SMTL ID : 7dz1.1 (1 other biounit)

Crystal structure of VIM-2 MBL in complex with 1-benzyl-5-methyl-1H-imidazole-2-carboxylic acid

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.71 Å

Oligo State

monomer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: H.83, H.85, D.87, H.148 Ligands: ZN.2 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.83, A:H.85, A:H.148, H2O.1 ZN.2: 5 residues within 4Å: Chain A: D.87, C.167, H.209 Ligands: ZN.1, HQ3.3 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.87, A:C.167, A:H.209, H2O.1

1 x HQ3: 5-methyl-1-(phenylmethyl)imidazole-2-carboxylic acid(Non-covalent)

HQ3.3: 8 residues within 4Å: Chain A: Y.36, W.56, D.87, H.148, C.167, R.174, H.209 Ligands: ZN.2 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:W.56, A:H.209 Water bridges: A:R.174 Salt bridges: A:H.148, A:R.174, A:H.209 pi-Stacking: A:Y.36, A:H.209

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yan, Y.H. et al., Structure-guided optimization of 1H-imidazole-2-carboxylic acid derivatives affording potent VIM-Type metallo-beta-lactamase inhibitors. Eur.J.Med.Chem. (2022)

Release Date

2022-01-26

Peptides

Beta-lactamase class B VIM-2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Beta-lactamase class B VIM-2

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