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SMTL ID : 1nu7.2 (1 other biounit)

Staphylocoagulase-Thrombin Complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

hetero-oligomer

Ligands

1 x 0ZJ: N-(SULFANYLACETYL)-D-PHENYLALANYL-N-[(2S,3S)-6-{[AMINO(IMINIO)METHYL]AMINO}-1-CHLORO-2-HYDROXYHEXAN-3-YL]-L-PROLINAMIDE(Covalent)

0ZJ.1:

22 residues within 4Å:

Chain B: H.43, Y.47, W.50, E.94, N.95, L.96, I.179, D.199, A.200, E.202, G.203, D.204, S.205, S.226, W.227, G.228, E.229, G.230, C.231, G.238
Ligands: HG.2, HG.3

20 PLIP interactions:

20 interactions with chain B

Hydrophobic interactions: B:Y.47, B:W.50, B:L.96, B:L.96, B:I.179, B:W.227
Hydrogen bonds: B:A.200, B:G.203, B:S.205, B:S.226, B:G.228, B:G.228, B:G.230
Water bridges: B:E.202, B:E.202, B:E.202, B:W.227, B:D.232, B:Y.240
Salt bridges: B:D.199

2 x HG: MERCURY (II) ION(Non-covalent)

HG.2:	3 residues within 4Å: Chain C: D.107 Ligands: 0ZJ.1, HG.3 No protein-ligand interaction detected (PLIP)
HG.3:	3 residues within 4Å: Chain C: D.107 Ligands: 0ZJ.1, HG.2 No protein-ligand interaction detected (PLIP)

3 x IMD: IMIDAZOLE(Non-covalent)

IMD.4:	4 residues within 4Å: Chain C: Y.85, V.101, K.102, K.104 No protein-ligand interaction detected (PLIP)
IMD.5:	1 residues within 4Å: Chain C: F.255 1 PLIP interactions: 1 interactions with chain C pi-Stacking: C:Y.248
IMD.6:	6 residues within 4Å: Chain C: K.168, E.220, K.234, P.235, D.236, I.238 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:K.234

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Friedrich, R. et al., Staphylocoagulase is a prototype for the mechanism of cofactor-induced zymogen activation. NATURE (2003)

Release Date

2003-10-07

Peptides

Thrombin light chain: A
Thrombin heavy chain: B
Staphylocoagulase: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
F

C
H

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

Staphylocoagulase

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