SMTL ID : 4nq2.1

Structure of Zn(II)-bound metallo-beta-lactamse VIM-2 from Pseudomonas aeruginosa

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

monomer

Ligands

3 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: H.114, H.116, D.118, H.179 Ligands: ZN.2 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.114, A:H.116, A:H.179, H2O.8, H2O.10 ZN.2: 5 residues within 4Å: Chain A: D.118, R.119, C.198, H.240 Ligands: ZN.1 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.118, A:C.198, A:H.240, H2O.9, H2O.10 ZN.5: 3 residues within 4Å: Chain A: H.153 Ligands: ACT.3, ACT.4 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Ligand interactions Metal complexes: A:H.153, ACT.3

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

ACT.3: 4 residues within 4Å: Chain A: A.132, H.153 Ligands: ACT.4, ZN.5 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:H.153 ACT.4: 7 residues within 4Å: Chain A: R.127, A.132, T.133, T.152, H.153 Ligands: ACT.3, ZN.5 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:R.127, A:T.152 Hydrogen bonds: A:T.133, A:T.152 Salt bridges: A:H.153

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Aitha, M. et al., Biochemical, Mechanistic, and Spectroscopic Characterization of Metallo-beta-lactamase VIM-2. Biochemistry (2014)

Release Date

2014-11-12

Peptides

Beta-lactamase class B VIM-2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Beta-lactamase class B VIM-2