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SMTL ID : 2c8w.1

thrombin inhibitors

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.96 Å

Oligo State

hetero-1-1-1-mer

Ligands

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

NA.1:

3 residues within 4Å:

Chain B: Y.190, R.233, K.236

4 PLIP interactions:

4 interactions with chain B

Hydrogen bonds: B:R.233, B:K.236
Water bridges: B:D.234, B:G.238

1 x C7M: (2S,3R)-N-[5-CHLORO-2-(2,3-DIHYDRO-1H-TETRAZOL-1-YL)BENZYL]-3-HYDROXY-4-{[(4-METHOXYPHENYL)SULFONYL]AMINO}-1-PHENYLBUTA N-2-AMINIUM(Non-covalent)

C7M.2:

26 residues within 4Å:

Chain B: H.43, Y.47, W.50, K.52, N.91, W.92, R.93, E.94, 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, F.239, Y.240

15 PLIP interactions:

15 interactions with chain B

Hydrophobic interactions: B:W.50, B:L.96, B:I.179, B:A.200, B:V.225, B:W.227, B:W.227
Hydrogen bonds: B:G.228, B:G.228
Water bridges: B:D.204, B:S.205, B:G.228, B:G.230
pi-Stacking: B:Y.47
pi-Cation interactions: B:H.43

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Howard, N. et al., Application of Fragment Screening and Fragment Linking to the Discovery of Novel Thrombin Inhibitors. J.Med.Chem. (2006)

Release Date

2006-07-04

Peptides

THROMBIN LIGHT CHAIN: A
THROMBIN HEAVY CHAIN: B
HIRUDIN VARIANT-2: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
I

Export Alignment

Secondary Structure
NoneDSSPPSIPREDSSpro

Colour Scheme

Fade MismatchesEnhance Mismatches

ChainUnique ChainRainbow2° StructureBfactorBfactor RangeSOAEntropyClustalHydrophobicSizeChargedPolarProlineSer/ThrCysteineAliphaticAromaticNo Colour

Background

3D Viewer
NGLPV2D

THROMBIN LIGHT CHAIN

THROMBIN HEAVY CHAIN

HIRUDIN VARIANT-2

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