPVTQEFWDNLEKETEGLRQEM SPYLDDFQKKWQEEMELYRQKVEPLRAELQEGARQKLHELQEKLSPLGEEMRDR ARAHVDALRTHLAPYSDELRQRLAARLEALKENGGARLAEYHAKATEHLSTLSEKA KPALEDLRQGLLPVLESFKVSFLSALEEYTKKLNTQ
Table 20. MSP1 D9 (SEQ ID NO:17).
MGHHHHHHIEGRLKLLDNWDSVTSTFSKLREQLGPVTQEFWDNLEKETEGLRQEM
SKDLEEVKAKVQPYLDDFQKKWQEEMELYRQKVEPLRAELQEGARQKLHELQEKL SPLGEEMRDRARAHVDALRTHLAPYSDELRQRLAARLEALKENGGARLAEYHAKA TEHLSTLSEKAKPVLESFKVSFLSALEEYTKKLNTQ
Table 21. MSP tandem repeat with first half-repeats deleted (MSP2delta1) (SEQ ID NO:18)
MGHHHHHHIEGRLKLLDNWDSVTSTFSKLREQLGPVTQEFWDNLEKETEGLRQEM
SPYLDDFQKKWQEEMELYRQKVEPLRAELQEGARQKLHELQEKLSPLGEEMRDR
ARAHVDALRTHLAPYSDELRQRLAARLEALKENGGARLAEYHAKATEHLSTLSEKA
KPALEDLRQGLLPVLESFKVSFLSALEEYTKKLNTQGTLKLLDNWDSVTSTFSKLRE
QLGPVTQEFWDNLEKETEGLRQEMSPYLDDFQKKWQEEMELYRQKVEPLRAELQ
EGARQKLHELQEKLSPLGEEMRDRARAHVDALRTHLAPYSDELRQRLAARLEALK
ENGGARLAEYHAKATEHLSTLSEKAKPALEDLRQGLLPVLESFKVSFLSALEEYTKK
LNTQ
[0099] Plasmids for the expression of extended MSPs were constructed from plasmid for MSP1 described in Bayburt et al. (2002) Nanoletters 2:853-856 using a "Seamless" cloning kit (Stratagene) according to the manufacturer recommendations. An alternative N-terminus for MSP1TEV was added by PCR; the primers were designed to include Nco I and Hind III restriction sites. The PCR product was cloned into the pET28a plasmid (Novagen). Truncated mutants of MSP were produced with a Quick-change kit (Stratagene) using the MSP1TEV plasmid as a template. The presence of the desired insertions or deletions and absence of PCR-induced mutations were verified by DNA sequencing.
[00100] Expression and purification of the MSP proteins was performed as described herein. Protein purity was characterized by SDS-PAGE and Electrospray Mass Spectrometry; it was found to be greater than 95%. The TEV protease expression system was purchased (Science Reagents, Inc., Atlanta, GA) and used after some minor modifications. The sequences of new scaffold proteins were optimized with respect to salt link scores for the belt model of the antiparallel dimer as described in Segrest et al. (1999) J. Biol. Chem. 274:31755-31758. At first, the amino acid sequences of the extended mutants were generated so that each of the central helices (from H3 to H7) (see Figure 19), was inserted sequentially at every position between other central helices, i.e. after H3, H4, H5, and H6, and the number of favorable salt links minus number of unfavorable contacts of the same charges was calculated for all possible configurations of antiparallel dimers in the resulting scaffold protein (Segrest (1999) supra). As a result, the insertion mutants were selected as optimal for maximum salt link scores. These extended scaffold proteins, as well as truncated scaffold proteins, also containing different tag sequences at the N. terminus, were engineered in E. coli and expressed with a high yield and purified by standard procedures.
[00101] With reference to the following protein and DNA sequences, the
MSPs we have utilized can be summarized as the following linked structures. Note H1 , H2 refer to the sequences of Helix #1 etc. His is a (His)6 tag, TEV is the tobacco viral protease, X is the Factor X (ten) protease site.
Table 22. Amino Acid Sequences of MSP Building Blocks
GLOB DEPPQSPWDRVKDLATVYVDVLKDSGRDYVSQFEGSALGKQLN
(SEQ ID NO:21)
HisX MGHHHHHHIEGR (SEQ ID NO:20)
HisTEV MGHHHHHHHDYDIPTTENLYFQG (SEQ ID NO:21)
Helix 1 (H1): LKLLDNWDSVTSTFSKLREQLG (SEQ ID NO:22)
Helix 2 (H2): PVTQEFWDNLEKETEGLRQEMS (SEQ ID NO:23)
Helix 3 (H3): KDLEEVKAKVQ (SEQ ID NO:24) Helix 4 (H4): PYLDDFQKKWQEEMELYRQKVE (SEQ ID NO:25)
Helix 5 (H5): PLRAELQEGARQKLHELQEKLS (SEQ ID NO:26)
Helix 6 (H6): PLGEEMRDRARAHVDALRTHLA (SEQ ID NO:27)
Helix 7 (H7): PYSDELRQRLAARLEALKENGG (SEQ ID NO:28)
Helix 8 (H8): ARLAEYHAKATEHLSTLSEKAK (SEQ ID NO:29)
Helix 9 (H9): PALEDLRQGLL (SEQ ID NO:30)
Helix 10(H10): PVLESFKVSFLSALEEYTKKLNTQ (SEQ ID NO:31)
Helix 0.5 (H0.5): STFSKLREQLG (SEQ ID NO:32)
Helix 10.5(M 0.5): SALEEYTKKLNTQ (SEQ ID NO:33)
Helix 2S (H2): PVTQEFWDNLEKETEGLRQEMS (SEQ ID NO:34)
Table 23. Sequences encoding the MSP Building Blocks of Table 22.
HisX ATGGGTCATCATCATCATCATCACATTGAGGGACGT
(SEQ ID NO:35)
HisTEV
ATGGGTCATCATCATCATCATCATCACGATTATGATATTCC TACTACTGAGAATTTGTATTTTCAGGGT (SEQ ID NO:36)
Helix 1 (H1):
CTGAAGCTGTTGGACAATTGGGACTCTGTTACGTCTACCT TCAGTAAACTTCGCGAACAACTGGGC (SEQ ID
NO:37)
Helix 2 (H2):
CCCGTGACGCAGGAATTCTGGGACAACCTGGAAAAAGAA ACCGAGGGACTGCGTCAGGAAATGTCC (SEQ ID NO:38)
Helix 3 (H3): AAAGATTTAGAAGAGGTGAAGGCCAAGGTTCAG
(SEQ ID NO:39)
Helix 4 (H4):
CCATATCTCGATGACTTTCAGAAAAAATGGCAGGAAGAGA TGGAATTATATCGTCAAAAGGTGGAA (SEQ ID NO :40)
Helix 5 (H5):
CCGCTGCGTGCGGAACTGCAAGAGGGGGCACGCCAAAA ACTCCATGAGCTCCAAGAGAAGCTCAGC (SEQ ID NO:41)
Helix 6 (H6):
CCATTAGGCGAAGAAATGCGCGATCGCGCCCGTGCACAT GTTGATGCACTCCGGACTCATTTGGCG (SEQ ID NO:42)
Helix 7(H7):
CCGTATTCGGATGAACTTCGCCAGCGTTTGGCCGCACGT CTCGAGGCGCTGAAAGAAAACGGGGGT (SEQ ID NO-.43) Helix 8 (H8):
GCCCGCTTGGCTGAGTACCACGCGAAAGCGACAGAACAC CTGAGCACCTTGAGCGAAAAAGCGAAA (SEQ ID NO:44)
Helix 9 (H9): CCGGCGCTGGAAGATCTACGCCAGGGCTTATTG
(SEQ ID NO:45)
Helix 10 (H10):
CCTGTTCTTGAGAGCTTTAAAGTCAGTTTTCTGTCAGCTCT GGAAGAATATACTAAAAAGCTGAATACCCAG (SEQ ID NO:46)
Helix 0.5 (H0.5): TCTACCTTCAGTAAACTTCGCGAACAACTGGGC
(SEQ ID NO:47)
Helix10.5 (H10.5):
CAGTTTTCTGTCAGCTCTGGAAGAATATACTAAAAAGCTGAATACCCAG (SEQ ID NO:48)
Helix 2S (H2S):
TCCGTGACGCAGGAATTCTGGGACAACCTGGAAAAAGAAACCGAGGGACTGCGTCAG GAAATGTCC (SEQ ID NO:49)
[00102] Several particular MSP sequences useful in the present invention are the following combinations of the above sequences, as given in Table 24 and others.
Table 24. Engineered MSPs Useful in Nanodisc Preparation
MSP1 HisX-H1-H2-H3-H4-H5-H6-H7-H8-H9-H10 (SEQ ID NO:3)
MSP1E1 HisX-H1-H2-H3-H4-H4-H5-H6-H7-H8-H9-H10 (SEQ ID NO:50)
MSP1E2 HisX-H1-H2-H3-H4-H5-H4-H5-H6-H7-H8-H9-H10 (SEQ ID NO:51)
MSP1E3 HisX-H1-H2-H3-H4-H5-H6-H4-H5-H6-H7-H8-H9-H10(SEQ ID NO:52)
MSP1TEV HisTev- H1-H2-H3-H4-H5-H6-H7-H8-H9-H10 (SEQ ID NO:53)
MSP1NH H1 -H2-H3-H4-H5-H6-H7-H8-H9-H10 (SEQ ID NO:54)
MSP1T2 HisTev-H0.5 -H2-H3-H4-H5-H6-H7-H8-H9-H10 (SEQ ID NO:55) MSP1T2NH H0.5-H2-H3-H4-H5-H6-H7-H8-H9-H10 (SEQ ID NO:56) MSP1T3 HisTev-H2-H3-H4-H5-H6-H7-H8-H9-H10 (SEQ ID NO:57) MSP1D3 HisX-H1-H2-H4-H5-H6-H7-H8-H9-H10 (SEQ ID NO: 16) MSP1D9 HisX-H1-H2-H3-H4-H5-H6-H7-H8-H10 (SEQ ID NO: 17) MSP1D5D6 HisX-H1-H2-H3-H4-H7-H8-H9-H10 (SEQ ID NO: 12) MSP1D6D7 HisX-H1-H2-H3-H4-H5-H8-H9-H10 (SEQ ID NO:14) MSP1D3D9 HisX-H1-H2-H4-H5-H6-H7-H8-H10 (SEQ ID NO:58) MSP1 D10.5 HisX-H1-H2-H3-H4-H5-H6-H7-H8-H9-H10.5 (SEQ ID NO:59)
MSP1 D3D10.5 HisX-H1-H2-H4-H5-H6-H7-H8-H9-H10.5 (SEQ ID NO:60)
MSP1T4 HisTEV-H2S-H3-H4-H5-H6-H7-H8-H9-H10 (SEQ ID NO:61)
Apo A-I GLOB-H1-H2-H3-H4- H4-H5-H6-H5-H6-H7-H8-H9-H10 (SEQ ID NO:2, exclusive of the signal peptide)
MSP1T5 HisTev-H2.5-H3-H4-H5-H6-H7-H8-H9-H10 (SEQ ID NO:62) MSP1T6 HisTev- H3-H4-H5-H6-H7-H8-H9-H10 (SEQ ID NO:63) MSP1 E3TEV: HisTev-H1-H2-H3-H4-H5-H6-H4-H5-H6-H7-H8-H9-H10
(SEQ ID NO:64)
MSP1 E3D1 : HisTev-H0.5-H2-H3-H4-H5-H6-H4-H5-H6-H7-H8-H9-H10
(SEQ ID NO:65)
MSP2TEV: HisTev-H 1 -H2-H3-H4-H5-H6-H7-H8-H9-H 10-GT-H 1 -H2-H3-H4-H5- H6-H7-H8-H9-H10 (SEQ ID NO:66)
MSP1N1 : His-TEV -H2S-H3-H4-H4-H5-H6-H7-H8-H9 (SEQ ID
NO:67)
MSP2N1 : HisTev-H0.5-H2-H3-H4-H5-H6-H7-H8-H9-H10-GT-H0.5- H2-H3- H4-H5-H6-H7-H8-H9-H10 (SEQ ID NO:68)
MSP2N2: HisTev-H0.5-H2-H3-H4-H5-H6-H7-H8-H9-H10-GT-H2-H3-H4- H5-H6-H7-H8-H9-H10 (SEQ ID NO:69)
[00103] In addition to these sequences, there are two fusion protein
(tandem repeat MSP) constructs of reference. These are composed of two MSP1 constructs linked by a Gly-Thr linker:
[00104] MSP2 (MSP1-Gly-Thr-MSP1 , SEQ ID NO:8) and MSP2D1 D1
(MSP1T3-Gly-Thr- H2-H3-H4-H5-H6-H7-H8-H9-H10, SEQ ID NO:70).
[00105] Other constructs that can be readily produced include permutations of the above, i.e., MSP1 or a tandemly repeated MSP with either a short or long linker sequence with any combination of the following: hinge deletion, hinge replacement, half-repeat deletion, histidine tag, different linkers for MSP2 analogs.
[00106] The coding and amino acid sequences of MSP1T4 are given in
Tables 25 and 26, respectively. Table 25. DNA sequence encoding MSP1T4 (SEQ ID NO:71) atgggtcatcatcatcatcatcatcacgattatgatattcctactactgagaatttgtattttcagggttccgtgacgcagga attctgggacaacctggaaaaagaaaccgagggactgcgtcaggaaatgtccaaagatttagaagaggtgaagg ccaaggttcagccatatctcgatgactttcagaaaaaatggcaggaagagatggaattatatcgtcaaaaggtggaa ccgctgcgtgcggaactgcaagagggggcacgccaaaaactccatgagctccaagagaagctcagcccattagg cgaagaaatgcgcgatcgcgcccgtgcacatgttgatgcactccggactcatttggcgccgtattcggatgaacttcg ccagcgtttggccgcacgtctcgaggcgctgaaagaaaacgggggtgcccgcttggctgagtaccacgcgaaagc gacagaacacctgagcaccttgagcgaaaaagcgaaaccggcgctggaagatctacgccagggcttattgcctgtt cttgagagctttaaagtcagttttctgtcagctctggaagaatatactaaaaagctgaatacccag
Table 26. Amino acid sequence of MSP1T4 (SEQ ID NO:61)
MGHHHHHHHDYDIPTTENLYFQGSVTQEFWDNLEKETEGLRQEMSKDLEEVKAKV QPYLDDFQKKWQEEMELYRQKVEPLRAELQEGARQKLHELQEKLSPLGEEMRDR ARAHVDALRTHLAPYSDELRQRLAARLEALKENGGARLAEYHAKATEHLSTLSEKA KPALEDLRQGLLPVLESFKVSFLSALEEYTKKLNTQ
In the schematic for MSP1T5, H2.5 indicates the second half of the H2 helical sequence, i.e. the last 33 nucleotides or 11 amino acids is not included in the MSP sequence. The coding and amino acid sequence for this protein is given in Tables 27 and 28, respectively.
Table 27. DNA sequence encoding MSP1T5 (SEQ ID NO:72) atgggtcatcatcatcatcatcatcacgattatgatattcctactactgagaatttgtattttcagggtaaagaaaccgagg gactgcgtcaggaaatgtccaaagatttagaagaggtgaaggccaaggttcagccatatctcgatgactttcagaaa aaatggcaggaagagatggaattatatcgtcaaaaggtggaaccgctgcgtgcggaactgcaagagggggcacg ccaaaaactccatgagctccaagagaagctcagcccattaggcgaagaaatgcgcgatcgcgcccgtgcacatgt tgatgcactccggactcatttggcgccgtattcggatgaacttcgccagcgtttggccgcacgtctcgaggcgctgaaa gaaaacgggggtgcccgcttggctgagtaccacgcgaaagcgacagaacacctgagcaccttgagcgaaaaag cgaaaccggcgctggaagatctacgccagggcttattgcctgttcttgagagctttaaagtcagttttctgtcagctctgg aagaatatactaaaaagctgaatacccag
Table 28. Amino acid sequence of MSP1T5 (SEQ ID NO:62)
MGHHHHHHHDYDIPTTENLYFQGKETEGLRQEMSKDLEEVKAKVQPYLDDFQKK
WQEEMELYRQKVEPLRAELQEGARQKLHELQEKLSPLGEEMRDRARAHVDALRT HLAPYSDELRQRLAARLEALKENGGARLAEYHAKATEHLSTLSEKAKPALEDLRQG LLPVLESFKVSFLSALEEYTKKLNTQ
Table 29. DNA sequence encoding MSP1T6 (SEQ ID NO: 73) atgggtcatcatcatcatcatcatcacgattatgatattcctactactgagaatttgtattttcagggtaaagatttagaaga ggtgaaggccaaggttcagccatatctcgatgactttcagaaaaaatggcaggaagagatggaattatatcgtcaaa aggtggaaccgctgcgtgcggaactgcaagagggggcacgccaaaaactccatgagctccaagagaagctcag cccattaggcgaagaaatgcgcgatcgcgcccgtgcacatgttgatgcactccggactcatttggcgccgtattcgga tgaacttcgccagcgtttggccgcacgtctcgaggcgctgaaagaaaacgggggtgcccgcttggctgagtaccac gcgaaagcgacagaacacctgagcaccttgagcgaaaaagcgaaaccggcgctggaagatctacgccagggct tattgcctgttcttgagagctttaaagtcagttttctgtcagctctggaagaatatactaaaaagctgaatacccag
Table 30. Amino acid sequence of MSP1T6 (SEQ ID NO:63)
MGHHHHHHHDYDIPTTENLYFQGKDLEEVKAKVQPYLDDFQKKWQEEMELYRQK VEPLRAELQEGARQKLHELQEKLSPLGEEMRDRARAHVDALRTHLAPYSDELRQR LAARLEALKENGGARLAEYHAKATEHLSTLSEKAKPALEDLRQGLLPVLESFKVSFL SALEEYTKKLNTQ
[00107] MSP1T5 and MSP1T6 discs preps are not homogeneous under all assembly conditions. The results are highly dependent on the particular assembly conditions.
[00108] In the following MSP construct (MSP1 N1), H10 is not included, and two H4 motifs are inserted. The coding and amino acid sequences are given in Tables 31 and 32, respectively. This MSP is designed to increase the number of possible salt bridges on the interhelical interface.
Table 31. DNA sequence encoding MSP1 N1 (SEQ ID NO:74) atgggtcatcatcatcatcatcatcacgattatgatattcctactactgagaatttgtattttcagggttccgtgacgcagga attctgggacaacctggaaaaagaaaccgagggactgcgtcaggaaatgtccaaagatttagaagaggtgaagg ccaaggttcagccatatctcgatgactttcagaaaaaatggcaggaagagatggaattatatcgtcaaaaggtggaa ccatatctcgatgactttcagaaaaaatggcaggaagagatggaattatatcgtcaaaaggtggaaccgctgcgtgc ggaactgcaagagggggcacgccaaaaactccatgagctccaagagaagctcagcccattaggcgaagaaatg cgcgatcgcgcccgtgcacatgttgatgcactccggactcatttggcgccgtattcggatgaacttcgccagcgtttggc cgcacgtctcgaggcgctgaaagaaaacgggggtgcccgcttggctgagtaccacgcgaaagcgacagaacac ctgagcaccttgagcgaaaaagcgaaaccggcgctggaagatctacgccagggcttattg
Table 32. Amino acid sequence of MSP1N1 (SEQ ID NO:67)
MGHHHHHHHDYDIPTTENLYFQGSVTQEFWDNLEKETEGLRQEMSKDLEEVKAKV QPYLDDFQKKWQEEMELYRQKVEPYLDDFQKKWQEEMELYRQKVEPLRAELQEG ARQKLHELQEKLSPLGEEMRDRARAHVDALRTHLAPYSDELRQRLAARLEALKEN GGARLAEYHAKATEHLSTLSEKAKPALEDLRQGLL
[00109] The following "extended" MSPs incorporate a cleavable His-tag and use a TEV protease recognition site.
Table 33. DNA sequence encoding MSP1 E3TEV (HisTev-H1 -H2-H3-H4-H5-H6- H4-H5-H6-H7-H8-H9-H10) (SEQ ID NO:75) atgggtcatcatcatcatcatcatcacgattatgatattcctactactgagaatttgtattttcagggtctgaagctgttggac aattgggactctgttacgtctaccttcagtaaacttcgcgaacaactgggccccgtgacgcaggaattctgggacaac ctggaaaaagaaaccgagggactgcgtcaggaaatgtccaaagatttagaagaggtgaaggccaaggttcagcc atatctcgatgactttcagaaaaaatggcaggaagagatggaattatatcgtcaaaaggtggaaccgctgcgtgcgg aactgcaagagggggcacgccaaaaactccatgagctccaagagaagctcagcccattaggcgaagaaatgcg cgatcgcgcccgtgcacatgttgatgcactccggactcatttggcgccatatctcgatgactttcagaaaaaatggcag gaagagatggaattatatcgtcaaaaggtggaaccgctgcgtgcggaactgcaagagggggcacgccaaaaact ccatgagctccaagagaagctcagcccattaggcgaagaaatgcgcgatcgcgcccgtgcacatgttgatgcactc cggactcatttggcgccgtattcggatgaacttcgccagcgtttggccgcacgtctcgaggcgctgaaagaaaacgg gggtgcccgcttggctgagtaccacgcgaaagcgacagaacacctgagcaccttgagcgaaaaagcgaaaccg gcgctggaagatctacgccagggcttattgcctgttcttgagagctttaaagtcagttttctgtcagctctggaagaatata ctaaaaagctgaatacccag
Table 34. Amino acid sequence of MSP1E3TEV (SEQ ID NO:64)
MGHHHHHHHDYDIPTTENLYFQGLKLLDNWDSVTSTFSKLREQLGPVTQEFWDNL EKETEGLRQEMSKDLEEVKAKVQPYLDDFQKKWQEEMELYRQKVEPLRAELQEG ARQKLHELQEKLSPLGEEMRDRARAHVDALRTHLAPYLDDFQKKWQEEMELYRQ KVEPLRAELQEGARQKLHELQEKLSPLGEEMRDRARAHVDALRTHLAPYSDELRQ RLAARLEALKENGGARLAEYHAKATEHLSTLSEKAKPALEDLRQGLLPVLESFKVSF LSALEEYTKKLNTQ
Table 35. DNA sequence encoding MSP1E3D1 (SEQ ID NO:76) (HisTev-HO.δ-Ha-HS-H^Hδ-HΘ-H^Hδ-HΘ-HZ-Hδ-HΘ-HIO) atgggtcatcatcatcatcatcatcacgattatgatattcctactactgagaatttgtattttcagggttctaccttcagtaaa cttcgcgaacaactgggccccgtgacgcaggaattctgggacaacctggaaaaagaaaccgagggactgcgtca ggaaatgtccaaagatttagaagaggtgaaggccaaggttcagccatatctcgatgactttcagaaaaaatggcag gaagagatggaattatatcgtcaaaaggtggaaccgctgcgtgcggaactgcaagagggggcacgccaaaaact ccatgagctccaagagaagctcagcccattaggcgaagaaatgcgcgatcgcgcccgtgcacatgttgatgcactc cggactcatttggcgccatatctcgatgactttcagaaaaaatggcaggaagagatggaattatatcgtcaaaaggtg gaaccgctgcgtgcggaactgcaagagggggcacgccaaaaactccatgagctccaagagaagctcagcccatt aggcgaagaaatgcgcgatcgcgcccgtgcacatgttgatgcactccggactcatttggcgccgtattcggatgaact tcgccagcgtttggccgcacgtctcgaggcgctgaaagaaaacgggggtgcccgcttggctgagtaccacgcgaa agcgacagaacacctgagcaccttgagcgaaaaagcgaaaccggcgctggaagatctacgccagggcttattgc ctgttcttgagagctttaaagtcagttttctgtcagctctggaagaatatactaaaaagctgaatacccag
Table 36. Amino acid sequence of MSP1E3D1 (SEQ ID NO:65)
MGHHHHHHHDYDIPTTENLYFQGSTFSKLREQLGPVTQEFWDNLEKETEGLRQEM
SKDLEEVKAKVQPYLDDFQKKWQEEMELYRQKVEPLRAELQEGARQKLHELQEKL
SPLGEEMRDRARAHVDALRTHLAPYLDDFQKKWQEEMELYRQKVEPLRAELQEG
ARQKLHELQEKLSPLGEEMRDRARAHVDALRTHLAPYSDELRQRLAARLEALKEN
GGARLAEYHAKATEHLSTLSEKAKPALEDLRQGLLPVLESFKVSFLSALEEYTKKLN
TQ
[00110] A protein corresponding to MSP2 with a N-terminal TEV cleavable His-tag has been designed. The coding and amino acid sequences are given in Tables 37 and 38, respectively.
Table 37. DNA sequence encoding MSP2TEV (HisTev-H1-H2-H3-H4-H5-H6-H7- H8-H9-H10-GT-H1-H2-H3-H4-H5-H6-H7-H8-H9-H10) (SEQ ID NO:77) atgggtcatcatcatcatcatcatcacgattatgatattcctactactgagaatttgtattttcagggtctaaagctccttgac aactgggacagcgtgacctccaccttcagcaagctgcgcgaacagctcggccctgtgacccaggagttctgggata acctggaaaaggagacagagggcctgaggcaggagatgagcaaggatctggaggaggtgaaggccaaggtgc agccctacctggacgacttccagaagaagtggcaggaggagatggagctctaccgccagaaggtggagccgctg cgcgcagagctccaagagggcgcgcgccagaagctgcacgagctgcaagagaagctgagcccactgggcgag gagatgcgcgaccgcgcgcgcgcccatgtggacgcgctgcgcacgcatctggccccctacagcgacgagctgcg ccagcgcttggccgcgcgccttgaggctctcaaggagaacggcggcgccagactggccgagtaccacgccaagg ccaccgagcatctgagcacgctcagcgagaaggccaagcccgcgctcgaggacctccgccaaggcctgctgccc gtgctggagagcttcaaggtcagcttcctgagcgctctcgaggagtacactaagaagctcaacacccagggtaccct aaagctccttgacaactgggacagcgtgacctccaccttcagcaagctgcgcgaacagctcggccctgtgacccag gagttctgggataacctggaaaaggagacagagggcctgaggcaggagatgagcaaggatctggaggaggtga aggccaaggtgcagccctacctggacgacttccagaagaagtggcaggaggagatggagctctaccgccagaag gtggagccgctgcgcgcagagctccaagagggcgcgcgccagaagctgcacgagctgcaagagaagctgagc ccactgggcgaggagatgcgcgaccgcgcgcgcgcccatgtggacgcgctgcgcacgcatctggccccctacag cgacgagctgcgccagcgcttggccgcgcgccttgaggctctcaaggagaacggcggcgccagactggccgagt accacgccaaggccaccgagcatctgagcacgctcagcgagaaggccaagcccgcgctcgaggacctccgcca aggcctgctgcccgtgctggagagcttcaaggtcagcttcctgagcgctctcgaggagtacactaagaagctcaaca cccag
Table 38. Amino acid sequence of HisTEV-MSP2 (SEQ ID NO:66)
MGHHHHHHHDYDIPTTENLYFQGLKLLDNWDSVTSTFSKLREQLGPVTQEFWDNLEKETE
GLRQEMSKDLEEVKAKVQPYLDDFQKKWQEEMELYRQKVEPLRAELQEGARQKLHELQE
KLSPLGEEMRDRARAHVDALRTHLAPYSDELRQRLAARLEALKENGGARLAEYHAKATEHL
STLSEKAKPALEDLRQGLLPVLESFKVSFLSALEYTKKLNTQGTLKLLDNWDSVTSTFSKLR
EQLGPVTQEFWDNLEKETEGLRQEMKDLEEVKAKVQPYLDDFQKKWQEEMELYRQKVEP
LRAELQEGARQKLHELQEKLSPLGEEMRDRARAHVDALRTHLAPYSDELRQRLAARLEALK
ENGGARLAEYHAKATEHLSTLSEKAKPALEDLRQGLLPVLESFKVSFLSALEEYTKKLNTQ
[00111] New constructs have been designed to produce a "linear dimer" to generate Nanodiscs with only a single polypeptide sequence. These are fusions that make use of our knowledge of the parts of the MSP 1 sequences which are important and are thus are "MSP2 derivatives". All have the TEV protease-cleavage His-tag. Table 39. DNA sequence encoding MSP2N1 (HisTev-H0.5-H2-H3-H4-H5-H6- H7-H8-H9-H10-GT-H1/2- H2-H3-H4-H5-H6-H7-H8-H9-H10) (SEQ ID NO:78) atgggtcatcatcatcatcatcatcacgattatgatattcctactactgagaatttgtattttcagggttctaccttcagtaaa cttcgcgaacaactgggccccgtgacgcaggaattctgggacaacctggaaaaagaaaccgagggactgcgtca ggaaatgtccaaagatttagaagaggtgaaggccaaggttcagccatatctcgatgactttcagaaaaaatggcag gaagagatggaattatatcgtcaaaaggtggaaccgctgcgtgcggaactgcaagagggggcacgccaaaaact ccatgagctccaagagaagctcagcccattaggcgaagaaatgcgcgatcgcgcccgtgcacatgttgatgcactc cggactcatttggcgccgtattcggatgaacttcgccagcgtttggccgcacgtctcgaggcgctgaaagaaaacgg gggtgcccgcttggctgagtaccacgcgaaagcgacagaacacctgagcaccttgagcgaaaaagcgaaaccg gcgctggaagatctacgccagggcttattgcctgttcttgagagctttaaagtcagttttctgtcagctctggaagaatata ctaaaaagctgaatacccagggtaccttcagtaaacttcgcgaacaactgggccccgtgacgcaggaattctggga caacctggaaaaagaaaccgagggactgcgtcaggaaatgtccaaagatttagaagaggtgaaggccaaggttc agccatatctcgatgactttcagaaaaaatggcaggaagagatggaattatatcgtcaaaaggtggaaccgctgcgt gcggaactgcaagagggggcacgccaaaaactccatgagctccaagagaagctcagcccattaggcgaagaaa tgcgcgatcgcgcccgtgcacatgttgatgcactccggactcatttggcgccgtattcggatgaacttcgccagcgtttg gccgcacgtctcgaggcgctgaaagaaaacgggggtgcccgcttggctgagtaccacgcgaaagcgacagaac acctgagcaccttgagcgaaaaagcgaaaccggcgctggaagatctacgccagggcttattgcctgttcttgagagc tttaaagtcagttttctgtcagctctggaagaatatactaaaaagctgaatacccag
Table 40. Amino acid sequence of MSP2N1 (SEQ ID NO:68)
MGHHHHHHHDYDIPTTENLYFQGSTFSKLREQLGPVTQEFWDNLEKETEGLRQEM
SKDLEEVKAKVQPYLDDFQKKWQEEMELYRQKVEPLRAELQEGARQKLHELQEKL
SPLGEEMRDRARAHVDALRTHLAPYSDELRQRLAARLEALKENGGARLAEYHAKA
TEHLSTLSEKAKPALEDLRQGLLPVLESFKVSFLSALEEYTKKLNTQGTFSKLREQL
GPVTQEFWDNLEKETEGLRQEMSKDLEEVKAKVQPYLDDFQKKWQEEMELYRQK
VEPLRAELQEGARQKLHELQEKLSPLGEEMRDRARAHVDALRTHLAPYSDELRQR
LAARLEALKENGGARLAEYHAKATEHLSTLSEKAKPALEDLRQGLLPVLESFKVSFL
SALEEYTKKLNTQ
Table 41. DNA sequence encoding MSP2N2 (SEQ ID NO:79) (HisTev-H0.5-H2-H3-H4-H5-H6-H7-H8-H9-H10-GT- H2-H3-H4-H5-H6-H7-H8-H9-H10) atgggtcatcatcatcatcatcatcacgattatgatattcctactactgagaatttgtattttcagggttctaccttcagtaaa cttcgcgaacaactgggccccgtgacgcaggaattctgggacaacctggaaaaagaaaccgagggactgcgtca ggaaatgtccaaagatttagaagaggtgaaggccaaggttcagccatatctcgatgactttcagaaaaaatggcag gaagagatggaattatatcgtcaaaaggtggaaccgctgcgtgcggaactgcaagagggggcacgccaaaaact ccatgagctccaagagaagctcagcccattaggcgaagaaatgcgcgatcgcgcccgtgcacatgttgatgcactc cggactcatttggcgccgtattcggatgaacttcgccagcgtttggccgcacgtctcgaggcgctgaaagaaaacgg gggtgcccgcttggctgagtaccacgcgaaagcgacagaacacctgagcaccttgagcgaaaaagcgaaaccg gcgctggaagatctacgccagggcttattgcctgttcttgagagctttaaagtcagttttctgtcagctctggaagaatata ctaaaaagctgaatacccagggtacccccgtgacgcaggaattctgggacaacctggaaaaagaaaccgaggg actgcgtcaggaaatgtccaaagatttagaagaggtgaaggccaaggttcagccatatctcgatgactttcagaaaa aatggcaggaagagatggaattatatcgtcaaaaggtggaaccgctgcgtgcggaactgcaagagggggcacgc caaaaactccatgagctccaagagaagctcagcccattaggcgaagaaatgcgcgatcgcgcccgtgcacatgtt gatgcactccggactcatttggcgccgtattcggatgaacttcgccagcgtttggccgcacgtctcgaggcgctgaaa gaaaacgggggtgcccgcttggctgagtaccacgcgaaagcgacagaacacctgagcaccttgagcgaaaaag cgaaaccggcgctggaagatctacgccagggcttattgcctgttcttgagagctttaaagtcagttttctgtcagctctgg aagaatatactaaaaagctgaatacccag
Table 42. Amino acid sequence of MSP2N2 (SEQ ID NO:69)
MGHHHHHHHDYDIPTTENLYFQGSTFSKLREQLGPVTQEFWDNLEKETEGLRQEM
SKDLEEVKAKVQPYLDDFQKKWQEEMELYRQKVEPLRAELQEGARQKLHELQEKL
SPLGEEMRDRARAHVDALRTHLAPYSDELRQRLAARLEALKENGGARLAEYHAKA
TEHLSTLSEKAKPALEDLRQGLLPVLESFKVSFLSALEEYTKKLNTQGTPVTQEFWD
NLEKETEGLRQEMSKDLEEVKAKVQPYLDDFQKKWQEEMELYRQKVEPLRAELQE
GARQKLHELQEKLSPLGEEMRDRARAHVDALRTHLAPYSDELRQRLAARLEALKE
NGGARLAEYHAKATEHLSTLSEKAKPALEDLRQGLLPVLESFKVSFLSALEEYTKKL
NTQ
[00112] A further MSP2 derivative (MSP2N3) has been designed to include helices 2-10 following the linker part of the H1 helix sequence. The DNA coding and amino acid sequences are given in Tables 43 and 44, respectively.
Table 43. DNA sequence encoding MSP2N3 (HisTev-H0.5-H2-H3-H4-H5-H6-H7- H8-H9-H10-GTREQLG-H2-H3-H4-H5-H6-H7-H8-H9-H10) (SEQ ID NO:80)
Atgggtcatcatcatcatcatcatcacgattatgatattcctactactgagaatttgtattttcagggttctaccttcagtaaa cttcgcgaacaactgggccccgtgacgcaggaattctgggacaacctggaaaaagaaaccgagggactgcgtca ggaaatgtccaaagatttagaagaggtgaaggccaaggttcagccatatctcgatgactttcagaaaaaatggcag gaagagatggaattatatcgtcaaaaggtggaaccgctgcgtgcggaactgcaagagggggcacgccaaaaact ccatgagctccaagagaagctcagcccattaggcgaagaaatgcgcgatcgcgcccgtgcacatgttgatgcactc cggactcatttggcgccgtattcggatgaacttcgccagcgtttggccgcacgtctcgaggcgctgaaagaaaacgg gggtgcccgcttggctgagtaccacgcgaaagcgacagaacacctgagcaccttgagcgaaaaagcgaaaccg gcgctggaagatctacgccagggcttattgcctgttcttgagagctttaaagtcagttttctgtcagctctggaagaatata ctaaaaagctgaatacccagggtacccgcgaacaactgggccccgtgacgcaggaattctgggacaacctggaa aaagaaaccgagggactgcgtcaggaaatgtccaaagatttagaagaggtgaaggccaaggttcagccatatctc gatgactttcagaaaaaatggcaggaagagatggaattatatcgtcaaaaggtggaaccgctgcgtgcggaactgc aagagggggcacgccaaaaactccatgagctccaagagaagctcagcccattaggcgaagaaatgcgcgatcg cgcccgtgcacatgttgatgcactccggactcatttggcgccgtattcggatgaacttcgccagcgtttggccgcacgtc tcgaggcgctgaaagaaaacgggggtgcccgcttggctgagtaccacgcgaaagcgacagaacacctgagcac cttgagcgaaaaagcgaaaccggcgctggaagatctacgccagggcttattgcctgttcttgagagctttaaagtcag ttttctgtcagctctggaagaatatactaaaaagctgaatacccagtaagctt
Table 44. Amino acid sequence of MSP2N3 (SEQ ID NO:81)
MGHHHHHHHDYDIPTTENLYFQGSTFSKLREQLGPVTQEFWDNLEKETEGLRQEM
SKDLEEVKAKVQPYLDDFQKKWQEEMELYRQKVEPLRAELQEGARQKLHELQEKL
SPLGEEMRDRARAHVDALRTHLAPYSDELRQRLAARLEALKENGGARLAEYHAKA
TEHLSTLSEKAKPALEDLRQGLLPVLESFKVSFLSALEEYTKKLNTQGTREQLGPVT
QEFWDNLEKETEGLRQEMSKDLEEVKAKVQPYLDDFQKKWQEEMELYRQKVEPL
RAELQEGARQKLHELQEKLSPLGEEMRDRARAHVDALRTHLAPYSDELRQRLAAR
LEALKENGGARLAEYHAKATEHLSTLSEKAKPALEDLRQGLLPVLESFKVSFLSALE
EYTKKLNTQ
[00113] Unlike MSP2 and MSP2TEV these proteins self-assemble with lipids at 300:1 to 400:1 molar ratios with preferable formation of significantly bigger particles (Stokes diameter approximately 15.5 nm, corresponding to a calculated diameter assuming discoidal shape of about 17 nm).
[00114] Additional dimer sequences (i.e., tandem repeat MSP) have been designed with the fusion region to be composed of two different linkers which have high propensity to form beta-turns (Creighton, Proteins, p. 226). These scaffold proteins are specifically designed to promote the anti-parallel helix-turn-helix structure in Nanodiscs. The constituent scaffold proteins include MSP1T3, as well as the specially designed new scaffold proteins as described herein, MSP1 N1 and the circularly permuted MSP2N5 which has a modified sequence of amphipathic helices to optimize the salt bridges formed between two scaffold proteins in the antiparallel helix-turn-helix structure.
[00115] The general scheme for a tandem repeat MSP is MSP - Linker -
MSP, where linker may be either the Linker 1 or Linker 2 sequence defined below and MSP may be any of the monomeric membrane scaffold proteins previously defined. Linker 1 (Lb1) is composed of 4 amino acids, preferably the sequence Asn-Pro-Gly-Thr (SEQ ID NO:96). Linker 2 (Lb2) is composed of 6 amino acids with one additional residue on both ends to provide more flexibility, preferably the sequence Ser-Asn-Pro-Gly-Thr-Gln (SEQ ID NO:94).
Table 45. DNA sequence encoding MSP2N4 (His-TEV -H2S-H3- H4-H5-H6-H7- H8-H9-H10- NPGT- H2-H3- H4-H5-H6-H7-H8-H9-H10) (SEQ ID NO:82) atgggtcatcatcatcatcatcatcacgattatgatattcctactactgagaatttgtattttcagggttccgtgac gcaggaattctgggacaacctggaaaaagaaaccgagggactgcgtcaggaaatgtccaaagatttagaagagg tgaaggccaaggttcagccatatctcgatgactttcagaaaaaatggcaggaagagatggaattatatcgtcaaaag gtggaaccgctgcgtgcggaactgcaagagggggcacgccaaaaactccatgagctccaagagaagctcagcc cattaggcgaagaaatgcgcgatcgcgcccgtgcacatgttgatgcactccggactcatttggcgccgtattcggatg aacttcgccagcgtttggccgcacgtctcgaggcgctgaaagaaaacgggggtgcccgcttggctgagtaccacgc gaaagcgacagaacacctgagcaccttgagcgaaaaagcgaaaccggcgctggaagatctacgccagggcttat tgcctgttcttgagagctttaaagtcagttttctgtcagctctggaagaatatactaaaaagctgaatacccagaatccag gtacccccgtgacgcaggaattctgggacaacctggaaaaagaaaccgagggactgcgtcaggaaatgtccaaa gatttagaagaggtgaaggccaaggttcagccatatctcgatgactttcagaaaaaatggcaggaagagatggaatt atatcgtcaaaaggtggaaccgctgcgtgcggaactgcaagagggggcacgccaaaaactccatgagctccaag agaagctcagcccattaggcgaagaaatgcgcgatcgcgcccgtgcacatgttgatgcactccggactcatttggcg ccgtattcggatgaacttcgccagcgtttggccgcacgtctcgaggcgctgaaagaaaacgggggtgcccgcttggc tgagtaccacgcgaaagcgacagaacacctgagcaccttgagcgaaaaagcgaaaccggcgctggaagatcta cgccagggcttattgcctgttcttgagagctttaaagtcagttttctgtcagctctggaagaatatactaaaaagctgaata cccag
Table 46. Amino acid sequence of MSP2N4 (SEQ ID NO:83)
MGHHHHHHHDYDIPTTENLYFQGSVTQEFWDNLEKETEGLRQEMSKDLEEVKAKV
QPYLDDFQKKWQEEMELYRQKVEPLRAELQEGARQKLHELQEKLSPLGEEMRDR
ARAHVDALRTHLAPYSDELRQRLAARLEALKENGGARLAEYHAKATEHLSTLSEKA
KPALEDLRQGLLPVLESFKVSFLSALEEYTKKLNTQNPGTPVTQEFWDNLEKETEG
LRQEMSKDLEEVKAKVQPYLDDFQKKWQEEMELYRQKVEPLRAELQEGARQKLH
ELQEKLSPLGEEMRDRARAHVDALRTHLAPYSDELRQRLAARLEALKENGGARLA
EYHAKATEHLSTLSEKAKPALEDLRQGLLPVLESFKVSFLSALEEYTKKLNTQ Table 47. DNA sequence encoding MSP2N5 (His-TEV-H2S-H3-H4-H4-H5-H6- H7-H8-H9- NPGT - H3-H4-H4-H5-H6-H7-H8-H9-H2) (SEQ ID NO:84) atgggtcatcatcatcatcatcatcacgattatgatattcctactactgagaatttgtattttcagggttccgtgacgcagga attctgggacaacctggaaaaagaaaccgagggactgcgtcaggaaatgtccaaagatttagaagaggtgaagg ccaaggttcagccatatctcgatgactttcagaaaaaatggcaggaagagatggaattatatcgtcaaaaggtggaa ccatatctcgatgactttcagaaaaaatggcaggaagagatggaattatatcgtcaaaaggtggaaccgctgcgtgc ggaactgcaagagggggcacgccaaaaactccatgagctccaagagaagctcagcccattaggcgaagaaatg cgcgatcgcgcccgtgcacatgttgatgcactccggactcatttggcgccgtattcggatgaacttcgccagcgtttggc cgcacgtctcgaggcgctgaaagaaaacgggggtgcccgcttggctgagtaccacgcgaaagcgacagaacac ctgagcaccttgagcgaaaaagcgaaaccggcgctggaagatctacgccagggcttattgaatccaggtaccaaa gatttagaagaggtgaaggccaaggttcagccatatctcgatgactttcagaaaaaatggcaggaagagatggaatt atatcgtcaaaaggtggaaccatatctcgatgactttcagaaaaaatggcaggaagagatggaattatatcgtcaaa aggtggaaccgctgcgtgcggaactgcaagagggggcacgccaaaaactccatgagctccaagagaagctcag cccattaggcgaagaaatgcgcgatcgcgcccgtgcacatgttgatgcactccggactcatttggcgccgtattcgga tgaacttcgccagcgtttggccgcacgtctcgaggcgctgaaagaaaacgggggtgcccgcttggctgagtaccac gcgaaagcgacagaacacctgagcaccttgagcgaaaaagcgaaaccggcgctggaagatctacgccagggct tattgcccgtgacgcaggaattctgggacaacctggaaaaagaaaccgagggactgcgtcaggaaatgtcc
Table 48. Amino acid sequence of MSP2N5 (SEQ ID NO:85)
MGHHHHHHHDYDIPTTENLYFQGSVTQEFWDNLEKETEGLRQEMSKDLEEVKAKV
QPYLDDFQKKWQEEMELYRQKVEPYLDDFQKKWQEEMELYRQKVEPLRAELQEG
ARQKLHELQEKLSPLGEEMRDRARAHVDALRTHLAPYSDELRQRLAARLEALKEN
GGARLAEYHAKATEHLSTLSEKAKPALEDLRQGLLNPGTKDLEEVKAKVQPYLDDF
QKKWQEEMELYRQKVEPYLDDFQKKWQEEMELYRQKVEPLRAELQEGARQKLHE
LQEKLSPLGEEMRDRARAHVDALRTHLAPYSDELRQRLAARLEALKENGGARLAE
YHAKATEHLSTLSEKAKPALEDLRQGLLPVTQEFWDNLEKETEGLRQEMS
Table 49. DNA sequence encoding MSP2N6 (His-TEV-H2S-H3-H4-H4-H5-H6- H7-H8-H9- SNPGTQ - H3-H4-H4-H5-H6-H7-H8-H9-H2) (SEQ ID NO:86) atgggtcatcatcatcatcatcatcacgattatgatattcctactactgagaatttgtattttcagggttccgtgacgcagga attctgggacaacctggaaaaagaaaccgagggactgcgtcaggaaatgtccaaagatttagaagaggtgaagg ccaaggttcagccatatctcgatgactttcagaaaaaatggcaggaagagatggaattatatcgtcaaaaggtggaa ccatatctcgatgactttcagaaaaaatggcaggaagagatggaattatatcgtcaaaaggtggaaccgctgcgtgc ggaactgcaagagggggcacgccaaaaactccatgagctccaagagaagctcagcccattaggcgaagaaatg cgcgatcgcgcccgtgcacatgttgatgcactccggactcatttggcgccgtattcggatgaacttcgccagcgtttggc cgcacgtctcgaggcgctgaaagaaaacgggggtgcccgcttggctgagtaccacgcgaaagcgacagaacac ctgagcaccttgagcgaaaaagcgaaaccggcgctggaagatctacgccagggcttattgtccaatccaggtaccc aaaaagatttagaagaggtgaaggccaaggttcagccatatctcgatgactttcagaaaaaatggcaggaagagat ggaattatatcgtcaaaaggtggaaccatatctcgatgactttcagaaaaaatggcaggaagagatggaattatatcg tcaaaaggtggaaccgctgcgtgcggaactgcaagagggggcacgccaaaaactccatgagctccaagagaag ctcagcccattaggcgaagaaatgcgcgatcgcgcccgtgcacatgttgatgcactccggactcatttggcgccgtatt cggatgaacttcgccagcgtttggccgcacgtctcgaggcgctgaaagaaaacgggggtgcccgcttggctgagta ccacgcgaaagcgacagaacacctgagcaccttgagcgaaaaagcgaaaccggcgctggaagatctacgcca gggcttattgcccgtgacgcaggaattctgggacaacctggaaaaagaaaccgagggactgcgtcaggaaatgtc
Table 50. Amino acid sequence MSP2N6 (SEQ ID NO:87)
MGHHHHHHHDYDIPTTENLYFQGSVTQEFWDNLEKETEGLRQEMSKDLEEVKAKV
QPYLDDFQKKWQEEMELYRQKVEPYLDDFQKKWQEEMELYRQKVEPLRAELQEG
ARQKLHELQEKLSPLGEEMRDRARAHVDALRTHLAPYSDELRQRLAARLEALKEN
GGARLAEYHAKATEHLSTLSEKAKPALEDLRQGLLSNPGTQKDLEEVKAKVQPYLD
DFQKKWQEEMELYRQKVEPYLDDFQKKWQEEMELYRQKVEPLRAELQEGARQKL
HELQEKLSPLGEEMRDRARAHVDALRTHLAPYSDELRQRLAARLEALKENGGARL
AEYHAKATEHLSTLSEKAKPALEDLRQGLLPVTQEFWDNLEKETEGLRQEMS
[00116] MSP derivatives have been prepared with the incorporation of cysteine residues into the scaffold proteins by point mutation. DNA coding and amino acid sequences are given in Tables 51 and 52, respectively. In MSP1 RC12' a cysteine residue is incorporated at the last residue in the Factor X recognition site. This mutant is used to prepare fluorescently labeled discs and attach to surfaces or matrices, for example, using heterofunctional cross linker molecules. In MSP1 K90C, Lysine90 is replaced by a cysteine. See Tables 53 and 54 for coding and amino acid sequences respectively. In MSP1 K152C, Lysine 152 is replaced by cysteine; see Tables 55 and 56. Table 51. DNA sequence encoding MSP1RC12' (SEQ ID NO:88)
Atgggtcatcatcatcatcatcacattgagggatgtctgaagctgttggacaattgggactctgttacgtctaccttcagta aacttcgcgaacaactgggccccgtgacgcaggaattctgggacaacctggaaaaagaaaccgagggactgcgt caggaaatgtccaaagatttagaagaggtgaaggccaaggttcagccatatctcgatgactttcagaaaaaatggc aggaagagatggaattatatcgtcaaaaggtggaaccgctgcgtgcggaactgcaagagggggcacgccaaaa actccatgagctccaagagaagctcagcccattaggcgaagaaatgcgcgatcgcgcccgtgcacatgttgatgca ctccggactcatttggcgccgtattcggatgaacttcgccagcgtttggccgcacgtctcgaggcgctgaaagaaaac gggggtgcccgcttggctgagtaccacgcgaaagcgacagaacacctgagcaccttgagcgaaaaagcgaaac cggcgctggaagatctacgccagggcttattgcctgttcttgagagctttaaagtcagttttctgtcagctctggaagaat atactaaaaagctgaatacccag
Table 52. MSP1RC12' Protein Sequence (SEQ ID NO:89)
MGHHHHHHIEGCLKLLDNWDSVTSTFSKLREQLGPVTQEFWDNLEKETEGLRQEM SKDLEEVKAKVQPYLDDFQKKWQEEMELYRQKVEPLRAELQEGARQKLHELQEKL SPLGEEMRDRARAHVDALRTHLAPYSDELRQRLAARLEALKENGGARLAEYHAKA TEHLSTLSEKAKPALEDLRQGLLPVLESFKVSFLSALEEYTKKLNTQ
Table 53. DNA sequence encoding MSP1 K90C (SEQ ID NO:90) atgggtcatcatcatcatcatcacattgagggacgtctgaagctgttggacaattgggactctgttacgtctaccttcagt aaacttcgcgaacaactgggccccgtgacgcaggaattctgggacaacctggaaaaagaaaccgagggactgcg tcaggaaatgtccaaagatttagaagaggtgaaggccaaggttcagccatatctcgatgactttcagaaaaaatggc aggaagagatggaattatatcgtcaaaaggtggaaccgctgcgtgcggaactgcaagagggggcacgccaatgtc tccatgagctccaagagaagctcagcccattaggcgaagaaatgcgcgatcgcgcccgtgcacatgttgatgcact ccggactcatttggcgccgtattcggatgaacttcgccagcgtttggccgcacgtctcgaggcgctgaaagaaaacg ggggtgcccgcttggctgagtaccacgcgaaagcgacagaacacctgagcaccttgagcgaaaaagcgaaacc ggcgctggaagatctacgccagggcttattgcctgttcttgagagctttaaagtcagttttctgtcagctctggaagaatat actaaaaagctgaatacccag
Table 54. MSP1K90C Protein sequence (SEQ ID NO:91)
MGHHHHHHIEGRLKLLDNWDSVTSTFSKLREQLGPVTQEFWDNLEKETEGLRQEM SKDLEEVKAKVQPYLDDFQKKWQEEMELYRQKVEPLRAELQEGARQCLHELQEKL SPLGEEMRDRARAHVDALRTHLAPYSDELRQRLAARLEALKENGGARLAEYHAKA TEHLSTLSEKAKPALEDLRQGLLPVLESFKVSFLSALEEYTKKLNTQ
Table 55. DNA sequence encoding MSP1K152C (SEQ ID NO:92) atgggtcatcatcatcatcatcacattgagggacgtctgaagctgttggacaattgggactctgttacgtctaccttcagt aaacttcgcgaacaactgggccccgtgacgcaggaattctgggacaacctggaaaaagaaaccgagggactgcg tcaggaaatgtccaaagatttagaagaggtgaaggccaaggttcagccatatctcgatgactttcagaaaaaatggc aggaagagatggaattatatcgtcaaaaggtggaaccgctgcgtgcggaactgcaagagggggcacgccaaaa actccatgagctccaagagaagctcagcccattaggcgaagaaatgcgcgatcgcgcccgtgcacatgttgatgca ctccggactcatttggcgccgtattcggatgaacttcgccagcgtttggccgcacgtctcgaggcgctgaaagaaaac gggggtgcccgcttggctgagtaccacgcatgcgcgacagaacacctgagcaccttgagcgaaaaagcgaaacc ggcgctggaagatctacgccagggcttattgcctgttcttgagagctttaaagtcagttttctgtcagctctggaagaatat actaaaaagctgaatacccag
Table 56. MSP1K152C Protein sequence (SEQ ID NO:93)
MGHHHHHHIEGRLKLLDNWDSVTSTFSKLREQLGPVTQEFWDNLEKETEGLRQEM SKDLEEVKAKVQPYLDDFQKKWQEEMELYRQKVEPLRAELQEGARQKLHELQEKL SPLGEEMRDRARAHVDALRTHLAPYSDELRQRLAARLEALKENGGARLAEYHACA TEHLSTLSEKAKPALEDLRQGLLPVLESFKVSFLSALEEYTKKLNTQ
[00117] The mutations in MSP1 K90C and in MSP1K152C are located on inter-helical interfaces. Discs were formed in the presence of DTT. The discs are more stable toward temperature-induced irreversible degradation. These are variants of the "Milano" mutations.
[00118] In addition to these sequences, there are two fusion protein constructs of reference. These are composed of two MSP1 constructs linked by a Gly-Ser linker: MSP2 (MSP1-Gly-Thr-MSP1 , SEQ ID NO:8) and MSP2D1 D1 (MSP1T3-Gly-Thr- H2-H3-H4-H5-H6-H7-H8-H9-H10, SEQ ID NO:70). [00119] Other constructs that can be readily produced include permutations of the above, i.e. MSP1 or MSP2 or MSP2a with any combination of the following: hinge deletion, hinge replacement, half-repeat deletion, histidine tag, different linkers for MSP2 analogs.
[00120] To express MSP proteins, the nucleic acid constructs were inserted between the Ncol and Hindlll sites in the pET28 expression vector and transformed into E. coli BL21(DE3). Transformants were grown on LB plates using kanamycin for selection. Colonies were used to inoculate 5 ml starter cultures grown in LB broth containing 30 μg/ml kanamycin. For overexpression, cultures were inoculated by adding 1 volume overnight culture to 100 volumes LB broth containing 30 μg/ml kanamycin and grown in shaker flasks at 370C. When the optical density at 600 nm reached 0.6-0.8, isopropyl- β-D-thiogalactopyranoside (IPTG) was added to a concentration of 1 mM to induce expression and cells were grown 3-4 hours longer before harvesting by centrifugation. Cell pellets were flash frozen and stored at -80°C.
[00121] Purification of histidine-tagged MSPs was carried out as follows.
A frozen cell pellet from 1 liter of expression culture was resuspended in 25 milliliters of 20 mM Tris HCI pH 7.5 containing 1 mM phenylmethylsulfonyl fluoride. Triton X-100 (t-octylphenoxypolyethoxyethanol) was added from a 10% (w/v) stock in distilled H20 to a final concentration of 1%. The resuspended cells were sonicated on ice at 50% duty cycle at a power setting of 5 for four cycles of 1 minute on, 5 minutes off with a Branson probe sonifier. The resulting lysate was centrifuged for 30 minutes at 30,000 rpm in a Beckman Ti 45 rotor in an ultracentrifuge. The resulting supernatant was filtered through a 0.22 μm nylon syringe filter. The salt concentration was adjusted to 0.5 M from a 4 M NaCI stock in water and applied to a 5 ml Hi-Trap nickel loaded column (Pharmacia, Piscataway, NJ).
[00122] For His-tagged-MSP1, the column is washed with 20 ml buffer
(10 mM Tris pH 8, 0.5 M NaCI) containing 1% Triton X-100, followed by 20 ml buffer + 50 mM sodium cholate, and then 20 ml buffer and 20 ml 100 mM imidazole in buffer. The His-tagged polypeptide is eluted with 15 ml 0.5 M imidazole in buffer. [00123] For His-tagged-MSP2, the column is washed with 20 ml buffer
(10 mM Tris pH 8, 0.5 M NaCI) containing 1% Triton X-100; 20 ml buffer + 50 mM cholate; 20 ml buffer; 20 ml 35 mM imidazole in buffer. The His-tagged polypeptide is then eluted with 15 ml 0.5 M imidazole in buffer, and the purified protein is dialyzed against 10 mM Tris pH 8, 0.15 M NaCI using a 10,000 MW cutoff cellulose dialysis membrane.
[00124] The amino acid sequence of the recombinant TF is given in
Table 57; see also SEQ ID NO:95. The mature rTF lacks the 22 N-terminal amino acids. The HPC4 epitope which allows immunoaffinity purification is at amino acids 23-35. The TF extracellular domain is amino acids 36-254; the transmembrane domain which inserts into the phospholipid bilayer of the disc- like nanoscale particles occurs at amino acids 255-277; and amino acids 278- 279 are the remnants of the cytoplasmic domain (most of which has been deleted. Expression of this rTF is carried out as described in Rezaie et al. 1992. Protein Expr. Purif. 3:453-460, 1992 and Smith SA and Morrissey J. H. 2004. J. Thromb. Haemost. 2:1610-1616. In general, although TF may not be specified as rTF, TF incorporated into nanoscale disc-like particles is the truncated rTF.
Table 57. Amino Acid Sequence of rTF (see also SEQ ID NO:95)
1 MKYLLPTAAA GLLLLAAQPA MAAEDQVDPR LIDGKSGTTN TVAAYNLTWK STNFKTILEW
61 EPKPVNQVYT VQISTKSGDW KSKCFYTTDT ECDLTDEIVK DVKQTYLARV FSYPAGNVES
121 TGSAGEPLYE NSPEFTPYLE TNLGQPTIQS FEQVGTKVNV TVEDERTLVR RNNTFLSLRD
181 VFGKDLIYTL YYWKSSSSGK KTAKTNTNEF LIDVDKGENY CFSVQAVIPS RTVNRKSTDS
241 PVECMGQEKG EFREIFYIIG AVVFVVIILV IILAISLHK
[00125] All references cited herein are hereby incorporated by reference to the extent there is no inconsistency with the present disclosure; and the references cited herein reflect the level of skill in the relevant arts. [00126] In general the terms and phrases used herein have their art- recognized meaning, which can be found by reference to standard texts, journal references and contexts known to those skilled in the art.
[00127] As used herein, "comprising" is synonymous with "including,"
"containing," or "characterized by," and is inclusive or open-ended and does not exclude additional, unrecited elements or method steps. As used herein, "consisting of excludes any element, step, or ingredient not specified in the claim element. As used herein, "consisting essentially of does not exclude materials or steps that do not materially affect the basic and novel characteristics of the claim. Any recitation herein of the term "comprising", particularly in a description of components of a composition or in a description of elements of a device, is understood to encompass those compositions and methods consisting essentially of and consisting of the recited components or elements. The invention illustratively described herein suitably may be practiced in the absence of any element or elements, limitation or limitations not specifically disclosed herein.
[00128] The exact formulation, route of administration and dosage can be chosen by the individual physician in view of the patient's condition (see e.g. Fingl et al., in The Pharmacological Basis of Therapeutics, 1975, Ch. 1 p. 1).
[00129] It should be noted that the attending physician would know how to and when to terminate, interrupt, or adjust administration due to toxicity, or to organ dysfunctions, or to other adverse effects. Conversely, the attending physician would also know to adjust treatment to higher levels if the clinical response were not adequate (precluding toxicity). The magnitude of an administered dose in the management of the disorder of interest will vary with the severity of the condition to be treated and to the route of administration. The severity of the condition may, for example, be evaluated, in part, by standard prognostic evaluation methods. Further, the dose and dose frequency may also vary according to the age, body weight, and response of the individual patient. A program comparable to that discussed above also may be used in veterinary medicine. [00130] Depending on the specific conditions being treated and the targeting method selected, such agents may be formulated and administered systemically or locally. Techniques for formulation and administration may be found in Alfonso and Gennaro (1995). Suitable routes may include, for example, oral, rectal, transdermal, vaginal, transmucosal, or intestinal administration; parenteral delivery, including intramuscular, subcutaneous, or intramedullary injections, as well as intrathecal, intravenous, or intraperitoneal injections.
[00131] For injection, the agents of the invention may be formulated in aqueous solutions, preferably in physiologically compatible buffers such as Hanks' solution, Ringer's solution, or physiological saline buffer. For transmucosal administration, penetrants appropriate to the barrier to be permeated are used in the formulation. Such penetrants are generally known in the art.
[00132] Use of pharmaceutically acceptable carriers to formulate the compounds herein disclosed for the practice of the invention into dosages suitable for systemic administration is within the scope of the invention. With proper choice of carrier and suitable manufacturing practice, the compositions of the present invention, in particular those formulated as solutions, may be administered parenterally, such as by intravenous injection. Appropriate compounds can be formulated readily using pharmaceutically acceptable carriers well known in the art into dosages suitable for oral administration. Such carriers enable the compounds of the invention to be formulated as tablets, pills, capsules, liquids, gels, syrups, slurries, suspensions and the like, for oral ingestion by a patient to be treated.
[00133] Pharmaceutical compositions suitable for use in the present invention include compositions wherein the active ingredients are contained in an effective amount to achieve the intended purpose. Determination of the effective amounts is well within the capability of those skilled in the art, especially in light of the detailed disclosure provided herein. [00134] In addition to the active ingredients, these pharmaceutical compositions may contain suitable pharmaceutically acceptable carriers comprising excipients and auxiliaries which facilitate processing of the active compounds into preparations which can be used pharmaceutically. The preparations formulated for oral administration may be in the form of tablets, dragees, capsules, or solutions, including those formulated for delayed release or only to be released when the pharmaceutical reaches the small or large intestine.
[00135] The pharmaceutical compositions of the present invention may be manufactured in a manner that is itself known, e.g., by means of conventional mixing, dissolving, granulating, dragee-making, levitating, emulsifying, encapsulating, entrapping or lyophilizing processes.
[00136] Pharmaceutical formulations for parenteral administration include aqueous solutions of the active compounds in water-soluble form. Additionally, suspensions of the active compounds may be prepared as appropriate oily injection suspensions. Suitable lipophilic solvents or vehicles include fatty oils such as sesame oil, or synthetic fatty acid esters, such as ethyl oleate or triglycerides, or liposomes. Aqueous injection suspensions may contain substances which increase the viscosity of the suspension, such as sodium carboxymethyl cellulose, sorbitol, or dextran. Optionally, the suspension may also contain suitable stabilizers or agents which increase the solubility of the compounds to allow for the preparation of highly concentrated solutions.
[00137] Pharmaceutical preparations for oral use can be obtained by combining the active compounds with solid excipient, optionally grinding a resulting mixture, and processing the mixture of granules, after adding suitable auxiliaries, if desired, to obtain tablets or dragee cores. Suitable excipients are, in particular, fillers such as sugars, including lactose, sucrose, mannitol, or sorbitol; cellulose preparations such as, for example, maize starch, wheat starch, rice starch, potato starch, gelatin, gum tragacanth, methyl cellulose, hydroxypropylmethyl-cellulose, sodium carboxymethylcellulose, and/or polyvinylpyrrolidone (PVP). If desired, disintegrating agents may be added, such as the cross-linked polyvinyl pyrrolidone, agar, or alginic acid or a salt thereof such as sodium alginate.
[00138] Dragee cores are provided with suitable coatings. For this purpose, concentrated sugar solutions may be used, which may optionally contain gum arabic, talc, polyvinyl pyrrolidone, carbopol gel, polyethylene glycol, and/or titanium dioxide, lacquer solutions, and suitable organic solvents or solvent mixtures. Dyestuffs or pigments may be added to the tablets or dragee coatings for identification or to characterize different combinations of active compound doses.
[00139] Pharmaceutical preparations which can be used orally include push-fit capsules made of gelatin, as well as soft, sealed capsules made of gelatin and a plasticizer, such as glycerol or sorbitol. The push-fit capsules can contain the active ingredients in admixture with filler such as lactose, binders such as starches, and/or lubricants such as talc or magnesium stearate and, optionally, stabilizers. In soft capsules, the active compounds may be dissolved or suspended in suitable liquids, such as fatty oils, liquid paraffin, or liquid polyethylene glycols. In addition, stabilizers may be added.
[00140] The terms and expressions which have been employed are used as terms of description and not of limitation, and there is no intention in the use of such terms and expressions to exclude any equivalents of the features shown and described or portions thereof, but it is recognized that various modifications are possible within the scope of the invention claimed. Thus, it should be understood that although the present invention has been specifically disclosed by particular embodiments and optional features, modification and variation of the concepts herein disclosed may be resorted to by those skilled in the art, and that such modifications and variations are considered to be within the scope of this invention as defined by the appended claims.
[00141] Although the description herein contains certain specific examples and information, these should not be construed as limiting the scope of the invention but rather as merely providing illustrations of some of the presently preferred embodiments of the invention. For example, thus the scope of the invention should be determined by the appended claims and their equivalents, rather than by the examples given.

Claims

WHAT IS CLAIMED IS:
1. The use of nanoscale particles comprising tissue factor or recombinant tissue factor, a membrane scaffold protein and phospholipid, in a method for controlling bleeding in a human or animal patient, said method comprising the step of administering, in an amount effective to control bleeding in said patient, whereby bleeding in said patient is controlled.
2. The use of claim 1 , wherein the phospholipid comprises a net-negatively charged phospholipid.
3. The use of claim 1, wherein the phospholipid comprises from 1 to 50% on a molar basis of net-negative charged phospholipid and from 50 to 99% net- neutral phospholipid.
4. The use of claim 1, wherein the phospholipid consists essentially of phosphatidylserine and phosphatidylcholine or phosphatidylserine and phosphatidylethanolamine in a molar ratio of 20:80 or essentially of phosphatidylserine, phosphatidylcholine and phosphatidylethanolamine in a molar ratio of 20:40:40.
5. The use of claim 1 , wherein the human or animal patient has a hemophilia, a thrombocytopenia or other bleeding diathesis.
6. The use of claim 1, wherein the patient has a surgical, wound or soft tissue trauma resulting in bleeding.
7. The use of any of claims 1 to 6, wherein the nanoscale particles are attached to a solid support.
8. The use of any of claims 1 to 7, wherein the solid support is a collagen- containing material.
9. The use of claim 7, wherein the solid support is a chitin-containing material, a chitosan-containing material, material containing a chitosan derivative or a cellulose-containing material.
10. The use of nanoscale particles comprising tissue factor or recombinant tissue factor, a membrane scaffold protein and a phospholipid in a method of inhibiting tumor growth in a human or animal patient, said method comprising the step of administering, in an amount effective to cause clotting in a tumor, whereby tumor growth is inhibited.
11. The use of claim 10, wherein the phospholipid comprises a net negatively charged phospholipid.
12. The use of claim 11, wherein the net negatively charged phospholipid is from 1 to 50% of the phospholipid on a mole percent basis.
13. The use of any of claims 1 to 12, wherein the nanoscale particles are embedded in a slow release material.
14. The use of any of claims 1 to 13, wherein the nanoscale particles comprise at least one targeting molecule specific for the tumor.
15. The use of claim 14, wherein the targeting molecule is a lectin, single chain antibody, or an antigen-binding fragment of an antibody.
16. The use of any of claims 1 to 15, wherein the membrane scaffold protein comprises an amino acid sequence selected from the group consisting of SEQ ID NO:2, SEQ ID NO: 4, SEQ ID NO:6, SEQ ID NO:8, amino acids 13- 414 of SEQ ID NO:8, SEQ ID NO:10, amino acids 13-422 of SEQ ID NO:10, SEQ ID NO:12, amino acids 13-168 of SEQ ID NO:12, SEQ ID NO:14, amino acids 13-168 of SEQ ID NO:14, SEQ ID NO:16, amino acids 13-201 of SEQ ID NO:16, SEQ ID NO:17, amino acids 13-201 of SEQ ID NO:17, SEQ ID NO:18, amino acids 13-392 of SEQ ID NO:18, SEQ ID NO:50, amino acids 13-234 of SEQ ID NO:50, SEQ ID NO:51, amino acids 13-256 of SEQ ID NO:51, SEQ ID NO:52, amino acids 13-278 of SEQ ID NO:52, SEQ ID NO:53, amino acids 24-223 of SEQ ID NO:53, SEQ ID NO:54, SEQ ID NO:55, amino acids 24-212 of SEQ ID NO:55, SEQ ID NO:56, SEQ ID NO:57, amino acids 24-201 of SEQ ID NO:57, SEQ ID NO:58, amino acids 13-190 of SEQ ID NO:58, SEQ ID NO:59, amino acids 13-201 of SEQ ID NO:59, SEQ ID NO:60, amino acids 13-190 of SEQ ID NO:60, SEQ ID NO:61, amino acids 24-201 of SEQ ID NO:61, SEQ ID NO:62, amino acids 24-190 of SEQ ID NO:62, SEQ ID NO:63, amino acids 24-179 of SEQ ID NO:63, SEQ ID NO:64, amino acids 24-289 of SEQ ID NO:64, SEQ ID NO:65, amino acids 24-289 of SEQ ID NO:64, SEQ ID NO:65, amino acids 24-278 of SEQ ID NO:65, SEQ ID NO:66, amino acids 24-423 of SEQ ID NO:66, SEQ ID NO:67, amino acids 24-199 of SEQ ID NO:67, SEQ ID NO:68, amino acids 24-401 of SEQ ID NO:68, SEQ ID NO:69, amino acids 24-392 of SEQ ID NO:69, SEQ ID NO:81, amino acids 24-397 of SEQ ID NO:81, SEQ ID NO:83, amino acids 24-383 of SEQ ID NO:83, SEQ ID NO:85, amino acids 24-379 of SEQ ID NO:85, SEQ ID NO:87, amino acids 24-381 of SEQ ID NO:87, SEQ ID NO:89, amino acids 25-212 of SEQ ID NO:89, SEQ ID NO:91, amino acids 25-212 of SEQ ID NO:91, SEQ ID NO:93 and amino acids 13-212 of SEQ ID 93.
17. The use of any of claims 1 to 16, wherein the tissue factor is a recombinant tissue factor consisting of amino acids 23 to 277 of SEQ ID NO:95.
18. A kit for performing a prothrombin clotting time assay, said kit comprising nanoscale disc-like particles consisting essentially of tissue factor or recombinant tissue factor, phospholipid and a membrane scaffold protein.
19. A method for performing a prothrombin clotting time assay in blood or plasma sample, said method comprises the step of adding nanoscale particles consisting essentially of tissue factor or recombinant tissue factor, phospholipid and a membrane scaffold protein to a blood or plasma sample.
20. A composition comprising nanoscale particles consisting of tissue factor, membrane scaffold protein and at least one net negatively charged phosphlipid, wherein said particles are bound to a solid support.
21. The composition of claim 19 wherein said particles are noncovalently bound to the solid support.
22. The composition of claim 20, wherein said particles are covalently bound to the solid support. 3. The composition of claim 20, wherein the solid support is a silicon chip, a cellulosic material, a polymeric material, or a collagen-containing material.
EP05825139A 2004-10-27 2005-10-27 Tissue factor composition and methods Withdrawn EP1812032A4 (en)

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