SMTL ID : 5vfd.1

Diazabicyclooctenone ETX2514 bound to Class D beta lactamase OXA-24 from A. baumannii

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.93 Å

Oligo State

monomer

Ligands

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

SO4.1: 3 residues within 4Å: Chain A: G.110, L.111, E.112 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.111, A:E.112 Water bridges: A:L.113 SO4.2: 2 residues within 4Å: Chain A: K.163, L.164 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:L.164 SO4.3: 4 residues within 4Å: Chain A: H.157, G.210, K.211, K.212 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.212 Salt bridges: A:H.157 SO4.4: 2 residues within 4Å: Chain A: Q.147, N.150 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.122, A:N.150 Water bridges: A:Q.147, A:Q.147, A:Q.147, A:D.154 SO4.5: 1 residues within 4Å: Chain A: R.159 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.159

1 x 9CP: (2S,5R)-1-formyl-4-methyl-5-[(sulfooxy)amino]-1,2,5,6-tetrahydropyridine-2-carboxamide(Covalent)

9CP.6: 15 residues within 4Å: Chain A: A.49, S.50, K.53, Y.81, W.84, S.97, V.99, L.137, K.187, S.188, G.189, W.190, M.192, R.230 Ligands: 9CM.7 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:Y.81 Hydrogen bonds: A:S.50, A:S.97, A:S.97, A:S.188, A:S.188, A:W.190, A:W.190, A:M.192 Water bridges: A:G.193, A:G.193 Salt bridges: A:K.187, A:R.230

1 x 9CM: (2S,5R)-4-methyl-7-oxo-6-(sulfooxy)-1,6-diazabicyclo[3.2.1]oct-3-ene-2-carboxamide(Non-covalent)

9CM.7: 7 residues within 4Å: Chain A: Y.81, P.82, M.83, W.84, L.96, S.97 Ligands: 9CP.6 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:M.83 Water bridges: A:A.95, A:S.188, A:S.188

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Durand-Reville, T.F. et al., ETX2514 is a broad-spectrum beta-lactamase inhibitor for the treatment of drug-resistant Gram-negative bacteria including Acinetobacter baumannii. Nat Microbiol (2017)

Release Date

2017-06-07

Peptides

Beta-lactamase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Beta-lactamase

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