SMTL ID : 4mqy.1

Crystal Structure of the Escherichia coli LpxC/LPC-138 complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.01 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: H.79, H.238, D.242 Ligands: 2CW.2 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.79, A:H.238, A:D.242, A:D.242

1 x 2CW: 4-[4-(4-aminophenyl)buta-1,3-diyn-1-yl]-N-[(2S,3R)-3-hydroxy-2-methyl-1-nitroso-1-oxobutan-2-yl]benzamide(Non-covalent)

2CW.2: 21 residues within 4Å: Chain A: L.18, L.62, C.63, E.78, H.79, T.191, F.192, G.193, M.195, I.198, Q.202, G.210, S.211, F.212, A.215, V.217, H.238, D.242, H.265 Ligands: ZN.1, SO4.4 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:L.18, A:T.191, A:F.192, A:I.198, A:I.198, A:A.215, A:V.217 Hydrogen bonds: A:E.78, A:T.191, A:F.192 pi-Stacking: A:F.212

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

DMS.3: 1 residues within 4Å: Chain A: F.192 1 PLIP interactions: 1 interactions with chain A pi-Cation interactions: A:F.161

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

SO4.4: 5 residues within 4Å: Chain A: D.59, K.239, G.264, H.265 Ligands: 2CW.2 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.265 Salt bridges: A:K.239, A:H.265 SO4.5: 3 residues within 4Å: Chain A: E.122, L.123, N.124 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.124 SO4.6: 2 residues within 4Å: Chain A: K.22, K.23 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.23 Salt bridges: A:K.22 SO4.7: 3 residues within 4Å: Chain A: K.8, R.9, G.119 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:K.8, A:R.9 SO4.8: 4 residues within 4Å: Chain A: C.250, H.252, L.276, Y.284 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.284 Water bridges: A:D.53

1 x UKW: 4-ethynyl-N-[(1S,2R)-2-hydroxy-1-(oxocarbamoyl)propyl]benzamide(Non-covalent)

UKW.9: 5 residues within 4Å: Chain A: M.61, F.194, D.197, Y.200, L.201 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.194, A:Y.200, A:L.201 Hydrogen bonds: A:D.197

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lee, C.J. et al., Structural Basis of the Promiscuous Inhibitor Susceptibility of Escherichia coli LpxC. Acs Chem.Biol. (2014)

Release Date

2013-10-23

Peptides

UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase

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