SMTL ID : 4ayv.1

Human thrombin - inhibitor complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x 9MQ: {Benzyl-[(S)-3-[((S)-1-carbamimidoyl-piperidin-3-ylmethyl)-carbamoyl]-2-(naphthalene-2-sulfonylamino)-propionyl]-amino}-acetic acid(Non-covalent)

9MQ.1: 18 residues within 4Å: Chain B: H.43, Y.47, N.95, L.96, 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, G.238 18 PLIP interactions: 18 interactions with chain B Hydrophobic interactions: B:H.43, B:Y.47, B:Y.47, B:L.96, B:L.96, B:I.179, B:V.225, B:W.227 Hydrogen bonds: B:A.200, B:S.205, B:G.228, B:G.230, B:G.230 Water bridges: B:W.227, B:Y.240 Salt bridges: B:H.43, B:D.199 pi-Stacking: B:H.43

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

NAG.2: 3 residues within 4Å: Chain B: L.46, P.48, N.53 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:L.46, B:P.48 Hydrogen bonds: B:N.53

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

NA.3: 2 residues within 4Å: Chain B: R.233, K.236 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Y.190, B:K.236 Water bridges: B:R.233, B:G.235

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hilpert, K. et al., Design and Synthesis of Potent and Highly Selective Thrombin Inhibitors. J.Med.Chem. (1994)

Release Date

2012-08-15

Peptides

THROMBIN LIGHT CHAIN: A
THROMBIN HEAVY CHAIN: B
HIRUDIN-3A': C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
D

THROMBIN LIGHT CHAIN

THROMBIN HEAVY CHAIN

HIRUDIN-3A'

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