SMTL ID : 1nu9.1 (1 other biounit)

Staphylocoagulase-Prethrombin-2 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: 21 residues within 4Å: Chain A: H.75, Y.79, W.82, E.126, N.127, L.128, I.211, D.231, A.232, G.235, D.236, S.237, S.258, W.259, G.260, E.261, G.262, C.263, G.270 Ligands: HG.2, HG.3 20 PLIP interactions: 20 interactions with chain A Hydrophobic interactions: A:Y.79, A:W.82, A:L.128, A:L.128, A:I.211, A:W.259 Hydrogen bonds: A:A.232, A:G.235, A:S.237, A:S.258, A:G.260, A:G.260, A:G.262 Water bridges: A:W.259, A:E.261, A:G.262, A:G.262, A:D.264, A:Y.272 Salt bridges: A:D.231

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

HG.2: 3 residues within 4Å: Chain B: D.106 Ligands: 0ZJ.1, HG.3 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:D.106 HG.3: 3 residues within 4Å: Chain B: D.106 Ligands: 0ZJ.1, HG.2 No protein-ligand interaction detected (PLIP)

3 x IMD: IMIDAZOLE(Non-covalent)(Non-functional Binders)

IMD.4: 2 residues within 4Å: Chain B: Y.84, K.103 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Y.84 IMD.5: 4 residues within 4Å: Chain B: K.233, P.234, D.235, I.237 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.233 IMD.6: 0 residues within 4Å: (No contacts) 1 PLIP interactions: 1 interactions with chain B pi-Stacking: B:Y.247

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 and heavy chains: A
Staphylocoagulase: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

Thrombin light and heavy chains

Staphylocoagulase

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