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

Crystal structure of VIM-2 MBL in complex with 1-((2-aminobenzo[d]thiazol-6-yl)methyl)-1H-imidazole-2-carboxylic acid

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

2 x ZN: ZINC ION(Non-covalent)

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

1 x HQF: 1-[(2-azanyl-1,3-benzothiazol-6-yl)methyl]imidazole-2-carboxylic acid(Non-covalent)

HQF.3: 11 residues within 4Å: Chain A: F.31, Y.36, W.56, D.87, H.148, C.167, R.174, N.179, H.209 Ligands: ZN.1, PEG.4 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:Y.36, A:Y.36 Water bridges: A:D.87, A:E.171, A:E.171, A:R.174, A:R.174 Salt bridges: A:H.148, A:R.174, A:H.209 pi-Cation interactions: A:R.174, A:R.174

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.4: 6 residues within 4Å: Chain A: F.31, H.85, D.86, D.87, N.179 Ligands: HQF.3 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.86, A:D.87, A:D.87, A:N.179

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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