SMTL ID : 6xsx.1

The structure of the catalytic module of the metalloprotease ZmpA from Clostridium perfringens

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

monomer

Ligands

2 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.1: 7 residues within 4Å: Chain A: H.85, N.86, G.87, D.88, T.90, K.105 Ligands: EDO.3 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:N.86, A:N.86, A:G.87, A:D.88 Water bridges: A:S.83, A:T.90, A:K.105, A:E.109 Salt bridges: A:D.88, A:K.105 MES.2: 5 residues within 4Å: Chain A: V.67, E.68, D.69, K.95, R.133 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.69 Salt bridges: A:K.95, A:R.133

5 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 5 residues within 4Å: Chain A: Q.46, N.86, D.88, N.257 Ligands: MES.1 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.86, A:D.88 Water bridges: A:Q.46, A:N.257 EDO.4: 8 residues within 4Å: Chain A: K.437, V.478, I.479, G.480, Y.481, S.494, T.495, N.496 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.437, A:I.479 EDO.5: 5 residues within 4Å: Chain A: V.24, Y.64, D.66, K.136, R.138 No protein-ligand interaction detected (PLIP) EDO.6: 6 residues within 4Å: Chain A: D.362, T.364, F.365, R.368, V.397, F.398 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.364, A:T.364, A:R.368 EDO.7: 5 residues within 4Å: Chain A: S.242, V.273, D.274, F.279, M.283 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.242, A:S.242, A:D.274

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pluvinage, B. et al., Molecular insights into architecturally complex glycopeptidases. Proc.Natl.Acad.Sci.USA (2021)

Release Date

2021-02-03

Peptides

ZmpA Glycopeptidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

ZmpA Glycopeptidase