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SMTL ID : 1sg8.3 (2 other biounits)

Crystal structure of the procoagulant fast form of thrombin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

hetero-2-2-mer

Ligands

2 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.1:	1 residues within 4Å: Chain B: N.53 No protein-ligand interaction detected (PLIP)
NAG.3:	2 residues within 4Å: Chain A: K.23 Chain D: N.53 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.23

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

NA.2:	3 residues within 4Å: Chain B: Y.190, R.233, K.236 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Y.190, B:K.236 Water bridges: B:R.233, B:G.238
NA.4:	3 residues within 4Å: Chain D: Y.190, R.233, K.236 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:Y.190 Water bridges: D:R.197, D:G.198, D:R.233

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: AC
thrombin: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
D

B
B

D
E

Export Alignment

Secondary Structure
NoneDSSPPSIPREDSSpro

Colour Scheme

Fade MismatchesEnhance Mismatches

ChainUnique ChainRainbow2° StructureBfactorBfactor RangeSOAEntropyClustalHydrophobicSizeChargedPolarProlineSer/ThrCysteineAliphaticAromaticNo Colour

Background

3D Viewer
NGLPV2D

thrombin

Toggle Identical (AC)

thrombin

Toggle Identical (BD)

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1a2c.1 | 1a3b.1 | 1a3e.1 | 1a46.1 | 1a4w.1 | 1a5g.1 | 1a61.1 | 1abi.1 | 1abj.1 | 1ad8.1 | 1ae8.1 | 1afe.1 | 1aht.1 | 1ai8.1 | 1aix.1 | 1awf.1 | 1awh.1 | 1awh.2 | 1ay6.1 | 1b5g.1 | 1b7x.1 | 1ba8.1 | 1bb0.1 | 1bcu.1 | 1bmm.1 | 1bmn.1 | 1bth.1 | 1bth.2 | 1c1u.1 | 1c1v.1 more...less...

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