SMTL ID : 4ehw.1

Crystal structure of LpxK from Aquifex aeolicus at 2.3 angstrom resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

monomer

Ligands

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 4 residues within 4Å: Chain A: E.191, V.192, R.208 Ligands: MPD.4 No protein-ligand interaction detected (PLIP) GOL.2: 4 residues within 4Å: Chain A: M.258, D.268, F.269, T.270 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.268, A:T.270 Water bridges: A:T.270, A:Y.277 GOL.5: 4 residues within 4Å: Chain A: S.55, P.281, N.297 Ligands: MPD.4 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:L.296 GOL.7: 2 residues within 4Å: Chain A: R.22, Q.144 No protein-ligand interaction detected (PLIP) GOL.8: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) GOL.10: 3 residues within 4Å: Chain A: K.28, G.29, F.30 1 PLIP interactions: 1 interactions with chain A Water bridges: A:F.30

4 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.3: 5 residues within 4Å: Chain A: G.50, K.158, K.160, Y.189, E.193 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:K.158, A:Y.189 Hydrogen bonds: A:K.158, A:Y.189, A:E.193 MPD.4: 5 residues within 4Å: Chain A: F.243, T.280, P.281 Ligands: GOL.1, GOL.5 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:P.281 Water bridges: A:T.279 MPD.6: 5 residues within 4Å: Chain A: K.108, L.109, P.111, D.217, F.218 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:P.111 Hydrogen bonds: A:F.218 MPD.9: 4 residues within 4Å: Chain A: F.21, T.24, K.28, F.30 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:F.21, A:T.24, A:F.30 Hydrogen bonds: A:K.28, A:K.28

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Emptage, R.P. et al., Crystal structure of LpxK, the 4'-kinase of lipid A biosynthesis and atypical P-loop kinase functioning at the membrane interface. Proc.Natl.Acad.Sci.USA (2012)

Release Date

2012-08-29

Peptides

Tetraacyldisaccharide 4'-kinase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Tetraacyldisaccharide 4'-kinase