SMTL ID : 7l5t.1

Crystal Structure of the Oxacillin-hydrolyzing Class D Extended-spectrum Beta-lactamase OXA-14 from Pseudomonas aeruginosa in Complex with Covalently Bound Clavulanic Acid

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.88 Å

Oligo State

homo-dimer

Ligands

2 x ISS: (2E)-3-[(4-hydroxy-2-oxobutyl)amino]prop-2-enal(Covalent)

ISS.1: 9 residues within 4Å: Chain A: A.48, S.49, S.97, V.99, G.189, F.190, S.191, G.192 Ligands: CL.11 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.99 Hydrogen bonds: A:S.49, A:F.190 ISS.12: 8 residues within 4Å: Chain B: A.48, S.49, K.52, L.137, G.189, F.190, S.191 Ligands: CL.19 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:F.190 Hydrogen bonds: B:S.49, B:F.190

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

SO4.2: 3 residues within 4Å: Chain A: A.80, M.81, K.82 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:A.80, A:K.82 Water bridges: A:Q.83, A:Q.83 SO4.3: 2 residues within 4Å: Chain A: S.163, K.164 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:K.164 Water bridges: B:E.165 SO4.4: 1 residues within 4Å: Chain A: R.142 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.142 SO4.5: 2 residues within 4Å: Chain A: K.116, K.120 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:K.116, A:K.120 SO4.6: 4 residues within 4Å: Chain A: N.158, K.164 Chain B: N.67, E.68 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:N.67, B:E.68, A:N.158 Water bridges: A:L.157 Salt bridges: A:K.164 SO4.7: 2 residues within 4Å: Chain A: R.232, K.233 4 PLIP interactions: 4 interactions with chain A Water bridges: A:R.232, A:R.232 Salt bridges: A:R.232, A:K.233 SO4.8: 3 residues within 4Å: Chain A: T.195, S.197, N.198 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.195, A:S.197, A:N.198, A:N.198 SO4.9: 2 residues within 4Å: Chain A: N.2, K.31 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.2, A:N.2 Salt bridges: A:K.31 SO4.10: 2 residues within 4Å: Chain A: P.180 Chain B: K.233 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:K.233 SO4.13: 2 residues within 4Å: Chain B: S.163, K.164 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.164 Water bridges: B:E.165 SO4.14: 3 residues within 4Å: Chain B: G.110, E.111, V.112 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:E.111, B:V.112 Water bridges: B:G.110, B:R.113 SO4.15: 4 residues within 4Å: Chain B: T.62, R.113, K.116, Y.117 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Y.117, B:Y.117 Salt bridges: B:R.113, B:K.116 SO4.16: 4 residues within 4Å: Chain B: N.20, R.40, K.43, Y.45 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.20 Salt bridges: B:R.40, B:K.43 SO4.17: 1 residues within 4Å: Chain B: K.238 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:K.238 SO4.18: 2 residues within 4Å: Chain B: R.232, K.233 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:R.232, B:K.233

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

CL.11: 6 residues within 4Å: Chain A: S.49, S.97, T.188, G.189, R.232 Ligands: ISS.1 Ligand excluded by PLIP CL.19: 6 residues within 4Å: Chain B: S.49, S.97, T.188, G.189, R.232 Ligands: ISS.12 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Minasov, G. et al., Crystal Structure of the Oxacillin-hydrolyzing Class D Extended-spectrum Beta-lactamase OXA-14 from Pseudomonas aeruginosa in Complex with Covalently Bound Clavulanic Acid. To Be Published

Release Date

2021-12-29

Peptides

Beta-lactamase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Beta-lactamase

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