SMTL ID : 3f68.1

Thrombin Inhibition

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x 91U: N-acetyl-3-cyclohexyl-D-alanyl-N-(3-chlorobenzyl)-L-prolinamide(Non-covalent)

91U.1: 18 residues within 4Å: Chain B: H.43, Y.47, W.50, E.94, N.95, L.96, D.199, A.200, C.201, S.205, V.225, S.226, W.227, G.228, E.229, G.230, G.238, F.239 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:W.50, B:L.96, B:V.225, B:W.227, B:W.227, B:E.229 Hydrogen bonds: B:S.226, B:G.228

2 x NA: SODIUM ION(Non-functional Binders)

NA.2: 2 residues within 4Å: Chain B: R.233, K.236 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:K.236, B:K.236 Water bridges: B:D.232, B:G.238 NA.3: 2 residues within 4Å: Chain B: K.174, T.177 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:T.177

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Baum, B. et al., Think twice: understanding the high potency of bis(phenyl)methane inhibitors of thrombin. J.Mol.Biol. (2009)

Release Date

2009-10-20

Peptides

Prothrombin: A
Prothrombin: B
Hirudin variant-2: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
L

B
H

C
I

Prothrombin

Prothrombin

Hirudin variant-2

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