SMTL ID : 2zgx.1

Thrombin Inhibition

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

hetero-1-1-1-mer

Ligands

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

NA.1: 2 residues within 4Å: Chain B: R.233, K.236 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.236, B:K.236 NA.2: 2 residues within 4Å: Chain B: K.174, T.177 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.174

1 x 29U: 1-[(2R)-2-aminobutanoyl]-N-(4-carbamimidoylbenzyl)-L-prolinamide(Non-covalent)

29U.3: 15 residues within 4Å: Chain B: H.43, Y.47, W.50, L.96, I.179, D.199, A.200, S.205, V.225, S.226, W.227, G.228, G.230, C.231, G.238 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:Y.47, B:W.50, B:L.96, B:I.179, B:V.225, B:W.227 Hydrogen bonds: B:D.199, B:A.200, B:S.226, B:G.228, B:G.228, B:G.230 Water bridges: B:D.232, B:F.239

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

2008-12-16

Peptides

Thrombin Light Chain: A
Thrombin heavy chain: B
Hirudin variant-1: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
L

B
H

C
I

Thrombin Light Chain

Thrombin heavy chain

Hirudin variant-1

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