SMTL ID : 4c1e.2 (1 other biounit)

Crystal structure of the metallo-beta-lactamase VIM-2 with D-captopril

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

monomer

Ligands

1 x NA: SODIUM ION(Non-functional Binders)

NA.1: 2 residues within 4Å: Chain A: E.147, H.205 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.147

1 x MCO: 1-(3-MERCAPTO-2-METHYL-PROPIONYL)-PYRROLIDINE-2-CARBOXYLIC ACID(Non-covalent)

MCO.2: 13 residues within 4Å: Chain A: F.38, Y.43, W.63, H.92, D.94, H.155, C.174, R.181, G.185, N.186, H.216 Ligands: ZN.5, ZN.6 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:F.38, A:Y.43, A:Y.43, A:W.63, A:W.63 Hydrogen bonds: A:N.186, A:N.186 Water bridges: A:R.181, A:R.181 Salt bridges: A:R.181

2 x FMT: FORMIC ACID(Non-functional Binders)

FMT.3: 4 residues within 4Å: Chain A: A.108, H.129 Ligands: FMT.4, ZN.7 No protein-ligand interaction detected (PLIP) FMT.4: 7 residues within 4Å: Chain A: V.107, A.108, T.109, T.128, H.129 Ligands: FMT.3, ZN.7 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.109 Water bridges: A:T.128

3 x ZN: ZINC ION(Non-covalent)

ZN.5: 5 residues within 4Å: Chain A: H.90, H.92, H.155 Ligands: MCO.2, ZN.6 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.90, A:H.92, A:H.155 ZN.6: 6 residues within 4Å: Chain A: D.94, R.95, C.174, H.216 Ligands: MCO.2, ZN.5 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.94, A:C.174, A:H.216 ZN.7: 3 residues within 4Å: Chain A: H.129 Ligands: FMT.3, FMT.4 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:H.129

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Brem, J. et al., Structural Basis of Metallo-beta-Lactamase Inhibition by Captopril Stereoisomers. Antimicrob. Agents Chemother. (2015)

Release Date

2014-08-27

Peptides

BETA-LACTAMASE CLASS B VIM-2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

BETA-LACTAMASE CLASS B VIM-2

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