SMTL ID : 2bdy.1

thrombin in complex with inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.61 Å

Oligo State

hetero-1-1-mer

Ligands

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

NA.1: 2 residues within 4Å: Chain A: R.263, K.266 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.266, A:K.266 Water bridges: A:R.227, A:G.265

1 x UNB: N-(4-CARBAMIMIDOYL-BENZYL)-2-[2-HYDROXY-6-METHYL-3-(NAPHTHALENE-1-SULFONYLAMINO)-PHENYL]-ACETAMIDE(Non-covalent)

UNB.2: 19 residues within 4Å: Chain A: H.73, Y.77, W.80, E.124, N.125, L.126, I.209, D.229, A.230, C.231, S.235, V.255, S.256, W.257, G.258, E.259, G.260, C.261, G.268 19 PLIP interactions: 19 interactions with chain A Hydrophobic interactions: A:H.73, A:Y.77, A:Y.77, A:W.80, A:W.80, A:L.126, A:I.209, A:I.209, A:A.230, A:V.255, A:W.257 Hydrogen bonds: A:D.229, A:A.230, A:S.256, A:G.258, A:G.258, A:G.260 Water bridges: A:D.262, A:F.269

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hanessian, S. et al., Phenolic P2/P3 core motif as thrombin inhibitors--design, synthesis, and X-ray co-crystal structure. Bioorg.Med.Chem.Lett. (2006)

Release Date

2006-10-24

Peptides

Thrombin: A
Hirudin IIIB': B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Thrombin

Hirudin IIIB'

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