SMTL ID : 2zf0.1

Exploring Thrombin S1 Pocket

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

hetero-1-1-1-mer

Ligands

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

NA.1: 3 residues within 4Å: Chain B: D.232, R.233, K.236 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:K.236, B:K.236 Water bridges: B:D.234, B:G.235, B:G.238 NA.2: 2 residues within 4Å: Chain B: K.174, T.177 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.177, B:T.177

1 x 51U: D-phenylalanyl-N-(3-methylbenzyl)-L-prolinamide(Non-covalent)

51U.3: 17 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, G.230, G.238, F.239 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:Y.47, B:W.50, B:L.96, B:L.96, B:A.200, B:V.225, B:W.227 Hydrogen bonds: B:S.226, B:G.228, B:G.228

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Baum, B. et al., Exploring Thrombin S1 pocket. To be Published

Release Date

2008-11-04

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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