SMTL ID : 1kli.2 (1 other biounit)

Cofactor-and substrate-assisted activation of factor VIIa

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.69 Å

Oligo State

hetero-2-2-mer

Ligands

8 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 3 residues within 4Å: Chain B: M.154, T.155, R.227 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:T.155 Water bridges: B:R.152, B:L.153, B:T.155, B:R.227 Salt bridges: B:R.227 SO4.2: 5 residues within 4Å: Chain B: H.41, K.189, G.190, S.192 Ligands: BEN.6 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:G.190, B:S.192, B:S.192, B:S.192 Water bridges: B:L.25 Salt bridges: B:H.41 SO4.3: 6 residues within 4Å: Chain B: C.158, S.162, I.171, H.221, F.222, V.224 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:S.162, B:S.162, B:F.222 Water bridges: B:H.221 Salt bridges: B:H.221 SO4.4: 2 residues within 4Å: Chain B: S.241, E.242 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.242 Water bridges: B:R.240, B:S.241 SO4.8: 3 residues within 4Å: Chain D: M.154, T.155, R.227 7 PLIP interactions: 7 interactions with chain D Hydrogen bonds: D:T.155, D:T.155 Water bridges: D:R.152, D:L.153, D:T.155, D:R.227 Salt bridges: D:R.227 SO4.9: 5 residues within 4Å: Chain D: H.41, K.189, G.190, S.192 Ligands: BEN.13 6 PLIP interactions: 6 interactions with chain D Hydrogen bonds: D:G.190, D:S.192, D:S.192, D:S.192 Water bridges: D:L.25 Salt bridges: D:H.41 SO4.10: 6 residues within 4Å: Chain D: C.158, S.162, I.171, H.221, F.222, V.224 6 PLIP interactions: 6 interactions with chain D Hydrogen bonds: D:S.162, D:S.162, D:F.222 Water bridges: D:H.221, D:H.221 Salt bridges: D:H.221 SO4.11: 2 residues within 4Å: Chain D: S.241, E.242 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:E.242 Water bridges: D:R.240, D:S.241

2 x CA: CALCIUM ION(Non-covalent)

CA.5: 4 residues within 4Å: Chain B: E.58, D.60, E.63, E.68 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.58, B:D.60, B:E.68, H2O.4, H2O.7 CA.12: 4 residues within 4Å: Chain D: E.58, D.60, E.63, E.68 5 PLIP interactions: 3 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:E.58, D:D.60, D:E.68, H2O.16, H2O.19

2 x BEN: BENZAMIDINE(Non-functional Binders)

BEN.6: 13 residues within 4Å: Chain B: D.186, S.187, C.188, K.189, S.192, V.210, S.211, W.212, G.213, G.215, C.216, G.223 Ligands: SO4.2 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:V.210 Hydrogen bonds: B:D.186, B:S.187, B:G.215 Water bridges: B:W.212, B:T.218 BEN.13: 13 residues within 4Å: Chain D: D.186, S.187, C.188, K.189, S.192, V.210, S.211, W.212, G.213, G.215, C.216, G.223 Ligands: SO4.9 6 PLIP interactions: 6 interactions with chain D Hydrophobic interactions: D:V.210 Hydrogen bonds: D:D.186, D:S.187, D:G.215 Water bridges: D:W.212, D:A.217

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 6 residues within 4Å: Chain B: F.43, D.44, W.49, I.78, P.84, L.248 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:F.43 GOL.14: 6 residues within 4Å: Chain D: F.43, D.44, W.49, I.78, P.84, L.248 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:F.43 Water bridges: D:D.44

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sichler, K. et al., Crystal Structure of Uninhibited Factor VIIa Link its Cofactor and Substrate-assisted Activation to Specific Interactions. J.Mol.Biol. (2002)

Release Date

2002-09-18

Peptides

factor VIIa: AC
factor VIIa: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
L

C
L

B
H

D
H

factor VIIa

factor VIIa

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