SMTL ID : 6v1o.1 (1 other biounit)

Structure of OXA-48 bound to QPX7728 at 1.80 A

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

2 x RM9: (1aR,7bS)-5-fluoro-2-hydroxy-1,1a,2,7b-tetrahydrocyclopropa[c][1,2]benzoxaborinine-4-carboxylic acid(Covalent)

RM9.1: 13 residues within 4Å: Chain A: A.67, S.68, K.71, I.100, W.103, S.116, V.118, K.206, T.207, G.208, Y.209, L.245, R.248 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:I.100, A:W.103, A:V.118, A:Y.209, A:Y.209 Hydrogen bonds: A:S.68, A:S.116, A:S.116, A:Y.209, A:Y.209 Water bridges: A:S.116, A:T.207 Salt bridges: A:K.206, A:R.248 Halogen bonds: A:R.248 RM9.5: 12 residues within 4Å: Chain B: A.67, S.68, K.71, W.103, S.116, V.118, K.206, T.207, G.208, Y.209, L.245, R.248 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:W.103, B:V.118 Hydrogen bonds: B:S.68, B:S.116, B:G.208, B:Y.209, B:Y.209 Water bridges: B:S.116, B:T.207 Salt bridges: B:K.206, B:R.248 Halogen bonds: B:R.248

4 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: E.35, H.36, E.254 6 PLIP interactions: 2 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:E.35, A:E.254, H2O.1, H2O.3, H2O.7, H2O.9 MG.3: 2 residues within 4Å: Chain A: D.141, E.145 6 PLIP interactions: 2 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:D.141, A:E.145, H2O.3, H2O.4, H2O.4, H2O.6 MG.6: 2 residues within 4Å: Chain B: D.141, E.145 6 PLIP interactions: 2 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:D.141, B:E.145, H2O.15, H2O.17, H2O.20, H2O.21 MG.7: 3 residues within 4Å: Chain B: E.35, H.36, E.254 6 PLIP interactions: 2 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:E.35, B:E.254, H2O.16, H2O.18, H2O.19, H2O.23

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

CL.4: 2 residues within 4Å: Chain A: R.204 Chain B: R.204 Ligand excluded by PLIP

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

OXA family beta-lactamase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

OXA family beta-lactamase

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