SMTL ID : 2ygt.1

Clostridium perfringens delta-toxin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

monomer

Ligands

3 x ZN: ZINC ION(Non-covalent)

ZN.1: 3 residues within 4Å: Chain A: D.54, W.283, H.286 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.54, A:D.54, A:H.286, H2O.9 ZN.2: 2 residues within 4Å: Chain A: D.110, D.166 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.166, H2O.4, H2O.4, H2O.6 ZN.7: 2 residues within 4Å: Chain A: Q.290 Ligands: IMD.3 No protein-ligand interaction detected (PLIP)

1 x IMD: IMIDAZOLE(Non-covalent)

IMD.3: 4 residues within 4Å: Chain A: D.36, R.289, Q.290 Ligands: ZN.7 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.36, A:Q.290

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 5 residues within 4Å: Chain A: Y.203, S.204, G.205, W.259, W.263 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:W.263 GOL.5: 4 residues within 4Å: Chain A: S.201, R.202, Y.203, S.204 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.202, A:Y.203, A:S.204 Water bridges: A:R.202 GOL.6: 3 residues within 4Å: Chain A: A.178, E.179, N.185 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.178, A:N.185 Water bridges: A:N.160

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Huyet, J. et al., Structural Insights Into Clostridium Perfringens Delta Toxin Pore Formation. Plos One (2013)

Release Date

2012-05-16

Peptides

DELTA TOXIN: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

DELTA TOXIN