SMTL ID : 1tq7.1

Crystal structure of the anticoagulant thrombin mutant W215A/E217A bound to PPACK

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

hetero-1-1-mer

Ligands

3 x ZN: ZINC ION(Non-covalent)

ZN.1: 1 residues within 4Å: Chain A: E.35 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.35, H2O.1, H2O.1 ZN.2: 3 residues within 4Å: Chain A: D.16, K.25 Chain B: H.116 4 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: A:D.16, A:D.16, B:H.116, H2O.1 ZN.5: 3 residues within 4Å: Chain B: H.66, R.70, E.72 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:H.66, B:E.72, B:E.72, H2O.2, H2O.4

1 x 0G6: D-phenylalanyl-N-[(2S,3S)-6-{[amino(iminio)methyl]amino}-1-chloro-2-hydroxyhexan-3-yl]-L-prolinamide(Covalent)

0G6.3: 17 residues within 4Å: Chain B: H.43, Y.47, W.50, E.94, L.96, D.199, A.200, C.201, E.202, G.203, D.204, S.205, S.226, A.227, G.228, G.230, G.238 17 PLIP interactions: 17 interactions with chain B Hydrophobic interactions: B:Y.47, B:W.50, B:L.96, B:L.96, B:A.227 Hydrogen bonds: B:A.200, B:G.203, B:S.205, B:S.226, B:G.228, B:G.228, B:G.230 Water bridges: B:A.227, B:A.229, B:G.230, B:Y.240 Salt bridges: B:D.199

1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.4: 2 residues within 4Å: Chain B: L.46, N.53 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pineda, A.O. et al., The anticoagulant thrombin mutant W215A/E217A has a collapsed primary specificity pocket. J.Biol.Chem. (2004)

Release Date

2004-08-03

Peptides

Prothrombin: A
Prothrombin: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Prothrombin

Prothrombin

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