SMTL ID : 5gs8.1

Crystal structure of TLA-3 extended-spectrum beta-lactamase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.59 Å

Oligo State

homo-dimer

Ligands

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

SO4.1: 3 residues within 4Å: Chain A: K.21, H.41, H.42 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:H.42 Water bridges: A:H.42 Salt bridges: A:K.21, A:H.41 SO4.2: 7 residues within 4Å: Chain A: S.47, S.111, K.215, T.216, G.217, S.218 Chain B: P.81 13 PLIP interactions: 10 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:S.47, A:S.47, A:S.47, A:S.111, A:T.216, A:S.218 Water bridges: A:K.50, A:K.50, B:N.82, B:K.88, B:K.88 Salt bridges: A:K.50, A:K.215 SO4.3: 4 residues within 4Å: Chain A: A.153, W.154, N.155, V.156 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.155, A:N.155 Water bridges: A:W.154 SO4.4: 4 residues within 4Å: Chain A: S.67, V.68, D.69, N.183 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.67, A:V.68, A:N.183 SO4.5: 2 residues within 4Å: Chain A: E.102, K.105 3 PLIP interactions: 3 interactions with chain A Water bridges: A:E.102, A:E.102 Salt bridges: A:K.105 SO4.23: 3 residues within 4Å: Chain B: K.21, H.41, H.42 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:H.42 Water bridges: B:H.42 Salt bridges: B:K.21, B:H.41 SO4.24: 7 residues within 4Å: Chain A: P.81 Chain B: S.47, S.111, K.215, T.216, G.217, S.218 13 PLIP interactions: 10 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:S.47, B:S.47, B:S.47, B:S.111, B:T.216, B:S.218 Water bridges: B:K.50, B:K.50, A:N.82, A:K.88, A:K.88 Salt bridges: B:K.50, B:K.215 SO4.25: 4 residues within 4Å: Chain B: A.153, W.154, N.155, V.156 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.155, B:N.155 Water bridges: B:W.154 SO4.26: 4 residues within 4Å: Chain B: S.67, V.68, D.69, N.183 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.67, B:V.68 SO4.27: 2 residues within 4Å: Chain B: E.102, K.105 2 PLIP interactions: 2 interactions with chain B Water bridges: B:E.102 Salt bridges: B:K.105

30 x NA: SODIUM ION(Non-functional Binders)

NA.6: 5 residues within 4Å: Chain A: M.150, A.153, W.154, V.156, Q.157 Ligand excluded by PLIP NA.7: 6 residues within 4Å: Chain A: G.198, R.201, L.202, K.203, H.214, D.232 Ligand excluded by PLIP NA.8: 4 residues within 4Å: Chain A: V.138, K.139, N.140, I.141 Ligand excluded by PLIP NA.9: 5 residues within 4Å: Chain A: N.140, T.163, D.165, A.166 Ligands: NA.14 Ligand excluded by PLIP NA.10: 5 residues within 4Å: Chain A: G.225, T.227, S.253, S.254, E.255 Ligand excluded by PLIP NA.11: 7 residues within 4Å: Chain A: T.195, T.196, T.197, P.199, K.203, H.214 Ligands: NA.16 Ligand excluded by PLIP NA.12: 3 residues within 4Å: Chain A: K.71, E.97, L.98 Ligand excluded by PLIP NA.13: 5 residues within 4Å: Chain A: G.28, I.29, E.30, D.31, H.243 Ligand excluded by PLIP NA.14: 5 residues within 4Å: Chain A: E.39, K.40, T.163, D.165 Ligands: NA.9 Ligand excluded by PLIP NA.15: 3 residues within 4Å: Chain A: K.105, S.106, H.110 Ligand excluded by PLIP NA.16: 6 residues within 4Å: Chain A: I.193, T.195, K.203, V.212, H.214 Ligands: NA.11 Ligand excluded by PLIP NA.17: 3 residues within 4Å: Chain A: K.8, N.36, E.39 Ligand excluded by PLIP NA.18: 4 residues within 4Å: Chain A: K.19, I.226, D.252, S.254 Ligand excluded by PLIP NA.19: 4 residues within 4Å: Chain A: Q.80, N.113, N.114, D.117 Ligand excluded by PLIP NA.20: 6 residues within 4Å: Chain A: L.27, G.28, D.31, N.32, F.33, K.172 Ligand excluded by PLIP NA.28: 5 residues within 4Å: Chain B: M.150, A.153, W.154, V.156, Q.157 Ligand excluded by PLIP NA.29: 6 residues within 4Å: Chain B: G.198, R.201, L.202, K.203, H.214, D.232 Ligand excluded by PLIP NA.30: 4 residues within 4Å: Chain B: V.138, K.139, N.140, I.141 Ligand excluded by PLIP NA.31: 5 residues within 4Å: Chain B: N.140, T.163, D.165, A.166 Ligands: NA.36 Ligand excluded by PLIP NA.32: 5 residues within 4Å: Chain B: G.225, T.227, S.253, S.254, E.255 Ligand excluded by PLIP NA.33: 7 residues within 4Å: Chain B: T.195, T.196, T.197, P.199, K.203, H.214 Ligands: NA.38 Ligand excluded by PLIP NA.34: 3 residues within 4Å: Chain B: K.71, E.97, L.98 Ligand excluded by PLIP NA.35: 5 residues within 4Å: Chain B: G.28, I.29, E.30, D.31, H.243 Ligand excluded by PLIP NA.36: 5 residues within 4Å: Chain B: E.39, K.40, T.163, D.165 Ligands: NA.31 Ligand excluded by PLIP NA.37: 3 residues within 4Å: Chain B: K.105, S.106, H.110 Ligand excluded by PLIP NA.38: 6 residues within 4Å: Chain B: I.193, T.195, K.203, V.212, H.214 Ligands: NA.33 Ligand excluded by PLIP NA.39: 3 residues within 4Å: Chain B: K.8, N.36, E.39 Ligand excluded by PLIP NA.40: 4 residues within 4Å: Chain B: K.19, I.226, D.252, S.254 Ligand excluded by PLIP NA.41: 4 residues within 4Å: Chain B: Q.80, N.113, N.114, D.117 Ligand excluded by PLIP NA.42: 6 residues within 4Å: Chain B: L.27, G.28, D.31, N.32, F.33, K.172 Ligand excluded by PLIP

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

CL.21: 1 residues within 4Å: Chain A: K.90 Ligand excluded by PLIP CL.22: 6 residues within 4Å: Chain A: F.174, N.177, E.178, I.179, L.180, Y.185 Ligand excluded by PLIP CL.43: 1 residues within 4Å: Chain B: K.90 Ligand excluded by PLIP CL.44: 6 residues within 4Å: Chain B: F.174, N.177, E.178, I.179, L.180, Y.185 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jin, W. et al., Structural Insights into the TLA-3 Extended-Spectrum beta-Lactamase and Its Inhibition by Avibactam and OP0595. Antimicrob. Agents Chemother. (2017)

Release Date

2017-07-12

Peptides

Beta-lactamase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Beta-lactamase

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