SMTL ID : 8ttp.1 (1 other biounit)

Crystal structure of class C beta-lactamase from Escherichia coli in complex with avibactam

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.43 Å

Oligo State

monomer

Ligands

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

NXL.1: 15 residues within 4Å: Chain A: G.63, S.64, K.67, Q.120, Y.150, N.152, N.289, L.293, K.315, T.316, G.317, A.318, N.346 Ligands: PEG.4, EDO.6 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:S.64, A:Q.120, A:Y.150, A:Y.150, A:N.152, A:N.289, A:T.316, A:A.318, A:N.346 Water bridges: A:K.315 Salt bridges: A:K.315

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

EDO.2: 4 residues within 4Å: Chain A: G.116, P.118, L.149 Ligands: EDO.8 2 PLIP interactions: 2 interactions with chain A Water bridges: A:G.115, A:G.116 EDO.3: 4 residues within 4Å: Chain A: L.254, S.257, Y.259, P.304 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.257, A:S.257 EDO.6: 4 residues within 4Å: Chain A: Q.120, Y.221, T.319 Ligands: NXL.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.120 Water bridges: A:Y.221, A:G.320 EDO.8: 3 residues within 4Å: Chain A: W.142, L.149 Ligands: EDO.2 No protein-ligand interaction detected (PLIP) EDO.9: 4 residues within 4Å: Chain A: T.15, A.351, A.352, Q.355 2 PLIP interactions: 2 interactions with chain A Water bridges: A:A.352, A:Q.355 EDO.10: 5 residues within 4Å: Chain A: D.47, Q.52, E.196, K.197, W.201 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.47, A:D.47, A:E.196 EDO.11: 3 residues within 4Å: Chain A: W.142, T.146, Q.147 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.146 Water bridges: A:A.143 EDO.12: 3 residues within 4Å: Chain A: E.171, A.218, E.219 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.171, A:E.219 Water bridges: A:E.171, A:E.171

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.4: 9 residues within 4Å: Chain A: E.272, G.286, S.287, A.292, H.314, K.315, T.316, N.346 Ligands: NXL.1 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.315, A:K.315, A:T.316, A:T.316

2 x IPA: ISOPROPYL ALCOHOL(Non-functional Binders)

IPA.5: 5 residues within 4Å: Chain A: D.47, A.49, K.50, W.201, A.208 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:K.50, A:W.201, A:A.208 IPA.7: 5 residues within 4Å: Chain A: W.93, L.157, A.160, L.161, K.164 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:W.93, A:L.157, A:A.160, A:L.161

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chang, C. et al., Crystal structure of class C beta-lactamase from Escherichia coli in complex with avibactam. to be published

Release Date

2023-09-06

Peptides

Beta-lactamase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Beta-lactamase

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