SMTL ID : 6tma.1 (1 other biounit)

VIM-2_1dj- Triazole inhibitors with promising inhibitor effects against antibiotic resistance metallo-beta-lactamases

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

monomer

Ligands

3 x ZN: ZINC ION(Non-covalent)

ZN.1: 7 residues within 4Å: Chain A: H.114, H.116, D.118, H.179, C.198 Ligands: ZN.2, OH.4 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Ligand interactions Metal complexes: A:H.114, A:H.116, A:H.179, OH.4 ZN.2: 8 residues within 4Å: Chain A: H.114, D.118, R.119, C.198, H.240 Ligands: ZN.1, OH.4, 9O8.7 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Ligand interactions Metal complexes: A:D.118, A:C.198, A:H.240, OH.4 ZN.3: 4 residues within 4Å: Chain A: A.132, H.153 Ligands: CL.5, CL.6 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:H.153

1 x OH: HYDROXIDE ION(Non-covalent)

OH.4: 9 residues within 4Å: Chain A: H.114, H.116, D.118, R.119, H.179, C.198 Ligands: ZN.1, ZN.2, 9O8.7 No protein-ligand interaction detected (PLIP)

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.5: 5 residues within 4Å: Chain A: A.132, T.152, H.153 Ligands: ZN.3, CL.6 Ligand excluded by PLIP CL.6: 4 residues within 4Å: Chain A: A.132, H.153 Ligands: ZN.3, CL.5 Ligand excluded by PLIP

1 x 9O8: [5-(phenylsulfonylaminomethyl)-2~{H}-1,2,3-triazol-4-yl]methyl ethanoate(Non-covalent)

9O8.7: 17 residues within 4Å: Chain A: F.62, Y.67, W.87, H.116, D.118, H.179, C.198, R.205, A.208, G.209, N.210, V.211, A.212, D.213, H.240 Ligands: ZN.2, OH.4 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:Y.67 Hydrogen bonds: A:R.205, A:R.205 Water bridges: A:H.179, A:H.179, A:C.198 Salt bridges: A:H.116, A:H.179 pi-Cation interactions: A:H.179

1 x IOD: IODIDE ION(Non-functional Binders)

IOD.8: 4 residues within 4Å: Chain A: P.68, E.202, R.205, H.240 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Muhammad, Z. et al., Structural studies of triazole inhibitors with promising inhibitor effects against antibiotic resistance metallo-beta-lactamases. Bioorg.Med.Chem. (2020)

Release Date

2020-09-02

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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