SMTL ID : 1iod.3 (2 other biounits)

CRYSTAL STRUCTURE OF THE COMPLEX BETWEEN THE COAGULATION FACTOR X BINDING PROTEIN FROM SNAKE VENOM AND THE GLA DOMAIN OF FACTOR X

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

hetero-2-2-2-mer

Ligands

24 x CA: CALCIUM ION(Non-covalent)

CA.1: 4 residues within 4Å: Chain A: S.41, E.43, E.47, E.128 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:S.41, A:S.41, A:E.43, A:E.128, H2O.3 CA.2: 2 residues within 4Å: Chain A: S.80, E.82 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:S.80, A:E.82, A:E.82, H2O.3 CA.3: 3 residues within 4Å: Chain A: D.1 Chain D: D.1 Ligands: CA.15 5 PLIP interactions: 2 interactions with chain D, 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: D:D.1, D:D.1, A:D.1, A:D.1, H2O.3 CA.4: 4 residues within 4Å: Chain B: S.41, Q.43, E.47, E.120 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:S.41, B:E.47, B:E.120, H2O.5, H2O.6 CA.5: 4 residues within 4Å: Chain A: E.98 Chain C: E.25, R.28, E.29 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.98, H2O.4 CA.6: 3 residues within 4Å: Chain C: E.7, E.26, E.29 No protein-ligand interaction detected (PLIP) CA.7: 5 residues within 4Å: Chain C: E.7, E.16, E.26, E.29 Ligands: CA.8 No protein-ligand interaction detected (PLIP) CA.8: 8 residues within 4Å: Chain C: A.1, N.2, E.6, E.7, E.16, E.26 Ligands: CA.7, CA.9 No protein-ligand interaction detected (PLIP) CA.9: 5 residues within 4Å: Chain C: A.1, E.6, E.16, E.20 Ligands: CA.8 2 PLIP interactions: 1 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:A.1, H2O.7 CA.10: 1 residues within 4Å: Chain C: E.20 No protein-ligand interaction detected (PLIP) CA.11: 2 residues within 4Å: Chain C: E.14, E.19 No protein-ligand interaction detected (PLIP) CA.12: 2 residues within 4Å: Chain C: E.35, E.39 No protein-ligand interaction detected (PLIP) CA.13: 4 residues within 4Å: Chain D: S.41, E.43, E.47, E.128 5 PLIP interactions: 4 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:S.41, D:S.41, D:E.43, D:E.128, H2O.10 CA.14: 2 residues within 4Å: Chain D: S.80, E.82 4 PLIP interactions: 3 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:S.80, D:E.82, D:E.82, H2O.10 CA.15: 3 residues within 4Å: Chain A: D.1 Chain D: D.1 Ligands: CA.3 5 PLIP interactions: 2 interactions with chain D, 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: D:D.1, D:D.1, A:D.1, A:D.1, H2O.3 CA.16: 4 residues within 4Å: Chain E: S.41, Q.43, E.47, E.120 5 PLIP interactions: 3 interactions with chain E, 2 Ligand-Water interactions Metal complexes: E:S.41, E:E.47, E:E.120, H2O.12, H2O.12 CA.17: 4 residues within 4Å: Chain D: E.98 Chain F: E.25, R.28, E.29 2 PLIP interactions: 1 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:E.98, H2O.11 CA.18: 3 residues within 4Å: Chain F: E.7, E.26, E.29 No protein-ligand interaction detected (PLIP) CA.19: 5 residues within 4Å: Chain F: E.7, E.16, E.26, E.29 Ligands: CA.20 No protein-ligand interaction detected (PLIP) CA.20: 8 residues within 4Å: Chain F: A.1, N.2, E.6, E.7, E.16, E.26 Ligands: CA.19, CA.21 No protein-ligand interaction detected (PLIP) CA.21: 5 residues within 4Å: Chain F: A.1, E.6, E.16, E.20 Ligands: CA.20 2 PLIP interactions: 1 interactions with chain F, 1 Ligand-Water interactions Metal complexes: F:A.1, H2O.14 CA.22: 1 residues within 4Å: Chain F: E.20 No protein-ligand interaction detected (PLIP) CA.23: 2 residues within 4Å: Chain F: E.14, E.19 No protein-ligand interaction detected (PLIP) CA.24: 2 residues within 4Å: Chain F: E.35, E.39 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mizuno, H. et al., Crystal structure of an anticoagulant protein in complex with the Gla domain of factor X. Proc.Natl.Acad.Sci.Usa (2001)

Release Date

2001-06-27

Peptides

COAGULATION FACTOR X BINDING PROTEIN: AD
COAGULATION FACTOR X BINDING PROTEIN: BE
COAGULATION FACTOR X GLA DOMAIN: CF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

D
A

B
B

E
B

C
G

F
G

COAGULATION FACTOR X BINDING PROTEIN

COAGULATION FACTOR X BINDING PROTEIN

COAGULATION FACTOR X GLA DOMAIN

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