SMTL ID : 8sdv.1

Crystal structure of PDC-3 Y221H beta-lactamase in complex with the boronic acid inhibitor S02030

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.42 Å

Oligo State

monomer

Ligands

2 x IMD: IMIDAZOLE(Non-covalent)

IMD.1: 2 residues within 4Å: Chain A: Q.321, P.322 No protein-ligand interaction detected (PLIP) IMD.3: 3 residues within 4Å: Chain A: G.129, D.134, P.171 1 PLIP interactions: 1 interactions with chain A Water bridges: A:S.131

1 x ZXM: 1-{(2R)-2-(dihydroxyboranyl)-2-[(thiophen-2-ylacetyl)amino]ethyl}-1H-1,2,3-triazole-4-carboxylic acid(Covalent)

ZXM.2: 12 residues within 4Å: Chain A: S.90, Q.146, Y.177, N.179, H.249, G.344, S.345, T.346, N.347, N.370 Ligands: DMS.5, DMS.6 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:S.90, A:Q.146, A:N.179, A:S.345, A:S.345, A:S.345, A:N.370, A:N.370 Water bridges: A:T.343, A:R.376, A:R.376, A:R.376

3 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.4: 4 residues within 4Å: Chain A: D.280, H.283, R.284, E.335 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.284 Salt bridges: A:D.280, A:E.335 DMS.5: 4 residues within 4Å: Chain A: T.316, L.320 Ligands: ZXM.2, DMS.6 No protein-ligand interaction detected (PLIP) DMS.6: 5 residues within 4Å: Chain A: A.319, L.320, N.373 Ligands: ZXM.2, DMS.5 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.373 Water bridges: A:T.316

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mack, A.R. et al., Natural protein engineering in the Omega-loop: the role of Y221 in ceftazidime and ceftolozane resistance in Pseudomonas -derived cephalosporinase. Antimicrob.Agents Chemother. (2023)

Release Date

2023-08-16

Peptides

Beta-lactamase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Beta-lactamase

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