SMTL ID : 6v1m.1

Structure of NDM-1 bound to QPX7728 at 1.05 A

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.05 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: QNA.3 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.83, A:H.85, A:H.152 ZN.2: 4 residues within 4Å: Chain A: D.87, C.171, H.213 Ligands: QNA.3 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.87, A:C.171, A:H.213

1 x QNA: (1~{a}~{R},7~{b}~{S})-5-fluoranyl-2,2-bis(oxidanyl)-1~{a},7~{b}-dihydro-1~{H}-cyclopropa[c][1,2]benzoxaborinine-4-carboxylic acid(Non-covalent)

QNA.3: 15 residues within 4Å: Chain A: M.30, F.33, W.56, H.83, H.85, D.87, H.152, C.171, K.174, L.181, G.182, N.183, H.213 Ligands: ZN.1, ZN.2 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:F.33, A:W.56, A:D.87 Hydrogen bonds: A:N.183, A:N.183 Water bridges: A:H.85 Salt bridges: A:H.152, A:K.174, A:H.213

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hecker, S.J. et al., Discovery of Cyclic Boronic Acid QPX7728, an Ultrabroad-Spectrum Inhibitor of Serine and Metallo-beta-lactamases. J.Med.Chem. (2020)

Release Date

2020-03-25

Peptides

Metallo-beta-lactamase type 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Metallo-beta-lactamase type 2

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