SMTL ID : 7k9a.1 (1 other biounit)

Crystal Structure of P. aeruginosa LpxC with N-Hydroxyformamide inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

1 x W4P: N-hydroxy-N-[(1S)-2-{5-[(4-{[2-(hydroxymethyl)-1H-imidazol-1-yl]methyl}phenyl)ethynyl]-1H-benzotriazol-1-yl}-1-(methylsulfanyl)ethyl]formamide(Non-covalent)

W4P.1: 22 residues within 4Å: Chain A: L.18, H.19, M.62, T.75, E.77, H.78, I.102, T.190, F.191, I.197, R.201, A.206, G.209, S.210, V.211, A.214, V.216, H.237, D.241, H.264 Ligands: DMS.5, ZN.6 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:L.18, A:T.190, A:I.197, A:I.197, A:I.197, A:A.206, A:A.214, A:V.216 Hydrogen bonds: A:E.77

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

SO4.2: 5 residues within 4Å: Chain A: M.1, E.287, D.288, A.289, R.290 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:M.1, A:E.287, A:D.288, A:A.289, A:R.290

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 8 residues within 4Å: Chain A: G.85, F.152, S.177, F.181, I.294, S.295, Y.296 Ligands: GOL.4 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.295 GOL.4: 8 residues within 4Å: Chain A: A.84, F.152, I.243, L.246, Y.247, S.252, L.253 Ligands: GOL.3 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:I.243, A:N.251, A:L.253

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

DMS.5: 6 residues within 4Å: Chain A: F.191, G.192, F.193, D.196, L.200 Ligands: W4P.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:F.193 Salt bridges: A:D.196

1 x ZN: ZINC ION(Non-covalent)

ZN.6: 4 residues within 4Å: Chain A: H.78, H.237, D.241 Ligands: W4P.1 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.78, A:H.237, A:D.241, A:D.241

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Furuya, T. et al., N-Hydroxyformamide LpxC inhibitors, their in vivo efficacy in a mouse Escherichia coli infection model, and their safety in a rat hemodynamic assay. Bioorg.Med.Chem. (2020)

Release Date

2020-11-25

Peptides

UDP-3-O-acyl-N-acetylglucosamine deacetylase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

UDP-3-O-acyl-N-acetylglucosamine deacetylase

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