SMTL ID : 1vzq.1

Complex of thrombin with designed inhibitor 7165

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.54 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x SHY: 4-[(3AS,4R,7R,8AS,8BR)-2-(1,3-BENZODIOXOL-5-YLMETHYL)-7-HYDROXY-1,3-DIOXODECAHYDROPYRROLO[3,4-A]PYRROLIZIN-4-YL]BENZENECARBOXIMIDAMIDE(Non-covalent)

SHY.1: 18 residues within 4Å: Chain A: H.43, Y.47, W.50, W.92, E.94, N.95, L.96, D.192, A.193, E.195, S.198, V.218, S.219, W.220, G.221, G.223, C.224, G.231 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:V.218, A:W.220 Hydrogen bonds: A:D.192, A:D.192, A:E.195, A:G.221 Water bridges: A:W.220 Salt bridges: A:E.195

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

NA.2: 2 residues within 4Å: Chain A: R.226, K.229 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.229, A:K.229 Water bridges: A:G.228, A:G.231

1 x CA: CALCIUM ION(Non-covalent)

CA.3: 2 residues within 4Å: Chain A: K.167, T.170 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:K.167, A:T.170, H2O.9, H2O.9, H2O.10

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Schaerer, K. et al., Enantiomerically Pure Thrombin Inhibitors for Exploring the Molecular-Recognition Features of the Oxyanion Hole. Helv.Chim.Acta (2004)

Release Date

2005-06-20

Peptides

THROMBIN HEAVY: A
HIRUDIN VARIANT-2: B
THROMBIN LIGHT: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

B
I

C
L

THROMBIN HEAVY

HIRUDIN VARIANT-2

THROMBIN LIGHT

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