SMTL ID : 5n6l.2 (1 other biounit)

Structure of the membrane integral lipoprotein N-acyltransferase Lnt C387A mutant from E. coli

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

monomer

Ligands

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

OLC.1: 7 residues within 4Å: Chain A: L.39, A.42, C.43, L.46, Y.51, S.90, N.93 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.39, A:A.42 Hydrogen bonds: A:N.93, A:N.93 OLC.2: 7 residues within 4Å: Chain A: W.141, A.145, I.146, F.194, M.198, L.514, F.518 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:W.141, A:A.145, A:I.146, A:F.194, A:L.514, A:F.518 OLC.3: 6 residues within 4Å: Chain A: I.27, R.33, A.66, L.67, F.69, V.208 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:I.27, A:L.67 Hydrogen bonds: A:R.33, A:R.33, A:F.69 Salt bridges: A:R.33 OLC.4: 10 residues within 4Å: Chain A: V.154, E.414, T.506, G.507, N.508, W.509, W.512, A.516, G.519 Ligands: OLC.8 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:V.154, A:W.512, A:W.512, A:W.512, A:A.516 Hydrogen bonds: A:E.414, A:T.506 OLC.5: 7 residues within 4Å: Chain A: L.74, A.78, F.81, L.116, A.119, Y.120, L.123 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.74, A:L.74, A:A.78, A:F.81 OLC.6: 4 residues within 4Å: Chain A: P.227, Y.230, I.231, Q.232 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:P.227, A:I.231, A:I.231 Hydrogen bonds: A:Q.232, A:Q.232 OLC.7: 3 residues within 4Å: Chain A: P.179, F.226, R.229 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:P.179, A:F.226 Hydrogen bonds: A:D.177 OLC.8: 5 residues within 4Å: Chain A: F.157, W.161, N.508, W.512 Ligands: OLC.4 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:W.161 Hydrogen bonds: A:N.508, A:W.512

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.9: 4 residues within 4Å: Chain A: W.161, V.162, L.163, T.164 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:W.161, A:L.163, A:T.164 GOL.10: 2 residues within 4Å: Chain A: Q.297, F.300 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.297 GOL.11: 4 residues within 4Å: Chain A: D.52, V.53, W.54, P.55 No protein-ligand interaction detected (PLIP) GOL.12: 1 residues within 4Å: Chain A: N.264 No protein-ligand interaction detected (PLIP)

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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