SMTL ID : 6t7l.1

Crystal structure of AmpC from E.coli with Nacubactam (OP0595)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.47 Å

Oligo State

monomer

Ligands

1 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.1: 3 residues within 4Å: Chain A: Q.19, Q.20, K.21 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.20

1 x OP0: (2S,5R)-N-(2-aminoethoxy)-1-formyl-5-[(sulfooxy)amino]piperidine-2-carboxamide(Covalent)

OP0.2: 15 residues within 4Å: Chain A: G.60, S.61, K.64, Q.117, Y.147, N.149, Y.218, N.286, L.290, K.312, T.313, G.314, A.315, N.343 Ligands: SO4.5 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:S.61, A:Q.117, A:Y.147, A:N.149, A:T.313, A:A.315, A:A.315, A:N.343 Water bridges: A:Q.117, A:Y.218, A:K.312, A:T.313, A:T.313 Salt bridges: A:K.312

2 x ZN: ZINC ION(Non-covalent)

ZN.3: 2 residues within 4Å: Chain A: H.10 Ligands: CL.7 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:H.10 ZN.4: 1 residues within 4Å: Chain A: H.183 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:H.183, H2O.2, H2O.3, H2O.11, H2O.12

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.5: 5 residues within 4Å: Chain A: A.315, T.316, G.317, N.340 Ligands: OP0.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.340 Water bridges: A:N.340

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.6: 4 residues within 4Å: Chain A: W.90, L.128, A.157, K.161 No protein-ligand interaction detected (PLIP)

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

CL.7: 3 residues within 4Å: Chain A: H.10, R.11 Ligands: ZN.3 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lang, P.A. et al., Structural Investigations of the Inhibition of Escherichia coli AmpC beta-Lactamase by Diazabicyclooctanes. Antimicrob.Agents Chemother. (2021)

Release Date

2020-11-18

Peptides

Beta-lactamase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Beta-lactamase

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