SMTL ID : 5k0h.1

Human factor Xa in complex with synthetic inhibitor benzylsulfonyl-dSer(Benzyl)-Gly-4-amidinobenzylamide

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

hetero-1-1-mer

Ligands

2 x CA: CALCIUM ION(Non-covalent)

CA.1: 4 residues within 4Å: Chain A: D.56, N.58, Q.61, E.66 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.56, A:N.58, A:Q.61, A:E.66, H2O.1 CA.2: 5 residues within 4Å: Chain A: Y.173, D.174, T.175, R.211, K.214 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:Y.173, A:D.174, A:R.211, A:K.214

1 x 6PK: O-benzyl-N-(benzylsulfonyl)-D-seryl-N-[(4-carbamimidoylphenyl)methyl]glycinamide(Non-covalent)

6PK.3: 20 residues within 4Å: Chain A: H.42, E.83, T.84, Y.85, R.132, E.135, F.162, D.179, A.180, C.181, Q.182, S.185, V.203, S.204, W.205, G.206, E.207, G.208, C.209, G.216 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:Y.85, A:E.135, A:Q.182, A:Q.182, A:V.203 Hydrogen bonds: A:Y.85, A:A.180, A:S.185, A:S.204, A:G.206, A:G.206, A:G.208, A:G.208 Water bridges: A:W.205, A:Y.218 pi-Stacking: A:Y.85, A:F.162, A:W.205

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Schweinitz, A. et al., New substrate analogue inhibitors of factor Xa containing 4-amidinobenzylamide as P1 residue: part 1. Medicinal Chemistry (2006)

Release Date

2016-07-06

Peptides

Coagulation factor X: A
Coagulation factor X: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Coagulation factor X

Coagulation factor X

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