SMTL ID : 6nc5.1

Cronobacter sakazakii (Enterobacter sakazakii) Metallo-beta-lactamse HARLDQ motif

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.07 Å

Oligo State

monomer

Ligands

6 x ZN: ZINC ION(Non-covalent)(Non-functional Binders)

ZN.1: 5 residues within 4Å: Chain A: H.73, D.77, H.78, H.211 Ligands: ZN.2 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.77, A:H.78, A:H.211, H2O.4 ZN.2: 6 residues within 4Å: Chain A: H.73, R.75, H.78, H.149 Ligands: ZN.1, ZN.3 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.73, A:H.149, H2O.4, H2O.4 ZN.3: 3 residues within 4Å: Chain A: R.75 Ligands: ZN.2, ACT.7 4 PLIP interactions: 3 Ligand-Water interactions, 1 Ligand-Ligand interactions Metal complexes: H2O.4, H2O.4, H2O.5, ACT.7 ZN.4: 3 residues within 4Å: Chain A: H.97, E.101 Ligands: PO4.8 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.101, H2O.5 ZN.5: 3 residues within 4Å: Chain A: H.97, E.127 Ligands: PO4.8 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.97, A:E.127, A:E.127 ZN.6: 3 residues within 4Å: Chain A: K.108, E.109, D.115 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:E.109, A:E.109, A:D.115, A:D.115

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.7: 6 residues within 4Å: Chain A: R.75, H.149, A.173, P.175, Y.177 Ligands: ZN.3 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:P.175 Hydrogen bonds: A:Y.177 Salt bridges: A:R.75, A:H.149

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.8: 6 residues within 4Å: Chain A: H.97, A.100, E.101, E.127 Ligands: ZN.4, ZN.5 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:H.97

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pedroso, M.M. et al., Broad spectrum antibiotic-degrading metallo-beta-lactamases are phylogenetically diverse. Protein Cell (2020)

Release Date

2019-12-25

Peptides

Beta-lactamase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Beta-lactamase