SMTL ID : 5n6h.2 (1 other biounit)

Structure of the membrane integral lipoprotein N-acyltransferase Lnt from E. coli

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

monomer

Ligands

6 x OLC: (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate(Non-covalent)

OLC.1: 5 residues within 4Å: Chain A: L.39, A.42, L.46, Y.51, S.90 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:A.42, A:L.46 Hydrogen bonds: A:N.93 OLC.2: 13 residues within 4Å: Chain A: T.140, W.141, L.142, A.145, I.146, M.187, F.194, M.198, V.217, L.221, L.514, F.518 Ligands: GOL.10 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:W.141, A:A.145, A:I.146, A:I.146, A:F.194, A:V.217, A:L.221, A:L.514, A:F.518 OLC.3: 10 residues within 4Å: Chain A: I.27, R.33, F.40, M.62, A.66, L.67, F.69, N.70, L.207, V.208 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:F.40, A:F.40, A:A.66, A:L.67, A:L.207 Hydrogen bonds: A:R.33, A:R.33, A:N.70 Salt bridges: A:R.33 OLC.4: 12 residues within 4Å: Chain A: A.150, L.151, V.154, E.414, D.418, N.508, W.509, W.512, T.515, A.516, G.519, V.523 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:W.509, A:W.512, A:W.512, A:A.516, A:V.523 Water bridges: A:N.508, A:N.508 OLC.5: 4 residues within 4Å: Chain A: P.227, Y.230, I.231, Q.232 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:I.231 Hydrogen bonds: A:Q.232 OLC.6: 4 residues within 4Å: Chain A: D.52, V.53, W.54, P.55 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:P.55 Hydrogen bonds: A:W.54

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 2 residues within 4Å: Chain A: F.157, W.161 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:W.161 GOL.8: 4 residues within 4Å: Chain A: W.161, V.162, L.163 Ligands: GOL.9 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:L.163 GOL.9: 5 residues within 4Å: Chain A: L.163, T.164, F.364, P.366 Ligands: GOL.8 No protein-ligand interaction detected (PLIP) GOL.10: 4 residues within 4Å: Chain A: T.140, W.141, K.209 Ligands: OLC.2 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:W.141 GOL.11: 1 residues within 4Å: Chain A: R.134 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.134 GOL.12: 6 residues within 4Å: Chain A: G.278, K.279, S.281, G.312, K.341, N.398 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.312, A:K.341, A:K.341

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wiktor, M. et al., Structural insights into the mechanism of the membrane integral N-acyltransferase step in bacterial lipoprotein synthesis. Nat Commun (2017)

Release Date

2017-07-12

Peptides

Apolipoprotein N-acyltransferase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Membrane

We predict this structure to be a membrane protein.
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Apolipoprotein N-acyltransferase

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