SMTL ID : 1ypm.1

X-ray crystal structure of thrombin inhibited by synthetic cyanopeptide analogue RA-1014

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x RA4: N-(4-NITROBENZOYL)-L-LEUCYL-N-(4-{[AMINO(IMINO)METHYL]AMINO}BUTYL)-L-PROLINAMIDE(Non-covalent)

RA4.1: 17 residues within 4Å: Chain B: H.43, Y.47, W.50, N.95, L.96, I.179, D.199, A.200, S.205, V.225, S.226, W.227, G.228, E.229, G.230, R.233, G.238 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:Y.47, B:W.50, B:W.50, B:I.179, B:W.227, B:W.227, B:E.229, B:E.229 Hydrogen bonds: B:A.200, B:S.226, B:G.228, B:G.230 Water bridges: B:W.227, B:F.239 Salt bridges: B:D.199

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Radau, G. et al., Design and X-ray crystal structures of human thrombin with synthetic cyanopeptide-analogues. Pharmazie (2007)

Release Date

2006-01-17

Peptides

thrombin light chain: A
Thrombin heavy chain: B
Hirudin: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
L

B
H

C
I

thrombin light chain

Thrombin heavy chain

Hirudin

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