SMTL ID : 6c9c.1

Crystal structure of LpxC from Pseudomonas aeruginosa in complex with racemic ligand PT803

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

1 x EU1: (2R)-4-[4-{4-[(5-chloro-6-methoxypyridin-3-yl)methoxy]phenyl}-2-oxo-3,6-dihydropyridin-1(2H)-yl]-N-hydroxy-2-methyl-2-(methylsulfonyl)butanamide(Non-covalent)

EU1.1: 22 residues within 4Å: Chain A: L.19, H.20, M.63, E.78, H.79, T.191, F.192, G.193, F.194, M.195, I.198, R.202, G.210, S.211, A.215, V.217, H.238, K.239, D.242, H.265 Ligands: F64.2, ZN.3 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:I.198, A:I.198, A:A.215, A:V.217 Hydrogen bonds: A:E.78

1 x F64: (2S)-4-[4-{4-[(5-chloro-6-methoxypyridin-3-yl)methoxy]phenyl}-2-oxo-3,6-dihydropyridin-1(2H)-yl]-N-hydroxy-2-methyl-2-(methylsulfonyl)butanamide(Non-covalent)

F64.2: 21 residues within 4Å: Chain A: L.19, H.20, M.63, E.78, H.79, T.191, F.192, G.193, F.194, M.195, I.198, R.202, G.210, S.211, A.215, V.217, H.238, D.242, H.265 Ligands: EU1.1, ZN.3 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:I.198, A:I.198, A:A.215, A:V.217 Hydrogen bonds: A:E.78

1 x ZN: ZINC ION(Non-covalent)

ZN.3: 6 residues within 4Å: Chain A: H.79, T.191, H.238, D.242 Ligands: EU1.1, F64.2 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.79, A:H.238, A:D.242, A:D.242

5 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.4: 1 residues within 4Å: Chain A: R.273 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.273, A:R.273 EDO.5: 6 residues within 4Å: Chain A: H.20, M.63, S.64, T.66, D.75, L.206 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:M.63, A:S.64, A:T.66, A:T.66 EDO.6: 5 residues within 4Å: Chain A: R.190, V.212, N.225, E.226, D.227 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:R.190, A:N.225, A:E.226, A:D.227 Water bridges: A:V.212, A:A.215, A:E.226 EDO.7: 5 residues within 4Å: Chain A: Y.26, L.27, T.28, T.43, E.95 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.26, A:E.95, A:E.95 Water bridges: A:T.43 EDO.8: 7 residues within 4Å: Chain A: A.85, F.153, I.244, L.247, Y.248, S.253, L.254 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:I.244, A:S.253, A:L.254

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Delker, S.L. et al., Crystal structure of LpxC from Pseudomonas aeruginosa in complex with ligand PT803. to be published

Release Date

2019-03-13

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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