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SMTL ID : 1sr5.1

ANTITHROMBIN-ANHYDROTHROMBIN-HEPARIN TERNARY COMPLEX STRUCTURE

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.10 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x YYB- U9J- GU6- U9M- U9G- GU8- U9D: 4-deoxy-2,3,6-tri-O-methyl-alpha-D-xylo-hexopyranose-(1-4)-2,3,6-tri-O-methyl-beta-D-glucopyranose-(1-4)-2,3-di-O-methyl-6-O-sulfo-alpha-D-glucopyranose-(1-4)-(2R,3R,4S,5S,6S)-6-(dihydroxymethyl)-3,4-dimethoxytetrahydro-2H-pyran-2,5-diol-(1-4)-2,3,6-tri-O-sulfo-alpha-D-glucopyranose-(1-4)-(2R,3R,4S,5S,6R)-6-(dihydroxymethyl)-3,4-dimethoxytetrahydro-2H-pyran-2,5-diol-(1-4)-1,5-anhydro-3-O-methyl-2,6-di-O-sulfo-D-glucitol(Post Translational Modification)

YYB-U9J-GU6-U9M-U9G-GU8-U9D.1:

15 residues within 4Å:

Chain A: K.11, P.12, R.13, A.43, T.44, N.45, R.46, R.47, V.48, S.112, E.113, K.114, F.122, K.125, R.129

5 PLIP interactions:

5 interactions with chain A

Hydrogen bonds: A:R.13, A:N.45, A:N.45, A:R.47, A:K.11, A:N.45, A:R.47, A:E.113, A:K.114
Salt bridges: A:K.11, A:K.11, A:R.13, A:K.114, A:K.114, A:K.125, A:R.129, A:R.47, A:K.114, A:K.11, A:K.125, A:R.47, A:K.114

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

NAG.2:	4 residues within 4Å: Chain A: N.135, S.137, S.138, K.139 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:K.139 Hydrogen bonds: A:N.135
NAG.3:	5 residues within 4Å: Chain A: N.18, P.19, M.20, N.155, T.157 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.155
NAG.4:	1 residues within 4Å: Chain C: N.53 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.53

1 x GU4: 2,3,4,6-tetra-O-sulfonato-alpha-D-glucopyranose(Non-covalent)

GU4.5:

4 residues within 4Å:

Chain C: L.130, V.168, R.170, H.242

4 PLIP interactions:

4 interactions with chain C

Hydrogen bonds: C:L.130, C:R.170, C:R.170
Salt bridges: C:R.170

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Dementiev, A. et al., The ternary complex of antithrombin-anhydrothrombin-heparin reveals the basis of inhibitor specificity. Nat.Struct.Mol.Biol. (2004)

Release Date

2004-08-17

Peptides

Antithrombin-III: A
Prothrombin: B
Prothrombin: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Export Alignment

Secondary Structure
NoneDSSPPSIPREDSSpro

Colour Scheme

Fade MismatchesEnhance Mismatches

ChainUnique ChainRainbow2° StructureBfactorBfactor RangeSOAEntropyClustalHydrophobicSizeChargedPolarProlineSer/ThrCysteineAliphaticAromaticNo Colour

Background

3D Viewer
NGLPV2D

Antithrombin-III

Prothrombin

Prothrombin

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