SMTL ID : 2gde.1

Thrombin in complex with inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

hetero-1-1-1-mer

Ligands

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

NA.1: 4 residues within 4Å: Chain B: D.199, D.232, R.233, K.236 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:D.232, B:R.233, B:K.236 Water bridges: B:D.232, B:G.238

1 x SN3: (R)-3-((2S,3R)-1-((2S,3AR,5S,6S,7AS)-2-(2-(1-CARBAMIMIDOYL-2,5-DIHYDRO-1H-PYRROL-3-YL)ETHYLCARBAMOYL)-5,6-DIHYDROXYOCTA HYDRO-1H-INDOL-1-YL)-3-CHLORO-4-METHYL-1-OXOPENTAN-2-YLAMINO)-2-METHOXY-3-OXOPROPYL HYDROGEN SULFATE(Non-covalent)

SN3.2: 18 residues within 4Å: Chain B: H.43, Y.47, W.50, I.179, D.199, A.200, C.201, E.202, S.205, V.225, S.226, W.227, G.228, E.229, G.230, C.231, R.233, G.238 17 PLIP interactions: 17 interactions with chain B Hydrophobic interactions: B:Y.47, B:I.179, B:V.225, B:E.229 Hydrogen bonds: B:A.200, B:S.205, B:S.226, B:G.228, B:G.228, B:G.230, B:G.230 Water bridges: B:W.227, B:R.233, B:R.233, B:Y.240 Salt bridges: B:D.199, B:R.233

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hanessian, S. et al., Total synthesis and structural confirmation of chlorodysinosin A. J.Am.Chem.Soc. (2006)

Release Date

2007-03-20

Peptides

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
L

B
H

C
D

Thrombin light chain

Thrombin heavy chain

Hirudin

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