SMTL ID : 1h8y.1

Crystal structure of the class D beta-lactamase OXA-13 in complex with meropenem

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

2 x MER: (4R,5S)-3-{[(3S,5S)-5-(dimethylcarbamoyl)pyrrolidin-3-yl]sulfanyl}-5-[(2S,3R)-3-hydroxy-1-oxobutan-2-yl]-4-methyl-4,5-d ihydro-1H-pyrrole-2-carboxylic acid(Covalent)

MER.1: 12 residues within 4Å: Chain A: A.47, S.48, Q.82, W.83, S.96, V.98, L.136, T.187, G.188, F.189, L.228, R.231 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:V.98, A:L.136, A:F.189 Hydrogen bonds: A:S.48, A:S.96, A:F.189 Water bridges: A:T.187 Salt bridges: A:R.231 MER.4: 12 residues within 4Å: Chain B: A.47, S.48, W.83, S.96, V.98, L.136, T.187, G.188, F.189, E.225, L.228, R.231 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:V.98, B:L.136, B:L.228 Hydrogen bonds: B:S.48, B:S.96, B:S.96, B:T.187, B:G.188, B:F.189 Salt bridges: B:R.231

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

SO4.2: 4 residues within 4Å: Chain A: T.61, R.112, K.115, Y.116 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.60 Salt bridges: A:R.112, A:K.115 SO4.3: 6 residues within 4Å: Chain A: F.155, T.211, E.212, V.213 Chain B: H.68, V.70 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Salt bridges: B:H.68 Hydrogen bonds: A:T.211 SO4.5: 4 residues within 4Å: Chain B: T.61, R.112, K.115, Y.116 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:T.61, B:Y.116 Salt bridges: B:R.112, B:K.115 SO4.6: 4 residues within 4Å: Chain A: N.66, E.67 Chain B: N.157, K.163 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:N.157, A:N.66, A:E.67 Salt bridges: B:K.163

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pernot, L. et al., Crystal Structures of the Class D B-Lactamase Oxa-13 in the Native Form and in Complex with Meropenem. J.Mol.Biol. (2001)

Release Date

2001-07-12

Peptides

BETA-LACTAMASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

BETA-LACTAMASE

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