Thromb Haemost 1998; 80(05): 798-804
DOI: 10.1055/s-0037-1615361
Review Article
Schattauer GmbH

Topological Studies of the Amino Terminal Modules of Vitamin K-dependent Protein S Using Monoclonal Antibody Epitope Mapping and Molecular Modeling

Tusar K. Giri
1   Wright-Rieman Laboratories, Chemistry, Rutgers University, Piscataway, New Jersey, USA
,
Bruno O. Villoutreix
1   Wright-Rieman Laboratories, Chemistry, Rutgers University, Piscataway, New Jersey, USA
,
Anders Wallqvist
1   From the Department of Clinical Chemistry, Lund University, University Hospital, Malmö, Sweden
,
Björn Dahlbäck
1   Wright-Rieman Laboratories, Chemistry, Rutgers University, Piscataway, New Jersey, USA
,
Pablo García de Frutos
1   Wright-Rieman Laboratories, Chemistry, Rutgers University, Piscataway, New Jersey, USA
› Author Affiliations
Further Information

Publication History

Received 20 April 1998

Accepted after revision 15 July 1998

Publication Date:
07 December 2017 (online)

Summary

Protein S is an important anticoagulant protein acting as cofactor to activated protein C (APC) in the degradation of membrane-bound factors Va and VIIIa. Binding of protein S to the membrane depends on the Gla-domain, whereas sites for APC-interaction are located in the thrombin-sensitive region (TSR) and the first EGF domain. The aims of the present investigation were to localize the sites on protein S which are involved in APC-cofactor function and to elucidate possible orientations of the TSR in relation to the membrane. For these purposes, we determined the epitope for a calcium-dependent monoclonal antibody (HPS67) against the TSR, which inhibits APC cofactor activity even though it does not impede protein S binding to the membrane. HPS67 did not recognize wild-type mouse protein S but gained reactivity against a recombinant mouse protein in which G49 and R52 were mutated to R and Q (found in human protein S), respectively, suggesting these two residues to be part of a surface exposed epitope for HPS67. This information helped in the validation and refinement of the structural model for the Gla-TSR-EGF1-modules of protein S. The X-ray structure of a Fab-fragment mimicking HPS67 was docked onto the protein S model. The observation that HPS67 did not inhibit phospholipid binding of protein S has implications for the possible orientation of protein S on the membrane surface. In the proposed model for membrane-bound protein S, there is no contact between the TSR and the membrane. Rather, the TSR is free to interact with membrane-bound APC.

 
  • References

  • 1 Dahlbäck B. The protein C anticoagulant system: inherited defects as basis for venous thrombosis. Thromb Res 1995; 77: 1-43.
  • 2 Lane DA, Mannucci PM, Bauer KA, Bertina RM, Bochkov NP, Boulyjenkov V, Chandy M, Dahlbäck B, Ginter EK, Miletich JP, Rosendaal FR, Seligsohn U. Inherited thrombophilia: Part 2. Thromb Haemost 1996; 76: 824-34.
  • 3 Lane DA, Mannucci PM, Bauer KA, Bertina RM, Bochkov NP, Boulyjenkov V, Chandy M, Dahlbäck B, Ginter EK, Miletich JP, Rosendaal FR, Seligsohn U. Inherited thrombophilia: Part 1. Thromb Haemost 1996; 76: 651-62.
  • 4 Gandrille S, Borgel D, Ireland H, Lane DA, Simmonds R, Reitsma PH, Mannhalter C, Pabinger I, Saito H, Suzuki K, Formstone C, Cooper DN, Espinosa Y, Sala N, Bernardi F, Aiach M. Protein S deficiency: a database of mutations. For the Plasma Coagulation Inhibitors Subcommittee of the Scientific and Standardization Committee of the International Society on Thrombosis and Haemostasis. Thromb Haemost 1997; 77: 1201-14.
  • 5 Lundwall A, Dackowski W, Cohen E, Shaffer M, Mahr A, Dahlbäck B, Stenflo J, Wydro R. Isolation and sequence of the cDNA for human protein S, a regulator of blood coagulation. Proc Natl Acad Sci USA 1986; 83: 6716-20.
  • 6 Villoutreix BO, García de Frutos P, Lövenklev M, Linse S, Fernlund P, Dahlbäck B. Insights into the SHBG-like region of the anticoagulant cofac tor protein S using sequence analysis, CD spectroscopy and naturally occurring point mutations. Proteins 1997; 29: 478-91.
  • 7 Joseph DR, Baker ME. Sex hormone-binding globulin, androgen-binding protein, and vitamin K-dependent protein S are homologous to laminin A, merosin, and Drosophila crumbs protein. FASEB J 1992; 6: 2477-81.
  • 8 Stevens WK, Cote HF, MacGillivray RT, Nesheim ME. Calcium ion modulation of meizo-thrombin autolysis at Arg55-Asp56 and catalytic activity. J Biol Chem 1996; 271: 8062-7.
  • 9 Sugo T, Dahlbäck B, Holmgren A, Stenflo J. Calcium binding of bovine protein S. Effect of thrombin cleavage and removal of the gamma-carboxyglutamic acid-containing region. J Biol Chem 1986; 261: 5116-20.
  • 10 Dahlbäck B, Lundwall A, Stenflo J. Localization of thrombin cleavage sites in the amino-terminal region of bovine protein S. J Biol Chem 1986; 261: 5111-5.
  • 11 Schwalbe RA, Ryan J, Stern DM, Kisiel W, Dahlbäck B, Nelsestuen GL. Protein structural requirements and properties of membrane binding by gamma-carboxyglutamic acid-containing plasma proteins and peptides. J Biol Chem 1989; 264: 20288-96.
  • 12 Dahlbäck B. Purification of human vitamin K-dependent protein S and its limited proteolysis by thrombin. Biochem J 1983; 209: 837-46.
  • 13 Suzuki K, Nishioka J, Hashimoto S. Regulation of activated protein C by thrombin-modified protein S. J Biochem (Tokyo) 1983; 94: 699-705.
  • 14 Walker FJ. Regulation of vitamin K-dependent protein S. Inactivation by thrombin. J Biol Chem 1984; 259: 10335-9.
  • 15 He X, Shen L, Dahlbäck B. Expression and functional characterization of chimeras between human and bovine vitamin-K-dependent protein-S-defining modules important for the species specificity of the activated protein C cofactor activity. Eur J Biochem 1995; 227: 433-40.
  • 16 Dahlbäck B, Wiedmer T, Sims PJ. Binding of anticoagulant vitamin K-dependent protein S to platelet-derived microparticles. Biochemistry 1992; 31: 12769-77.
  • 17 Yegneswaran S, Wood GM, Esmon CT, Johnson AE. Protein S Alters the Active Site Location of Activated Protein C above the Membrane Surface. J Biol Chem 1997; 272: 25013-21.
  • 18 Dahlbäck B, Hildebrand B, Malm J. Characterization of functionally impor tant domains in human vitamin K-dependent protein S using monoclonal antibodies. J Biol Chem 1990; 265: 8127-35.
  • 19 Stenflo J, Dahlbäck B. Vitamin K-dependent proteins. In: Vitamin K-dependent proteins. Stamatoyannopoulos G, Nienhuis AW, Majerus PW, Varmus H. eds. Secondary: WB Saunders Company, City; 1994: 565-98.
  • 20 Nelsestuen GL, Kisiel W, Di Scipio RG. Interaction of vitamin K dependent proteins with membranes. Biochemistry 1978; 17: 2134-8.
  • 21 Sunnerhagen M, Forsen S, Hoffren AM, Drakenberg T, Teleman O, Stenflo J. Structure of the Ca(2+)-free Gla domain sheds light on membrane binding of blood coagulation proteins. Nat Struct Biol 1995; 2: 504-9.
  • 22 Freedman SJ, Furie BC, Furie B, Baleja JD. Structure of the metal-free gamma-carboxyglutamic acid-rich membrane binding region of factor IX by two-dimensional NMR spectroscopy. J Biol Chem 1995; 270: 7980-7.
  • 23 McDonald JF, Shah AM, Schwalbe RA, Kisiel W, Dahlbäck B, Nelsestuen GL. Comparison of naturally occurring vitamin K-dependent proteins: correlation of amino acid sequences and membrane binding properties suggests a membrane contact site. Biochemistry 1997; 36: 5120-7.
  • 24 Rao Z, Handford P, Mayhew M, Knott V, Brownlee GG, Stuart D. The structure of a Ca(2+)-binding epidermal growth factor-like domain: its role in protein-protein interactions. Cell 1995; 82: 131-41.
  • 25 Soriano García M, Padmanabhan K, de Vos AM, Tulinsky A. The Ca2+ ion and membrane binding structure of the Gla domain of Ca-prothrombin fragment 1. Biochemistry 1992; 31: 2554-66.
  • 26 Brandstetter H, Bauer M, Huber R, Lollar P, Bode W. X-ray structure of clotting factor IXa: active site and module structure related to Xase activity and hemophilia B. Proc Natl Acad Sci USA 1995; 92: 9796-800.
  • 27 Kirchhofer D, Guha A, Nemerson Y, Konigsberg WH, Vilbois F, Chene C, Banner DW, D’Arcy A. Activation of blood coagulation factor VIIa with cleaved tissue factor extracellular domain and crystallization of the active complex. Proteins 1995; 22: 419-25.
  • 28 Banner DW, D’Arcy A, Chene C, Winkler FK, Guha A, Konigsberg WH, Nemerson Y, Kirchhofer D. The crystal structure of the complex of blood coagulation factor VIIa with soluble tissue factor. Nature 1996; 380: 41-6.
  • 29 Freedman SJ, Furie BC, Furie B, Baleja JD. Structure of the calcium ion-bound gamma-carboxyglutamic acid-rich domain of factor IX. Biochemistry 1995; 34: 12126-37.
  • 30 Freedman SJ, Blostein MD, Baleja JD, Jacobs M, Furie BC, Furie B. Identification of the phospholipid binding site in the vitamin K-dependent blood coagulation protein factor IX. J Biol Chem 1996; 271: 16227-36.
  • 31 Villoutreix BO, Teleman O, Dahlbäck B. A theoretical model for the GlaTSR-EGF-1 region of the anticoagulant cofactor protein S: from structural pathology to species-specific cofactor activity. J Comput Aided Mol Des 1997; 11: 293-304.
  • 32 Li L, Darden TA, Freedman SJ, Furie BC, Furie B, Baleja JD, Smith H, Hiskey RG, Pedersen LG. Refinement of the NMR solution structure of the gamma-carboxyglutamic acid domain of coagulation factor IX using molecular dynamics simulation with initial Ca2+ positions determined by a genetic algorithm. Biochemistry 1997; 36: 2132-8.
  • 33 Perera L, Li L, Darden T, Monroe DM, Pedersen LG. Prediction of solution structures of the Ca2+-bound gamma-carboxyglutamic acid domains of protein S and homolog growth arrest specific protein 6: use of the particle mesh ewald method. Biophys J 1997; 73: 1847-56.
  • 34 Li L, Darden T, Foley C, Hiskey R, Pedersen L. Homology modeling and molecular dynamics simulation of human prothrombin fragment 1. Protein Sci 1995; 4: 2341-8.
  • 35 Malm J, Persson U, Dahlbäck B. Inhibition of human vitamin-K-dependent protein-S-cofactor activity by a monoclonal antibody specific for a Ca2+-dependent epitope. Eur J Biochem 1987; 165: 39-45.
  • 36 Chu MD, Sun J, Bird P. Cloning and sequencing of a cDNA encoding the murine vitamin K-dependent protein S. Biochim Biophys Acta 1994; 1217: 325-8.
  • 37 Kaufman RJ. Vectors used for expression in mammalian cells. Method Enzymol 1990; 185: 487-511.
  • 38 Giri TK, Hillarp A, Härdig Y, Zöller B, Dahlbäck B. A new direct, fast and quantitative enzyme-linked ligandsorbent assay for measurament of free protein S antigen. Thromb Haemost 1998; 74: 767-72.
  • 39 Wallqvist A, Smythers GW, Covell DG. Identification of cooperative folding units in a set of native proteins. Protein Sci 1997; 6: 1627-42.
  • 40 Abola EE, Bernstein FC, Bryant SH, Koetzle TF, Weng J. Protein data bank. In: Protein data bank. Allen FH, Bergerhoff G, Sievers R. eds. Secondary. Data Commission of the International Union of Crystallography,; City 1987: 107-32.
  • 41 Fischer D, Tsai CJ, Nussinov R, Wolfson H. A 3D sequence-independent representation of the protein data bank. Protein Eng 1995; 8: 981-97.
  • 42 Naor D, Fischer D, Jernigan RL, Wolfson HJ, Nussinov R. Amino acid pair interchanges at spatially conserved locations. J Mol Biol 1996; 256: 924-38.
  • 43 Metropolis N, Rosenbluth AW, Rosenbluth MN, Teller AH, Teller T. Equation of state calculations by fast computing machines. J Chem Phys 1953; 21: 1087-92.
  • 44 Shenkin PS, Yarmush DL, Fine RM, Wang HJ, Levinthal C. Predicting antibody hypervariable loop conformation. I. Ensembles of random conformations for ringlike structures. Biopolymers 1987; 26: 2053-85.
  • 45 Long GL, Lu D, Xie R-L, Kalafatis M. Human protein S cleavage and inactivation by coagulation factor Xa. J Biol Chem 1998; 273: 11521-6.
  • 46 Dahlbäck B, Frohm B, Nelsestuen G. High affinity interaction between C4b-binding protein and vitamin K-dependent protein S in the presence of calcium. Suggestion of a third component in blood regulating the interaction. J Biol Chem 1990; 265: 16082-7.
  • 47 He X, Shen L, Malmborg AC, Smith KJ, Dahlbäck B, Linse S. Binding site for C4b-binding protein in vitamin K-dependent protein S fully contained in carboxy-terminal laminin-G-type repeats. A study using recombinant factor IX-protein S chimeras and surface plasmon resonance. Biochemistry 1997; 36: 3745-54.
  • 48 Yasuda F, Hayashi T, Tanitame K, Nishioka J, Suzuki K. Molecular cloning and functional characterization of rat plasma protein S. J Biochem (Tokyo) 1995; 117: 374-83.
  • 49 He X, Dahlbäck B. Molecular cloning, expression and functional character ization of rabbit anticoagulant vitamin-K-dependent protein S. Eur J Biochem 1993; 217: 857-65.
  • 50 Greengard JS, Fernandez JA, Radtke KP, Griffin JH. Identification of candidate residues for interaction of protein S with C4b binding protein and activated protein C. Biochem J 1995; 305: 397-403.
  • 51 Dahlbäck B, Lundwall A, Stenflo J. Primary structure of bovine vitamin K-dependent protein S. Proc Natl Acad Sci USA 1986; 83: 4199-203.
  • 52 Sabharwal A, Padmanabhan K, Tulinsky A, Mathur A, Gorka J, Bajaj S. Interaction of calcium with native and decarboxylated human factor X. J Biol Chem 1997; 272: 22037-45.
  • 53 Seshadri TP, Skrzypczak Jankun E, Yin M, Tulinsky A. Differences in the metal ion structure between Sr- and Ca-prothrombin fragment 1. Biochemistry 1994; 33: 1087-92.
  • 54 Brunger AT, Leahy DJ, Hynes TR, Fox RO. 2.9 A resolution structure of an anti-dinitrophenyl-spin-label monoclonal antibody Fab fragment with bound hapten. J Mol Biol 1991; 221: 239-56.