SMTL ID : 1m6k.1

Structure of the OXA-1 class D beta-lactamase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-dimer

Ligands

10 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.1: 6 residues within 4Å: Chain A: S.46, W.80, S.93, V.95, A.193, L.232 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:W.80, A:V.95 Water bridges: A:S.93, A:A.193, A:A.193 MPD.2: 5 residues within 4Å: Chain B: W.80, S.93, V.95, A.193, L.232 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:W.80, B:V.95 Water bridges: B:S.93, B:A.193, B:A.193, B:A.193 MPD.3: 5 residues within 4Å: Chain A: I.61, I.62, F.68, E.100, K.104 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:I.62, A:F.68, A:E.100, A:E.100, A:K.104 Hydrogen bonds: A:K.104 MPD.4: 3 residues within 4Å: Chain B: T.66, I.67, E.100 2 PLIP interactions: 2 interactions with chain B Water bridges: B:I.67, B:E.100 MPD.5: 2 residues within 4Å: Chain A: I.79, F.92 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:I.79 MPD.6: 4 residues within 4Å: Chain A: S.167, E.170, N.171, E.174 3 PLIP interactions: 3 interactions with chain A Water bridges: A:N.171, A:N.171, A:E.174 MPD.7: 2 residues within 4Å: Chain B: I.79, F.92 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:I.79 MPD.8: 3 residues within 4Å: Chain A: N.161, L.162, P.163 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:P.163 MPD.9: 3 residues within 4Å: Chain A: V.164, K.165, N.166 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:K.165 Hydrogen bonds: A:N.166, A:N.166 Water bridges: A:K.165, A:S.167 MPD.10: 5 residues within 4Å: Chain B: W.80, V.95, Q.99, E.136, L.139 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:W.80, B:V.95, B:E.136, B:L.139

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sun, T. et al., Comparison of beta-lactamases of classes A and D: 1.5A crystallographic structure of the class D OXA-1 oxacillinase. PROTEIN SCI. (2003)

Release Date

2003-01-14

Peptides

beta-lactamase OXA-1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

beta-lactamase OXA-1

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