SMTL ID : 6p98.1

OXA-48 carbapanemase, meropenem complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

homo-dimer

Ligands

2 x KE1: meropenem, bound form(Covalent)

KE1.1: 10 residues within 4Å: Chain A: A.69, S.70, W.105, S.118, V.120, L.158, T.209, G.210, Y.211, R.250 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:V.120, A:L.158, A:Y.211 Hydrogen bonds: A:S.70, A:S.118, A:S.118, A:T.209, A:T.209, A:Y.211 Salt bridges: A:K.208, A:R.250 KE1.7: 11 residues within 4Å: Chain B: A.69, S.70, K.116, Y.117, S.118, V.120, L.158, T.209, G.210, Y.211, R.250 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:L.158 Hydrogen bonds: B:S.70, B:S.118, B:T.209, B:T.209, B:Y.211 Salt bridges: B:K.208, B:R.250

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

CL.2: 4 residues within 4Å: Chain A: S.70, K.73, V.120, W.157 Ligand excluded by PLIP CL.3: 2 residues within 4Å: Chain A: R.206 Chain B: R.206 Ligand excluded by PLIP CL.8: 4 residues within 4Å: Chain B: S.70, K.73, V.120, W.157 Ligand excluded by PLIP CL.9: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.10: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP

3 x CA: CALCIUM ION(Non-covalent)

CA.4: 3 residues within 4Å: Chain A: E.37, H.38, E.256 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.38, A:E.256, A:E.256, H2O.5, H2O.6 CA.5: 1 residues within 4Å: Chain A: E.27 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.27, A:E.27, H2O.5 CA.11: 3 residues within 4Å: Chain B: D.143, E.147 Ligands: CD.12 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.143, B:E.147, H2O.8

2 x CD: CADMIUM ION(Non-covalent)

CD.6: 2 residues within 4Å: Chain A: E.37, E.256 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.37, A:E.37, H2O.1, H2O.5, H2O.6 CD.12: 2 residues within 4Å: Chain B: D.143 Ligands: CA.11 5 PLIP interactions: 1 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:D.143, H2O.7, H2O.9, H2O.9, H2O.11

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Smith, C.A. et al., Structural Insights into the Mechanism of Carbapenemase Activity of the OXA-48 beta-Lactamase. Antimicrob.Agents Chemother. (2019)

Release Date

2019-08-07

Peptides

Beta-lactamase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Beta-lactamase

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