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SMTL ID : 1b5g.1

HUMAN THROMBIN COMPLEXED WITH NOVEL SYNTHETIC PEPTIDE MIMETIC INHIBITOR AND HIRUGEN

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.07 Å

Oligo State

hetero-oligomer

Ligands

1 x 0ZE: [[[(4S,5S)-4-[[(3S,6S,8AR)-6-AZANYL-5-OXO-6-(PHENYLMETHYL)-1,2,3,7,8,8A-HEXAHYDROINDOLIZIN-3-YL]CARBONYLAMINO]-5-(1,3-BENZOTHIAZOL-2-YL)-5-HYDROXY-PENTYL]AMINO]-AZANYL-METHYLIDENE]AZANIUM(Covalent)

0ZE.1:

18 residues within 4Å:

Chain B: H.43, Y.47, W.50, K.52, D.199, A.200, C.201, E.202, G.203, D.204, S.205, S.226, W.227, G.228, E.229, G.230, C.231, G.238

16 PLIP interactions:

16 interactions with chain B

Hydrophobic interactions: B:Y.47, B:W.50, B:W.50
Hydrogen bonds: B:C.201, B:G.203, B:D.204, B:S.205, B:S.226, B:G.228, B:G.230
Water bridges: B:W.227, B:G.230, B:G.230, B:Y.240
Salt bridges: B:D.199
pi-Stacking: B:W.50

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

NA.2:	2 residues within 4Å: Chain B: R.233, K.236 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:K.236, B:K.236 Water bridges: B:G.235
NA.3:	2 residues within 4Å: Chain B: K.174, T.177 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.174

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

St Charles, R. et al., Bound structures of novel P3-P1' beta-strand mimetic inhibitors of thrombin. J.Med.Chem. (1999)

Release Date

1998-05-27

Peptides

ALPHA-THROMBIN: A
ALPHA-THROMBIN: B
HIRUGEN: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
L

B
H

C
I

Export Alignment

Secondary Structure
NoneDSSPPSIPREDSSpro

Colour Scheme

Fade MismatchesEnhance Mismatches

ChainUnique ChainRainbow2° StructureBfactorBfactor RangeSOAEntropyClustalHydrophobicSizeChargedPolarProlineSer/ThrCysteineAliphaticAromaticNo Colour

Background

3D Viewer
NGLPV2D

ALPHA-THROMBIN

ALPHA-THROMBIN

HIRUGEN

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