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SMTL ID : 1a5g.1

HUMAN THROMBIN COMPLEXED WITH NOVEL SYNTHETIC PEPTIDE MIMETIC INHIBITOR AND HIRUGEN

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.06 Å

Oligo State

hetero-1-1-1-mer

Ligands

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

NA.1:	2 residues within 4Å: Chain B: R.233, K.236 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:K.236, B:K.236 Water bridges: B:R.197, B:R.233
NA.2:	2 residues within 4Å: Chain B: K.174, T.177 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.174, B:T.177

1 x 00L: (1S,7S)-7-amino-7-benzyl-N-[(1S)-4-carbamimidamido-1-{(1S)-1-hydroxy-2-oxo-2-[(2-phenylethyl)amino]ethyl}butyl]-8-oxohexahydro-1H-pyrazolo[1,2-a]pyridazine-1-carboxamide(Covalent)

00L.3:

21 residues within 4Å:

Chain B: L.26, L.27, H.43, Y.47, W.50, E.94, L.96, I.179, 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

18 PLIP interactions:

18 interactions with chain B

Hydrophobic interactions: B:W.50, B:L.96, B:L.96, B:I.179, B:E.202, B:W.227
Hydrogen bonds: B:C.201, B:E.202, B:G.203, B:S.205, B:S.226, B:W.227, B:G.228, B:G.228, B:G.230
Water bridges: B:G.230, B:F.239
Salt bridges: B:D.199

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 (SMALL SUBUNIT): A
ALPHA-THROMBIN (LARGE SUBUNIT): 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 (SMALL SUBUNIT)

ALPHA-THROMBIN (LARGE SUBUNIT)

HIRUGEN

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