SMTL ID : 2cf9.1

Complex of recombinant human thrombin with an inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.79 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x 348: 4-[(1R,3AS,4R,8AS,8BR)-1-ISOPROPYL-2-(4-METHOXYBENZYL)-3-OXODECAHYDROPYRROLO[3,4-A]PYRROLIZIN-4-YL]BENZENECARBOXIMIDAMIDE(Non-covalent)

348.1: 17 residues within 4Å: Chain A: H.43, Y.47, W.50, N.95, L.96, I.179, D.199, A.200, E.202, S.205, V.225, S.226, W.227, G.228, G.230, C.231, G.238 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:H.43, A:Y.47, A:W.50, A:L.96, A:V.225, A:W.227, A:W.227 Hydrogen bonds: A:D.199, A:D.199, A:G.228 Water bridges: A:F.239

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

NA.2: 3 residues within 4Å: Chain A: D.232, R.233, K.236 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.236, A:K.236 Water bridges: A:G.235, A:G.238

1 x CA: CALCIUM ION(Non-covalent)

CA.3: 2 residues within 4Å: Chain A: K.174, T.177 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:K.174, A:T.177, H2O.12, H2O.12

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Schweizer, E. et al., Multipolar Interactions in the D Pocket of Thrombin: Large Differences between Tricyclic Imide and Lactam Inhibitors. Org.Biomol.Chem. (2006)

Release Date

2006-06-14

Peptides

THROMBIN HEAVY CHAIN: A
HIRUDIN IIIA: B
THROMBIN LIGHT CHAIN: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

B
I

C
L

THROMBIN HEAVY CHAIN

HIRUDIN IIIA

THROMBIN LIGHT CHAIN

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