SMTL ID : 9h14.1

Crystal structure of OXA-163 in complex with avibactam

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.56 Å

Oligo State

homo-dimer

Ligands

2 x NXL: (2S,5R)-1-formyl-5-[(sulfooxy)amino]piperidine-2-carboxamide(Covalent)

NXL.1: 12 residues within 4Å: Chain A: A.49, S.50, W.85, S.98, V.100, L.138, K.188, T.189, G.190, Y.191, R.226 Ligands: 01.2 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:S.50, A:S.50, A:S.98, A:S.98, A:T.189, A:Y.191 Water bridges: A:K.188, A:T.189, A:R.226, A:R.226, A:R.226 Salt bridges: A:K.188, A:R.226 NXL.5: 12 residues within 4Å: Chain B: A.49, S.50, W.85, S.98, V.100, L.138, K.188, T.189, G.190, Y.191, R.226 Ligands: 01.6 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:S.50, B:S.98, B:S.98, B:T.189, B:Y.191 Water bridges: B:K.188, B:R.226, B:R.226, B:R.226 Salt bridges: B:K.188, B:R.226

2 x 01: (2S,5R)-1-methanoyl-5-(oxidanylamino)piperidine-2-carboxamide

01.2: 10 residues within 4Å: Chain A: A.49, S.50, K.53, W.85, S.98, V.100, L.138, G.190, Y.191 Ligands: NXL.1 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:S.50, A:S.50, A:S.98, A:S.98, A:Y.191 Water bridges: A:R.226 01.6: 9 residues within 4Å: Chain B: A.49, S.50, W.85, S.98, V.100, L.138, G.190, Y.191 Ligands: NXL.5 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:S.50, B:S.98, B:S.98, B:Y.191 Water bridges: B:T.189, B:R.226

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

CL.3: 2 residues within 4Å: Chain A: R.186 Chain B: R.186 Ligand excluded by PLIP

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.4: 6 residues within 4Å: Chain A: E.178, A.179, N.180 Chain B: E.178, A.179, N.180 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:E.178, B:E.178, B:N.180, A:E.178, A:N.180

1 x 2PE: NONAETHYLENE GLYCOL(Non-covalent)

2PE.7: 4 residues within 4Å: Chain B: L.61, D.62, G.64, R.166 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hoff, J.F. et al., Electrostatic interactions influence diazabicyclooctane inhibitor potency against OXA-48-like beta-lactamases. Rsc Med Chem (2025)

Release Date

2025-09-03

Peptides

Beta-lactamase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Beta-lactamase

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