SMTL ID : 6y6u.1

Structure of Pseudomonas aeruginosa Penicillin-Binding Protein 3 (PBP3) in complex with Compound 6

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

monomer

Ligands

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 8 residues within 4Å: Chain A: G.205, S.206, R.242, D.246, F.248, R.462, V.481, D.483 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:G.205, A:S.206, A:R.242, A:D.246, A:R.462, A:D.483 GOL.2: 6 residues within 4Å: Chain A: L.263, W.268, K.269, P.270, E.410, T.414 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.410 Water bridges: A:W.268 GOL.3: 4 residues within 4Å: Chain A: V.291, S.292, R.293, N.294 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.293, A:R.293 GOL.5: 5 residues within 4Å: Chain A: T.176, L.177, A.178, T.395, R.396 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:A.178, A:A.178, A:T.395, A:R.396 Water bridges: A:T.176, A:R.396 GOL.6: 3 residues within 4Å: Chain A: R.345, G.347, N.348 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.345, A:G.347 Water bridges: A:R.345, A:R.345, A:G.347, A:G.347

1 x ODZ: 2-(4-hydroxyphenyl)-~{N}-[(2~{S})-2-methyl-4-oxidanyl-1-oxidanylidene-pent-4-en-2-yl]ethanamide(Covalent)

ODZ.4: 12 residues within 4Å: Chain A: E.249, G.251, S.252, K.255, V.291, S.307, N.309, Y.365, Y.367, S.443, G.444, T.445 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:V.291, A:Y.365, A:Y.365, A:Y.367 Hydrogen bonds: A:S.252, A:S.307, A:N.309, A:N.309, A:N.309, A:T.445

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kidd, S.L. et al., Demonstration of the utility of DOS-derived fragment libraries for rapid hit derivatisation in a multidirectional fashion. Chem Sci (2020)

Release Date

2020-06-24

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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