SMTL ID : 6q35.2 (1 other biounit)

Crystal structure of GES-5 beta-lactamase in complex with boronic inhibitor cpd 3

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

monomer

Ligands

5 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 3 residues within 4Å: Chain A: Q.106, G.191, Q.193 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.106, A:Q.193 EDO.3: 4 residues within 4Å: Chain A: A.85, F.89, L.107 Ligands: EDO.7 No protein-ligand interaction detected (PLIP) EDO.4: 7 residues within 4Å: Chain A: R.42, F.43, N.150, T.151, P.152, G.153, D.154 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.42, A:G.153, A:G.153 EDO.5: 5 residues within 4Å: Chain A: S.148, T.215, C.216, A.217 Ligands: HD5.6 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.215, A:A.217 EDO.7: 3 residues within 4Å: Chain A: F.89, E.99 Ligands: EDO.3 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.99

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

DMS.2: 9 residues within 4Å: Chain A: S.47, S.108, T.194, K.212, T.213, G.214, T.215, R.221 Ligands: HD5.6 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.108, A:K.212

1 x HD5: [5-(aminomethyl)-1-benzothiophen-2-yl]boronic acid(Covalent)

HD5.6: 13 residues within 4Å: Chain A: C.46, S.47, K.50, E.81, W.82, N.110, E.144, M.147, S.148, G.214, T.215 Ligands: DMS.2, EDO.5 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:E.81, A:W.82 Hydrogen bonds: A:S.47, A:S.148, A:S.148, A:T.215, A:T.215

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cendron, L. et al., X-ray Crystallography Deciphers the Activity of Broad-Spectrum Boronic Acid beta-Lactamase Inhibitors. Acs Med.Chem.Lett. (2019)

Release Date

2019-04-24

Peptides

Beta-lactamase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Beta-lactamase

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