SMTL ID : 5n0h.2 (1 other biounit)

Crystal structure of NDM-1 in complex with hydrolyzed meropenem - new refinement

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: D.96, C.180, H.222 Ligands: ZN.2 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.96, A:C.180, A:H.222, H2O.6, H2O.6 ZN.2: 4 residues within 4Å: Chain A: H.92, H.94, H.161 Ligands: ZN.1 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.92, A:H.94, A:H.161, H2O.5, H2O.6

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 3 residues within 4Å: Chain A: R.24, Q.25, L.26 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.24, A:R.24 GOL.4: 7 residues within 4Å: Chain A: I.170, T.173, D.174, I.175, F.212, K.214, A.215 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:I.170, A:I.170, A:I.175, A:K.214 Water bridges: A:K.214 GOL.5: 4 residues within 4Å: Chain A: Q.25, W.31, W.76, E.80 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.80 Water bridges: A:Q.25

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Raczynska, J.E. et al., A close look onto structural models and primary ligands of metallo-beta-lactamases. Drug Resist. Updat. (2018)

Release Date

2017-04-05

Peptides

Metallo-beta-lactamase type 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Metallo-beta-lactamase type 2

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