SMTL ID : 5kdn.1

ZmpB metallopeptidase from Clostridium perfringens

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.66 Å

Oligo State

monomer

Ligands

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

EDO.1: 2 residues within 4Å: Chain A: G.96, K.97 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.97 Water bridges: A:P.95, A:K.97 EDO.2: 6 residues within 4Å: Chain A: L.82, P.113, D.115, V.116, Q.193, P.266 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.115, A:Q.193 Water bridges: A:Q.193 EDO.3: 4 residues within 4Å: Chain A: D.115, I.117, P.174, K.175 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:P.174 EDO.4: 7 residues within 4Å: Chain A: S.23, L.25, T.51, L.53, V.138, R.139, I.140 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.23, A:T.51, A:I.140 EDO.5: 6 residues within 4Å: Chain A: Y.361, L.362, N.365, A.440, M.441, N.442 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.442 Water bridges: A:Y.363, A:N.365

1 x ZN: ZINC ION(Non-covalent)

ZN.6: 3 residues within 4Å: Chain A: H.283, H.287, E.298 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.283, A:H.287, A:E.298, H2O.4, H2O.5

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Noach, I. et al., Recognition of protein-linked glycans as a determinant of peptidase activity. Proc. Natl. Acad. Sci. U.S.A. (2017)

Release Date

2017-01-11

Peptides

F5/8 type C domain protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

F5/8 type C domain protein

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