SMTL ID : 6o3r.1

Crystal Structure of NDM-1 D199N with Compound 7

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.30 Å

Oligo State

monomer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: H.83, H.85, H.152 Ligands: XJE.3 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.83, A:H.85, A:H.152, H2O.1, H2O.2 ZN.2: 4 residues within 4Å: Chain A: D.87, C.171, H.213 Ligands: XJE.3 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.87, A:C.171, A:H.213

1 x XJE: [(5-methoxy-7-methyl-2-oxo-2H-1-benzopyran-4-yl)methyl]phosphonic acid(Non-covalent)

XJE.3: 10 residues within 4Å: Chain A: M.30, F.33, V.36, W.56, D.87, H.152, C.171, H.213 Ligands: ZN.1, ZN.2 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:M.30, A:V.36 Water bridges: A:K.174, A:N.183, A:N.183, A:N.183, A:N.183 pi-Stacking: A:F.33

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pemberton, O.A. et al., Heteroaryl Phosphonates as Noncovalent Inhibitors of Both Serine- and Metallocarbapenemases. J.Med.Chem. (2019)

Release Date

2019-09-25

Peptides

Carbapenem Hydrolyzing Class B Metallo beta lactamase NDM-1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Carbapenem Hydrolyzing Class B Metallo beta lactamase NDM-1

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