SMTL ID : 6pq8.1

Crystal structure of TLA-1 S70G extended spectrum Beta-lactamase in complex with clavulanic acid

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

monomer

Ligands

1 x ASP: ASPARTIC ACID(Non-covalent)

ASP.1: 4 residues within 4Å: Chain A: Y.295, L.296, K.298 Ligands: J01.2 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.295

1 x J01: (2R,3Z,5R)-3-(2-HYDROXYETHYLIDENE)-7-OXO-4-OXA-1-AZABICYCLO[3.2.0]HEPTANE-2-CARBOXYLIC ACID(Non-covalent)

J01.2: 10 residues within 4Å: Chain A: G.49, E.51, D.52, F.54, L.259, N.261, K.263, H.264, L.296 Ligands: ASP.1 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:D.52, A:F.54 Hydrogen bonds: A:E.51, A:D.52, A:D.52, A:D.52, A:N.261 Salt bridges: A:K.263

8 x ACT: ACETATE ION(Non-functional Binders)

ACT.3: 3 residues within 4Å: Chain A: K.193, K.197, E.199 4 PLIP interactions: 4 interactions with chain A Water bridges: A:K.193, A:K.193 Salt bridges: A:K.193, A:K.197 ACT.5: 3 residues within 4Å: Chain A: K.277, S.278 Ligands: CL.17 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:K.277 Hydrogen bonds: A:S.278 Water bridges: A:D.279 ACT.6: 5 residues within 4Å: Chain A: G.146, T.147, K.165, T.167, E.170 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.147, A:E.170 Water bridges: A:N.148 ACT.7: 4 residues within 4Å: Chain A: H.151, S.155, K.160, N.161 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:K.160 Hydrogen bonds: A:N.161 Water bridges: A:I.162, A:I.162, A:I.162 Salt bridges: A:H.151, A:K.160 ACT.9: 2 residues within 4Å: Chain A: P.228, D.229 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:D.229 Hydrogen bonds: A:D.229 ACT.10: 2 residues within 4Å: Chain A: S.202, K.203 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.203 Water bridges: A:N.204 ACT.11: 7 residues within 4Å: Chain A: L.82, D.83, N.86, I.87, S.88, I.89, S.205 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:I.89 ACT.12: 1 residues within 4Å: Chain A: E.85 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.81

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 5 residues within 4Å: Chain A: T.218, G.219, R.222, T.237, S.239 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.219, A:T.237 Water bridges: A:W.105 GOL.8: 5 residues within 4Å: Chain A: K.29, E.33, V.58, N.59, E.60 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.29, A:E.33, A:N.57, A:N.59, A:E.60

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

SO4.13: 10 residues within 4Å: Chain A: Q.67, G.68, K.71, S.132, N.134, E.168, K.236, T.237, G.238, S.239 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:G.68, A:S.132, A:S.239 Water bridges: A:N.134 Salt bridges: A:K.71, A:K.236 SO4.14: 1 residues within 4Å: Chain A: A.174 2 PLIP interactions: 2 interactions with chain A Water bridges: A:W.175, A:W.175 SO4.15: 1 residues within 4Å: Chain A: N.86 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.86 SO4.16: 4 residues within 4Å: Chain A: T.104, W.105, N.134, H.172 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:W.105, A:N.134 Salt bridges: A:H.172

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

CL.17: 2 residues within 4Å: Chain A: S.278 Ligands: ACT.5 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cifuentes-Castro, V. et al., The crystal structure of ESBL TLA-1 in complex with clavulanic acid reveals a second acylation site. Biochem.Biophys.Res.Commun. (2020)

Release Date

2019-12-11

Peptides

Beta-lactamase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Beta-lactamase

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