SMTL ID : 7ony.1

Crystal structure of PBP3 from P. aeruginosa

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.77 Å

Oligo State

monomer

Ligands

9 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 3 residues within 4Å: Chain A: Q.286, I.287, F.321 No protein-ligand interaction detected (PLIP) GOL.2: 6 residues within 4Å: Chain A: E.50, K.103, V.104, P.105, G.106, Y.108 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.106, A:Y.108 Water bridges: A:K.103 GOL.3: 3 residues within 4Å: Chain A: G.342, P.395, L.396 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:L.396 GOL.4: 4 residues within 4Å: Chain A: Y.290, A.362, E.363, T.366 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.290, A:A.362, A:T.366 GOL.5: 3 residues within 4Å: Chain A: E.138, L.142, P.346 No protein-ligand interaction detected (PLIP) GOL.6: 4 residues within 4Å: Chain A: Q.409, V.410, I.411, S.412 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:V.410 Water bridges: A:V.410 GOL.7: 4 residues within 4Å: Chain A: N.389, D.390, K.392, Q.409 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.409 Water bridges: A:N.389, A:N.389, A:N.389 GOL.8: 4 residues within 4Å: Chain A: F.321, D.322, I.323, G.324 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.322 Water bridges: A:E.326 GOL.9: 4 residues within 4Å: Chain A: Q.301, L.302, D.303, G.306 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.301, A:D.303, A:D.303

3 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.10: 1 residues within 4Å: Chain A: K.358 No protein-ligand interaction detected (PLIP) MES.11: 7 residues within 4Å: Chain A: E.253, N.352, P.354, Y.371, G.372, L.373, S.374 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.352 Water bridges: A:N.352 MES.12: 8 residues within 4Å: Chain A: R.114, R.115, T.130, D.131, P.232, N.233, N.234, R.235 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:R.114, A:R.115, A:T.130, A:T.130, A:D.131, A:R.235 Salt bridges: A:R.114, A:R.235

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

DMS.13: 2 residues within 4Å: Chain A: Y.329, N.355 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.355 Water bridges: A:N.355

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Freischem, S. et al., Interaction Mode of the Novel Monobactam AIC499 Targeting Penicillin Binding Protein 3 of Gram-Negative Bacteria. Biomolecules (2021)

Release Date

2021-08-04

Peptides

Peptidoglycan D,D-transpeptidase FtsI: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Peptidoglycan D,D-transpeptidase FtsI

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