SMTL ID : 1shh.2 (1 other biounit)

Slow form of Thrombin Bound with PPACK

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

hetero-1-1-mer

Ligands

1 x 0G6: D-phenylalanyl-N-[(2S,3S)-6-{[amino(iminio)methyl]amino}-1-chloro-2-hydroxyhexan-3-yl]-L-prolinamide(Covalent)

0G6.1: 19 residues within 4Å: Chain B: H.43, Y.47, W.50, E.94, N.95, L.96, D.199, A.200, C.201, E.202, G.203, D.204, S.205, S.226, W.227, G.228, G.230, C.231, G.238 20 PLIP interactions: 20 interactions with chain B Hydrophobic interactions: B:Y.47, B:W.50, B:L.96, B:W.227 Hydrogen bonds: B:A.200, B:G.203, B:S.205, B:S.226, B:G.228, B:G.228, B:G.230 Water bridges: B:E.202, B:E.202, B:W.227, B:G.230, B:G.230, B:G.230, B:D.232, B:Y.240 Salt bridges: B:D.199

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

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pineda, A.O. et al., Molecular dissection of na+ binding to thrombin. J.Biol.Chem. (2004)

Release Date

2004-06-08

Peptides

thrombin: A
thrombin: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
E

thrombin

thrombin

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