Human Blood Plasma Proteins: Structure and Function

Human Blood Plasma Proteins: Structure and Function

Volumn , Issue , 2008, Pages 1-526

  Schaller, Johann ^a   Gerber, Simon ^a   Kämpfer, Urs ^a   Lejon, Sofia ^a   Trachsel, Christian ^a  

^a UNIVERSITY OF BERN   (Switzerland)

Author keywords

[No Author keywords available]

Indexed keywords

EID: 54849406404     PISSN: None     EISSN: None     Source Type: Book    
DOI: 10.1002/9780470724378     Document Type: Book

References (257)

1. Anderson and Anderson, 2002, The human plasma proteome, history, character and diagnostic prospects,Mol. Cell. Proteomics, 1, 845-867.
2. Anderson et al., 2004, The human plasma proteome. A nonredundant list developed by combination of four separate sources, Mol. Cell. Proteomics, 3, 311-326.
3. Branden and Tooze, 1999, Introduction to Protein Structure, Garland Publishing, New York.
4. Haeberli, 1998, Human Protein Data: Fourth Installment, John Wiley & Sons, Ltd, Chichester, West Sussex.
5. Michel, 1998, Biochemical Pathways: An Atlas of Biochemistry and Molecular Biology, Wiley-Spektrun, New York.
6. Omenn, 2005, Exploring the human plasma proteome, The HUPO plasma proteome project (HPPP). Proteomics, 5 (13), 3223-3550.
7. Pieper et al., 2003, The, human serum proteome: display of nearly 3700 chromatographically separated protein spots on two-dimensional electrophoresis gels and identification of 325 distinct proteins. Proteomics, 3, 1345-1364.
8. Putnam, 1975-1987, The Plasma Proteins: Structure Function and Genetic control, Academic Press, New York.
9. Voet and Voet, 2004, Biochemistry, John Wiley & Sons, Ltd, Chichester West Sussex.
10. Whitford, 2005, Proteins: Structure and Function, John Wiley & Sons, Ltd, Chichester West Sussex.
11. Cianchi, 1998, Leonardo. The Anatomy, Giunti, Prato, Italy.
12. Lodish et al., 2003, Molecular Cell Biology, Freeman, New York.
13. Lutz, 2002, The Rise of Experimental Biology. An Illustrated History, Humana Press, Totowa, New Jersey.
14. Marsh et al., 2005, Nomenclature for factors of the HLA system, 2004, Tissue Antigens, 65, 301-369.
15. Michel, 1998, Biochemical Pathways: An Atlas of Biochemistry and Molecular Biology, Wiley-Spektrun, New York.
16. Zink et al., 1991, The Living Microcosm. Electron-microscopic Pictures, Editiones Roche, Basel.
17. Anderson and Anderson, 2002, The human plasma proteome: history, character, and diagnostic prospects, Mol. Cell. Proteomics, 1, 845-867.
18. Anderson et al., 2004, The human plasma proteome: a nonredundant list developed by combination of four separate sources, Mol. Cell. Proteomics, 3, 311-326.
19. Cohn, 1948, The history of blood plasma fractionation, Adv. Mil. Med., 1, 364-443.
20. Pieper et al., 2003, The human serum proteome: display of nearly 3700 chromatographically separated protein spots on two-dimensional electrophoresis gels and identification of 325 distinct proteins, Proteomics, 3, 1345-1364.
21. Putnam, 1975-1987, The Plasma Proteins: Structure, Function and Genetic Control, Academic Press, New York.
22. Schultze and Heremans, 1966, Molecular Biology of Human Proteins with Special Reference to Plasma Proteins, Elsevier, New York.
23. Amoresano, et al., 2001, Assignment of the complete disulfide bridge pattern in the human recombinant follitropin beta-chain, Biol. Chem., 382, 961-968.
24. An, et al., 1998, Structural/functional properties of the Glu 1-HSer 57 N-terminal fragment of human plasminogen: conformational characterization and interaction with kringle domains, Protein Sci., 7, 1947-1959.
25. Appella, et al., 1988, Structure and function of epidermal growth factor-like regions in proteins, FEBS Lett., 231, 1-4.
26. Banner, et al., 1996, The crystal structure of the complex of blood coagulation factor VIIa with soluble tissue factor, Nature, 380, 41-46.
27. Banyai and Patthy, 1999, TheNTRmodule: domains of netrin, secreted frizzled related protein and type I procollagen C-proteinase enhancer protein are homologous with tissue inhibitors of metalloproteinases, Protein Sci., 8, 1636-1642.
28. Baron, et al., 1990, Structure of the fibronectin type 1 module, Nature, 345, 642-646.
29. Bork, 1991, Shuffled domains in extracellular proteins, FEBS Lett., 286, 47-54.
30. Bork and Beckmann, 1993, The CUB domain. A widespread module in developmentally regulated proteins, J. Mol. Biol., 231, 539-545.
31. Bramham, et al., 2005, Functional insights from the structure of the multifunctional C345C domain of C5 of complement, J. Biol. Chem., 280, 10636-10645.
32. Daly, et al., 1995, Three-dimensional structure of a cysteine-rich repeat from the low-density lipoprotein receptor, Proc. Natl. Acad. Sci. USA, 92, 6334-6338.
33. Dolmer, et al., 1993, Disulfide bridges in human complement component C3b, FEBS Lett., 315, 85-90.
34. Drickamer, 1988, Two distinct classes of carbohydrate-recognition domains in animal lectins, J. Biol. Chem., 263, 9557-9560.
35. Emsley, et al., 1998, Crystal structure of the von Willebrand factor A1 domain and implications for collagen binding, J. Biol. Chem., 273, 10396-10401.
36. Fan, et al., 2005, Structure of human follicle-stimulating hormone in complex with its receptor, Nature, 433, 269-277.
37. Feinberg, et al., 2003, Crystal, structure of the CUB1-EGF-CUB2region of mannose-binding protein associated serine protease 2,EMBOJ., 22, 2348-2359.
38. Freedman, et al., 1995, Structure of the calcium-ion bound gamma-carboxyglutamic acid-rich domain of factor IX, Biochemistry, 34, 12126-12137.
39. Gao, et al., 2003, Structure and functional significance of mechanically unfolded fibronectin type III 1 intermediates, Proc. Natl. Acad. Sci. USA, 100, 14784-14789.
40. Guertin et al., 2002, Optimization of the b-aminoester class factor Xa inhibitors. Part 2: identification of FXV673 as a potent and selective inhibitor with excellent in vivo anticoagulant activity, Bioorg. Med. Chem. Lett., 12, 1671-1674.
41. Halaby, et al., 1999, The immunoglobulin fold family: sequence analysis and 3D structure comparisons, Protein Eng., 12, 563-571.
42. Hamburger, et al., 2004, Crystal structure of a polymeric immunoglobulin binding fragment of the human polymeric immunoglobulin receptor, Structure, 12, 1925-1935.
43. Huang, et al., 2004, Crystal structure of the calcium-stabilized human factor IX Gla domain bound to a conformation-specific anti-factor IX antibody, J. Biol. Chem., 279, 14338-14346.
44. Hugli, 1986, Biochemistry and biology of anaphylatoxins, Complement, 3, 111-127.
45. Huizinga, et al., 1997, Crystal structure of the A3 domain of the human von Willebrand factor: implications for collagen binding, Structure, 5, 1147-1156.
46. Janssen, et al., 2005, Structures of the complement C3 provide insights into the function and evolution of immunity, Nature, 437, 505-511.
47. Jeon, et al., 2001, Implications for familial hypercholesterolemia from the structure of the LDL receptor YWTD-EGF domain pair, Nat. Struct. Biol., 8, 499-504.
48. Kane and Davie, 1988, Blood coagulation factorsVand VIII: structural and functional similarities and their relationship to hemorrhagic and thrombotic disorders, Blood, 71, 539-555.
49. Kastrup, et al., 1998, Structure of the C-type lectin carbohydrate recognitiondomain ofhumantetranectin, Acta Crystallogr.D, 54, 757-766.
50. Kvansakul, et al., 2004, Structure of the thrombospondin C-terminal fragment reveals a novel calcium core in the type 3 repeats, EMBO J., 23, 1223-1233.
51. Lawler and Hynes, 1986, The structure of human thrombospondin, an adhesive glycoprotein with multiple calcium-binding sites and homologies with several different proteins, J. Cell. Biol., 103, 1635-1648.
52. Leahy, et al., 1992, Structure of afibronectin type III domainfrom tenascin phased byMADanalysis of the selenomethionyl protein, Science, 258, 987-991.
53. Marti, et al., 1999, Solution structure and dynamics of the plasminogen kringle 2-AMCHA complex: 3(1)-helix in homologous domains, Biochemistry, 38, 15741-15755.
54. Macedo-Ribeiro et al., 1999, Crystal structure of the membrane-binding C2 domain of human coagulation factor V, Nature, 402, 434-439.
55. Muranyi, et al., 1998, Solution structure of the N-terminal EGF-like domain from human factor VII, Biochemistry, 37, 10605-10615.
56. Norman, et al., 1991, Three-dimensional structure of the complement control protein module in solution, J. Biol. Chem., 219, 717-725.
57. Patthy, et al., 1985, Evolution of the proteases of blood coagulation and fibrinolysis by assembly from modules, Cell, 41, 657-663.
58. Pickford, et al., 2001, The hairpin structure of the (6)F1(1)F2(2)F2fragment fromhumanfibronectin enhances gelatin binding, EMBOJ., 20, 1519-1529.
59. Pratte et al., 1999, Structure of the C2 domain of human factor VIII at 1.5 Angstrom resolution, Nature, 402, 439-442.
60. Reid and Day, 1989, Structure-function relationships of the complement components, Immunol. Today, 10, 177-180.
61. Rudenko, et al., 2002, Structure of the LDL receptor extracellular domain at endosomal pH, Science, 298, 2353-2358.
62. Selander-Sunnerhagen, et al., 1992, How an epidermal growth factor (EGF)-like domain binds calcium. High resolutionNMRstructure of the calcium form of the, NH2-terminal EGF-like domain in coagulation factor X, J. Biol. Chem., 267, 19642-19649.
63. Schwarzenbacher, et al., 1999, Crystal structure ofhumanb2-glycoprotein I: implications for phospholipid binding and the antiphospholipid syndrome, EMBO J., 18, 6228-6239.
64. Springer 1998, An extracellular beta-propeller module predicted in lipoprotein and scavenger receptors, tyrosine kinases, epidermal growth factor precursor, and extracellular matrix components, J. Mol. Biol., 283, 837-862.
65. Sticht, et al., 1998, Solution structure of the glycosylated second type 2 module of fibronectin, J. Mol. Biol., 276, 177-187.
66. Sun and Davies, 1995, The cystine-knot growth-factor superfamily, Annu. Rev. Biophys. Biomol. Struct., 24, 269-291.
67. Tan, et al., 2002, Crystal structure of the TSP-1 type 1 repeat: a novel layered fold and its biological implication, J. Cell. Biol., 159, 373-382.
68. Tan, et al., 2006, The structures of the thrombospondin-1 N-terminal domain and its complex with a synthetic pentameric heparin, Structure, 14, 33-42.
69. Tordai, et al., 1999, The PAN module: the N-terminal domains of plasminogen and hepatocyte growth factor are homologous with the apple domains of the prekallikrein family and with a novel domain found in numerous nematode proteins, FEBS Lett., 461, 63-67.
70. Turk and Bode, 1991, The cystatins: protein inhibitors of cysteine proteinases, FEBS Lett., 285, 213-219.
71. Ultsch, et al., 1998, Crystal structure of the NK1 fragment of human hepatocyte growth factor at 2.0Åresolution, Structure, 6, 1383-1393.
72. Vermeer, 1990, Gamma-carboxyglutamate-containing proteins and the vitamin-K dependent carboxylase, Biochem. J., 266, 625-636.
73. Williams, et al., 1994, Solution structure of a pair of fibronectin type I modules with fibrin binding activity, J. Mol. Biol., 235, 1302-1311.
74. Arkin et al., 2003, Binding of small molecules to an adaptive protein-protein interface, Proc. Natl. Acad. Sci. USA, 100, 1603-1608.
75. Bazan, 1993, Emerging families of cytokines and receptors, Curr. Biol., 3, 603-606.
76. Blundel et al., 1980, Hormone families: pancreatic hormones and homologous growth factors, Nature, 287, 781-787.
77. Bouley et al., 1993, Hematopoietin sub-family classification based on size, gene organisation and sequence homology, Curr. Biol., 3, 573-581.
78. Breimer et al., 1988, Peptides from the calcitonin genes: molecular genetics, structure and function, Biochem. J., 255, 377-390.
79. Cha et al., 1998, High resolution crystal structure of a human tumor necrosis factor-alpha mutant with low systemic toxicity, J. Biol. Chem., 273, 2153-2160.
80. Cheetham et al., 1998, NMRstructure of human erythropoietin and a comparison with its receptor bound conformation, Nat. Struct. Biol., 5, 861-866.
81. De Maeyer et al., (eds.) 1988, Interferons and Other Regulated Cytokines, John Wiley & Sons, Inc. New York.
82. Delain et al., 1992, Ultrastructure of alpha 2-macroglobulin, Electron Microsc. Rev., 5, 231-281.
83. Dinarello, 1988, Biology of interleukin 1, FASEB J., 2, 108-115.
84. Elliott et al., 2000, Topology of a 2.0 A structure of alpha 1-antitrypsin reveals targets for rational drug design to prevent conformational disease, Protein Sci., 9, 1274-1281.
85. Finzel et al., 1989, Crystal structure of recombinant human interleukin-1 beta at 2.0 A resolution, J. Mol. Biol., 209, 779-791.
86. Finkelman et al., 1990, Lymphokine control of in vivo immunoglobulin isotype selection, Annu. Rev. Immunol., 8, 303-333.
87. Flower et al., 1993, Structure and sequence relationships in the lipocalins and related proteins, Protein Sci., 2, 753-761.
88. Fox et al., 2001, Three-dimensional structure of human follicle-stimulating hormone, Mol. Endocrinol., 15, 378-389.
89. Friedrich et al., 1993, A Kazal-type inhibitor with thrombin specificity from Rhodnius proxilus, J. Biol. Chem., 268, 16216-16222.
90. Gaboriaud et al., 1996, Crystal structure of human trypsin 1: unexpected phosphorylation of Tyr151, J. Mol. Biol., 259, 995-1010.
91. Goodman et al., 1988, An evolutionary tree for invertebrate globin sequences, J. Mol. Evol., 27, 236-249.
92. Haefliger et al., 1989, Amphibian albumins as members of the albumin, alpha-fetoprotein, vitamin D-binding protein multigene family, J. Mol. Evol., 29, 344-354.
93. Hect et al., 1992, Three-dimensional structure of a recombinant variant of human pancreatic secretory trypsin inhibitor (Kazal type), J. Mol. Biol., 225, 1095-1103.
94. Heldin, 1992, Structural and functional studies on platelet-derived growth factor, EMBO J., 11, 4251-4259.
95. Helland et al., 1998, The crystal structure of anionic salmon trypsin in complex with bovine pancreatic trypsin inhibitor, Eur. J. Biochem., 256, 317-324.
96. Hinck et al., 1996, Transforming growth factor beta 1: three dimensional structure in solution and comparison with X-ray structure of transforming growth factor beta 2, Biochemistry, 35, 8517-8534.
97. Janssen et al., 2005, Structures of complement component C3 provide insights into the function and evolution of immunity, Nature, 437, 505-511.
98. Kavanaugh et al., 1998, High-resolution crystal structures of human hemoglobin with mutations at tryptophan 37beta: structural basis for a high-affinity T-state, Biochemistry, 37, 4358-4373.
99. Kishimoto et al., 1988, A new interleukin with pleiotropic activities, BioEssays, 9, 11-15.
100. Klaus et al., 1997, The three-dimensional high resolution structure of human interferon alpha-2a determined by heteronuclear NMR spectroscopy in solution, J. Mol. Biol., 274, 661-675.
101. Koury et al., 1992, The molecular mechanism of erythropoietin action, Eur. J. Biochem., 210, 649-663.
102. Lapthorn et al., 1994, Crystal structure of human chorionic gonadotropin, Nature, 369, 455-461.
103. Lederis et al., 1990, Evolutionary aspects of corticotropin releasing hormones, Prog. Clin. Biol. Res., 342, 467-472.
104. Mann et al., 1988, Cofactor proteins in the assembly and expression of blood clotting enzyme complexes, Annu. Rev. Biochem., 57, 915-956.
105. Maurits et al., 1997, The second Kunitz domain of human tissue factor pathway inhibitor: cloning, structure determination and interaction with factor Xa, J. Mol. Biol., 269, 395-407.
106. Metcalf, 1985, The granulocyte-macrophage colony-stimulating factors, Science, 229, 16-22.
107. Minty et al., 1993, Interleukin-13 is a new lymphokine regulating inflammatory and immune responses, Nature, 362, 248-250.
108. Mizel, 1989, The interleukins, FASEB J., 3, 2379-2388.
109. Moore et al., 1993, Interleukin-10, Annu. Rev. Immunol., 11, 165-190.
110. Mutt, 1988, Vasoactive intestinal polypeptide and related peptides. Isolation and chemistry, Ann. NY Acad. Sci., 527, 1-19.
111. O'Donoghueet al., 2000, Unravelling the symmetry ambiguity in a hexamer: calculation of theR6humaninsulin structure, J. Biomol.NMR, 16, 93-108.
112. Oefner et al., 1992, Crystal structure of human platelet-derived growth factor BB, EMBO J., 11, 3921-3926.
113. Oppenheim et al., 1991, Properties of the novel proinflammatory supergene 0intercrine0 cytokine family, Annu. Rev. Immunol., 9, 617-648.
114. Ortlund et al., 2002, Crystal structure of human complement protein C8gamma at 1.2 A resolution reveals a lipocalin fold and a distinct ligand-binding site, Biochemistry, 41, 7030-7037.
115. Ouzounis et al., 1991, A structure-derived sequence pattern for the detection of type I copper binding domains in distantly related proteins, FEBS Lett., 279, 73-78.
116. Peitsch, et al., 1991, Assembly of macromolecular pores by immune defence systems, Curr. Opin. Cell. Biol., 3, 710-716.
117. Persson et al., 1989, Structural features of lipoprotein lipases. Lipase family relationships, binding interactions, non-equivalence of lipase cofactors, vitellogenin similarities and functional subdivision of lipoprotein lipase, Eur. J. Biochem., 179, 39-45.
118. Pierce et al., 1991, Glycoprotein hormones: structure and function, Annu. Rev. Biochem., 50, 465-495.
119. Powers et al., 1993, The high-resolution, three-dimensional solution structure of human interleukin-4 determined by multidimensional heteronuclear magnetic resonance spectroscopy, Biochemistry, 32, 6744-6762.
120. Rawlings and Barrett, 1994, Families of serine peptidases, Meth. Enzymol., 244, 19-61.
121. Reid, 1988, in Molecular Immunology (eds. Hames et al.), IRL-Press, Oxford, pp. 189-241.
122. Roussel et al., 1998, Reactivation of the totally inactive pancreatic lipaseRP1by structure-predicted point mutations, Proteins, 32, 523-531.
123. Salier, 1990, Inter-alpha-trypsin inhibitor. Emergence of a family within the Kunitz-type protease inhibitor superfamily, Trends Biochem. Sci., 15, 435-439.
124. Schlunegger et al., 1992, Anunusual feature revealed by the crystal structure at 2.2Aresolution of humantransforming growth factor-beta 2, Nature, 358, 430-434.
125. Sherwood, 1987, The GnRH family of peptides, Trends in Neurosci., 10, 129-132.
126. Smith, 1988, Interleukin-2: Inception, impact and implications, Science, 240, 1169-1176.
127. Sottrup-Jensen, 1989, Alpha-macroglobulins: structure, shape, and mechanism of proteinase complex formation, J. Biol. Chem., 264, 11539-11542.
128. Spyroulias et al., 2002, Monitoring the structural consequences of Phe12!D-Phe and Leu15 (Aib substitution in human/rat corticotropin releasing hormone, Eur. J. Biochem., 269, 6009-6019.
129. Sturm et al., 1998, Structure-function studies on positions 17,18 and 21 replacement analogues of glucagon: the importance of charged residues and salt bridges in glucagon biological activity, J. Med. Chem., 41, 2693-2700.
130. Sugio et al., 1999, Crystal structure of human serum albumin at 2.5 A resolution, Protein Eng., 12, 439-446.
131. Whisstock et al., 1998, An atlas of serpin conformations, Trends Biochem. Sci., 23, 63-67.
132. Wiborg et al., 1984, Structure of a human gastrin gene, Proc. Natl. Acad. Sci. USA, 81, 1067-1069.
133. Xu et al., 1997, Solution structure of recombinant human interleukin-6, J. Mol. Biol., 268, 468-481.
134. Zaitseva et al., 1996, The X-ray structure of human serum ceruloplasmin at 3.1 A: nature of the copper centres, J. Biol. Inorg. Chem., 1, 15-23.
135. Zdanov et al., 1995, Crystal structure of interleukin-10 reveals the functional dimer with an unexpected topological similarity to interferon gamma, Structure, 3, 591-601.
136. Zhang et al., 1994, Crystal structure of recombinant human platelet factor 4, Biochemistry, 33, 8361-8366.
137. Ahvazi et al., 2003, A model of the reaction mechanisms of the transglutaminase 3 enzyme, Exp. Mol. Med., 35, 228-242.
138. Anfinsen et al., 1961, The kinetics of formation of native ribonuclease during oxidation of the reduced polypeptide chain, Proc. Natl. Acad. Sci. USA, 47, 1309-1314.
139. Apweiler et al., 2004, UniProt: the universal protein knowledgebase, Nucleic Acids Res., 32, (database use), D115-D119.
140. Arolas et al., 2006, Folding of small disulfide-rich proteins: clarifying the puzzle, Trends Biochem. Sci., 31, 292-301.
141. Blom et al., 1999, Sequence-and structure-based prediction of eukaryotic protein phosphorylation sites, J. Mol. Biol., 294, 1351-1362.
142. Bradbury et al., 1991, Peptide amidation, Trends Biochem. Sci., 16, 112-115.
143. Cohen, 1989, The structure and regulation of protein phosphatases, Annu. Rev. Biochem., 58, 453-508.
144. Diella et al., 2004, Phospho.ELM: a database of experimentally verified phosphorylation sites in eukaryotic proteins, BMC Bioinformatics, 5, 79.
145. Driessen et al., 1985, The mechanism of N-terminal acetylation of proteins, CRC Crit. Rev. Biochem., 18, 281-325.
146. Dyrlov et al., 2004, Improved prediction of signal peptides: SignalP 3.0, J. Mol. Biol., 340, 783-795.
147. Farriol-Mathis et al., 2004, Annotation of post-translational modifications in the Swiss-Prot knowledge base, Proteomics, 4, 1537-1550.
148. Fischer et al., 1991, Protein tyrosine phosphatases: a diverse family of intracellular and transmembrane enzymes, Science, 253, 401-406.
149. Fremisco et al., 1980, Optimal spatial requirements for the location of basic residues in peptide substrates for the cyclic AMP-dependent protein kinase, J. Biol. Chem., 255, 4240-4245.
150. Gavel and von Heijne, 1990, Sequence differences between glycosylated and non-glycosylated Asn-X-Thr/Ser acceptor sites: implications for protein engineering, Prot. Eng., 3, 433-442.
151. Gupta et al., Prediction of N-glycosylation sites in human proteins (in preparation).
152. Hansen et al., 1995, prediction of O-glycosylation of mammalian proteins: specificity patterns of UDP-GalNAc:polypeptide N-acetylgalactosaminyltransferase, Biochem. J., 388, 801-813.
153. Hauschka et al., 1980, Quantitative analysis and comparative decarboxylation ofaminomalonic acid, beta-carboxyaspartic acid andgammacarboxyglutamic acid, Anal. Biochem., 108, 57-63.
154. Horwitz et al., 1984, Localization of a fibrin gamma-chain polymerisation site within segment Thr-374 to Glu 396 in human fibrinogen, Proc. Natl. Acad. Sci. USA, 81, 5980-5984.
155. Julenius et al., 2004, Prediction, conservation analysis, and structural characterization of mammalian mucin-type O-glycosylation sites, Glycobiology, 15, 153-164.
156. Kiemer et al., 2005, NetAcet: prediction of N-terminal acetylation sites, Bioinformatics, 21, 1269-1270.
157. Kivirikko et al., 1991, in Post-translational modifications of proteins, (eds. Crabbe and Harding), CRC Press, Bocca Raton, pp. 1-51.
158. Kreil, 1984, Occurrence, detection, and biosynthesis of carboxy-terminal amides, Methods Enzymol., 106, 218-223.
159. Monigatti et al., 2002, The sulfinator: predicting tyrosine sulfation sites in protein sequences, Bioinformatics, 18, 769-770.
160. Moore, 2003, The biology and enzymology of protein tyrosine O-sulfation, J. Biol. Chem., 278, 24243-24246.
161. Nicholas et al., 1999, Reevaluation of the determinants of tyrosine sulfation, Endocrine, 11, 285-292.
162. Patschinsky et al., 1982, Analysis of the sequence of amino acids surrounding sites of tyrosine phosphorylation, Proc. Natl. Acad. Sci. USA, 79, 973-977.
163. Pinna, 1990, Casein kinase 2: an 'eminence grise' in cellular regulation, Biochim. Biophys. Acta, 1054, 267-284.
164. Pless and Lennarz, 1977, Enzymatic conversion of proteins to glycoproteins, Proc. Natl. Acad. Sci. USA, 74, 134-138.
165. Rawlings and Barrett, 1994, Families of cysteine peptidases, Methods Enzymol., 244, 461-486.
166. Simon et al., 1988, The glutamine residues reactive in transglutaminase-catalyzed cross-linking of involucrin, J. Biol. Chem., 263, 18093-18098.
167. Sowdhamini et al., 1989, Stereochemical modelling of disulfide bridges: criteria for introduction into proteins by site-directed mutagenesis, Prot. Engng., 3, 95-103.
168. Srinivasan et al., 1990, Conformations of disulfide bridges in proteins and peptides, Int. J. Pept. Prot. Res., 36, 147-155.
169. Stenflo et al., 1988, Beta-hydroxyaspartic acid or beta-hydroxyasparagine in bovine low density lipoprotein receptor and in bovine thrombomodulin, J. Biol. Chem., 263, 21-24.
170. Thomas et al., 1983, Identification and alignment of a thiol ester site in the third component of guinea pig complement, Biochemistry, 22, 942-947.
171. Tu et al., 2004, Oxidative protein folding in eukaryotes: mechanisms and consequences, J. Cell. Biol., 164, 341-346.
172. Vermeer, 1990, Gamma-carboxyglutamate-containing proteins and the vitamin-K dependent carboxylase, Biochem. J., 266, 625-636.
173. Wilkins et al., 1997, Proteome Research: New Frontiers in Functional Genomics, Springer.
174. Woodget et al., 1986, Substrate specificity of protein kinase C. Use of synthetic peptides corresponding to physiological sites as probes for substrate recognition requirements, Eur. J. Biochem., 161, 177-184.
175. Adkins et al., 2002, Toward a human blood serum proteome. Analysis by multidimensional separation coupled with mass spectrometry, Mol. Cell. Proteomics, 1, 947-955.
176. Anderson and Anderson, 2002, The human plasma proteome. History, character and prospects, Mol. Cell. Proteomics, 1, 845-867.
177. Anderson et al., 2004, The human plasma proteome. A nonredundant list developed by combination of four separate resources, Mol. Cell. Proteomics, 3, 311-326.
178. Campbell, 2003, The rennin-angiotensin and the kallikrein-kinin systems, Int. J. Biochem., 35, 784-791.
179. Carpenter et al., 1998, The octapeptide angiotensin II adopts a well-defined structure in a phospholipid environment, Eur. J. Biochem., 251, 448-453.
180. Castellino et al., 2005, Structure and function of the plasminogen/plasmin system, Thromb. Haemost., 93, 647-654.
181. Dahlbäck et al., 2005, The anticoagulant protein C pathway, FEBS Lett., 579, 3310-3316.
182. Davie, 2003, A brief historical review of the waterfall/cascade of blood coagulation, J. Biol. Chem., 278, 50819-50832.
183. Doolittle, 1984, Fibrinogen and fibrin, Annu. Rev. Biochem., 53, 195-229.
184. Esmon, 2000, Regulation of blood coagulation, Biochim. Biophys. Acta, 1477, 349-360.
185. Haeberli, 1998, Human Protein Data: Fourth Installment, John Wiley & Sons, Ltd, Chichester.
186. Kolde, 2001, Haemostasis: Physiology, Pathology, Diagnostics, Pentatharm Ltd, Basel.
187. Lee et al., 1990, Three-dimensional structure of bradykinin in SDS miscelles. Study using nuclear magnetic resonance, distance geometry, and restrained molecular mechanics and dynamics, Int. J. Pept. Protein Res., 35, 367-377.
188. Longstaff et al., 2005, Understanding the enzymology of fibrinolysis and improving thrombolytic therapy, FEBS Lett., 579, 3303-3309.
189. Mathews et al., 1996, Crystal structures of the recombinant kringle 1 domain of human plasminogen in complices with the ligands e-aminocaproic acid and trans-4-(amino methyl) cyclohexane-1-carboxylic acid, Biochemistry, 35, 2567-2576.
190. Omenn et al., 2005, Overview of the HUPO plasma proteome project: results from the pilot phase with 35 collaborating laboratories and multiple analytical groups, generating a core dataset of 3020 proteins and a publicly-available database, Proteomics, 5, 3226-3245.
191. Pieper et al., 2003, The human serum proteome: display of nearly 3700 chromatographically separated protein spots on two-dimensional electrophoresis gels and identification of 325 distinct proteins, Proteomics, 3, 1345-1364.
192. Pike et al., 2005, Control of the coagulation system by serpins. Getting by with a little help from glycosaminoglycans, FEBS J., 272, 4842-4851.
193. Qian et al., 2005, Comparative proteome analyses of human plasma following in vivo lipopolysaccharide administration using multidimensional separations coupled with tandem mass spectrometry, Proteomics, 5, 572-584.
194. Schenone et al., 2004, The blood coagulation cascade, Curr. Opin. Haematol., 11, 272-277.
195. Shen et al., 2004, Ultra-high efficiency strong cation exchange LC/RPLC/MS/MS for high dynamic range characterization of the human plasma proteome, Anal. Chem., 76, 1134-1144.
196. Walker and Nesheim, 1999, The molecular weights mass distribution, chain composition, and structure of soluble fibrin degradation products released from a fibrin clot perfused with plasmin, J. Biol. Chem., 274, 5201-5212.
197. Colomb et al., 1984, Activation of C1, Philos. trans. R. Soc. London Biol. Issue 306, p. 283, Royal Society Publishing, London.
198. Gadjeva et al., 2001, The mannan-binding-lectin pathway of the innate immune response, Curr. Opin. Immunol., 13, 74-78.
199. Gal et al., 2001, Structure and function of complement activating enzyme complexes:C1 and MBL-MASPs, Curr. Protein.Pept. Sci.,2, 43-59.
200. Haefliger et al., 1989, Complete primary structure and functional characterization action of the sixth component of the human complement system. Identification of the C5b-binding domain in complement C6, J. Biol. Chem., 264, 18041-18051.
201. Janeway et al., 2005, Immunobiology, Garland Science Publishing.
202. Kirkitadze and Barlow, 2001, Structure and flexibility of the multiple domain proteins that regulate complement activation, Immunol. Rev., 180, 146-161.
203. Mastellos et al., 2003, Complement: structure, function, evolution, and viral molecular mimicry, Immunol. Res., 27, 367-386.
204. Morgan, 2000, Complement. Methods and protocols, Methods Mol. Biol., 150.
205. Nanoka et al., 2004, Evolution of the complement system, Mol. Immunol., 40, 897-902.
206. Reid, 1996, The complement system, in Molecular Immunology (eds. Hames and Glover), IRL Press, pp. 326-381.
207. Sim et al., 2004, Proteases of the complement system, Biochem. Soc. Trans., 32, 21-27.
208. Sjoholm et al., 2006, Complement deficiency and diseases: an update, Mol. Immunol., 43, 78-85.
209. Anderson and Anderson, 2002, The human plasma proteome: history, character and diagnostic prospects, Mol. Cell. Proteomics, 1, 845-867.
210. Cushley and Owen, 1983, Structural and genetic similarities between immunoglobulins and class-1 histocompatibility antigens, Immunol. Today, 4, 88-92.
211. Halaby et al., 1999, The immunoglobulin fold family: sequence analysis and 3D structure comparisons, Protein Eng., 12, 563-571.
212. Janeway, 2005, Immunobiology, Garland Science, New York.
213. Li et al., 2004, The generation of antibody diversity through somatic hypermuation and class switch recombination, Genes Dev., 18, 1-11.
214. Saul and Poljak, 1992, Crystal structure of human immunoglobulin fragment FabNewrefined at 2.0Åresolution, Proteins, 14, 363-371.
215. White et al., 1995, Structure, function, and membrane integration of defensins, Curr. Opin. Struct. Biol., 5, 521-527.
216. Bairoch, 2000, The enzyme database in 2000, Nucleic Acids Res., 28, 304-305.
217. Freedman et al., 1994, Protein disulfide isomerase: building bridges in protein folding, Trends Biochem. Sci., 19, 331-336.
218. Garcia-Viloca et al., 2004, How enzymes work: analysis by modern rate theory and computer simulation, Science, 303,186-195.
219. Henrissat, 1991, A classification of glycosyl hydrolases based on amino acid sequence similarities, Biochem. J., 280,309-316.
220. Nicholson and Thornberry, 1997, Caspases: killer proteases, Trends Biochem. Sci., 22, 299-306.
221. Rawlings and Barrett, 1994, Families of cysteine peptidases, Meth. Enzymol., 244, 461-486.
222. Rawlings and Barrett, 1995, Evolutionary families of metallopeptidases, Meth. Enzymol., 248,183-228.
223. Stadtman, 1990, Selenium biochemistry, Annu. Rev. Biochem., 59, 111-127.
224. Abrahamson et al., 2003, Cystatins, Biochem. Soc. Symp., 70, 179-199.
225. Akerstroem et al., 2000, Alpha(1)-microglobulin: a yellow-brown lipocalin, Biochim. Biophys. Acta, 1482, 172-184.
226. Borth, 1992, Alpha 2-macroglobulin a multifunctional binding protien with targeting characteristics, FASEB J, 6, 3345-3353.
227. Coughlin, 2005, Antiplasmin. The forgotten serpin?, FEBS J., 272, 4852-4857.
228. Gettins, 2000, Keeping the serpin machine running smoothly, Genome, 10, 1833-1835.
229. Huntington et al., 2000, Structure of a serpin-protease complex shows inhibition by deformation, Nature, 407, 923-926.
230. Janciauskine, 2001, Conformational properties of serine protease inhibitors (serpins) confer multiple pathophysiological roles, Biochim. Biophys. Acta., 1535, 221-235.
231. Pike et al., 2005, Control of the coagulation system by serpins. Getting by with a little help from glycosaminoglycans, FEBS J., 272, 4842-4851.
232. Rawlings et al., 1990, Evolution of proteins of the cystatin superfamily, J. Mol. Evol., 30, 60-71.
233. Silverman et al., 2001, The serpins are an expanding superfamily of structurally similar but functionally diverse proteins, J. Biol. Chem., 276, 33293-33296.
234. Stein and Carrell, 1995, What do dysfunctional serpins tell us about molecular mobility and disease?, Nat. Struct. Biol., 2, 96-113.
235. van Gent et al., 2003, Serpins: structure, function and molecular evolution, Int. J. Biochem. Cell. Biol., 35, 1536-1547.
236. Whisstock et al., 1998, An atlas of serpin conformations, Trends Biochem. Sci., 23, 63-67.
237. Whisstock et al., 2005, Serpins 2005-fun between the b-sheets, FEBS J., 272, 4868-4873.
238. Alaupovic, 1996, Significance of apolipoproteins for structure, function and classification of plasma lipoproteins, Meth. Enzymol., 263, 32-60.
239. Gursky, 2005 Apolipoprotein structure and dynamics, Curr. Opin. Lipidol., 16, 287-294.
240. Persson et al., 1989, Structural features of lipoprotein lipase. Lipase family relationships, binding interactions, non-equivalence of lipase cofactors, vitellogenin similarities and functional subdivision of lipoprotein lipase, Eur. J. Biochem., 179, 39-45.
241. Segrest et al., 1974, A molecular theory of lipid-protein interactions in the plasma lipoproteins, FEBS lett., 38, 247-258.
242. Baumann, 1999, Growth hormone heterogeneity in human pituitary and plasma, Horm. Res., 51 (Suppl. 1), 2-6.
243. Hinuma et al., 1998, A prolactin-releasing peptide in the brain, Nature, 393, 272-276.
244. Jiang and Zhang, 2003, Glucagon and regulation of glucose metabolism, Am. J. Physiol., 284, E671-E678.
245. Maggio, 1988, Tachykinins, Annu. Rev. Neurosci. 11, 13-28.
246. Molina et al., 1996, Characterization of the type-1 repeat from thyroglobulin, a cysteine-rich module found in proteins from different families, Eur. J. Biochem., 240, 125-133.
247. Rosenzweig and Seidman, 1991, Atrial natriuretic factor and related peptide hormones, Annu. Rev. Biochem., 60, 229-255.
248. Sanke et al., 1988, An islet amyloid peptide is derived from an 89-amino acid precursor by proteolytic processing, J. Biol. Chem., 263, 17243-17246.
249. Seino et al., 1987, Sequence of an intestinal cDNA encoding human motilin precursor, FEBS Lett., 223, 74-76.
250. Wallis, 2001, Episodic evolution of protein hormones in mammals, J. Mol. Evol., 53, 10-18.
251. Bradshaw et al., 1993, Nerve growth factor revisited, Trends Biochem. Sci., 18, 48-52.
252. Hwa et al., 1999, The insulin-like growth factor-binding protein (IGFBP) superfamily, Endocrine Rev., 20, 761-787.
253. Walter et al., 1992, Three-dimensional structure of recombinant human granulocyte-macrophage colony-stimulating factor, J. Mol. Biol., 224, 1075-1085.
254. Crichton et al., 1987, Iron transport and storage, Eur. J. Biochem., 164, 485-506.
255. Hellman and Gitlin, 2002, Ceruloplasmin metabolism and function, Annu. Rev. Nutr., 22, 439-458.
256. Kryukov et al., 2003, Characterization of mammalian selenoproteomes, Science, 300, 1439-1443.
257. Schreiber et al., 1997, The evolution of gene expression structure and function of transthyretin, Comp. Biochem. Physiol., 116B, 137-160.