SMTL ID : 5vrg.1

Structural insights into lipoprotein N-acylation by Escherichia coli apolipoprotein N-acyltransferase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.52 Å

Oligo State

monomer

Ligands

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

OLC.1: 14 residues within 4Å: Chain A: S.80, I.81, L.99, Y.102, L.145, W.239, P.342, F.343, G.344, E.345, F.367, W.417 Ligands: PLM.7, CL.8 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:I.81, A:I.81, A:L.99, A:Y.102, A:L.145, A:F.343, A:F.343, A:W.417 Hydrogen bonds: A:S.270, A:S.270

1 x LNK: PENTANE(Non-covalent)

LNK.2: 4 residues within 4Å: Chain A: L.145, P.348, L.349 Ligands: PLM.7 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.145, A:P.348, A:L.349

5 x PLM: PALMITIC ACID(Non-covalent)

PLM.3: 9 residues within 4Å: Chain A: L.21, F.22, A.24, C.25, T.27, L.28, Y.33, S.72, N.75 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:F.22, A:T.27, A:L.28 Hydrogen bonds: A:Y.33, A:Y.33, A:N.75 Water bridges: A:N.75 PLM.4: 4 residues within 4Å: Chain A: R.211, Y.212, Q.214, Q.457 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:Y.212, A:Y.212, A:Y.212, A:Y.212 Hydrogen bonds: A:Q.457 PLM.5: 9 residues within 4Å: Chain A: W.123, I.128, L.177, M.180, L.184, R.195, P.196, V.199, L.496 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:W.123, A:W.123, A:I.128, A:L.177, A:L.184, A:V.199, A:V.199, A:L.496 PLM.6: 10 residues within 4Å: Chain A: I.9, E.10, R.15, F.22, A.48, L.49, F.51, N.52, T.121, V.190 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.22, A:A.48, A:L.49, A:N.52, A:V.190 Salt bridges: A:K.191 PLM.7: 11 residues within 4Å: Chain A: V.77, L.99, L.145, F.148, V.341, F.343, C.389, Y.390, F.418 Ligands: OLC.1, LNK.2 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:V.77, A:L.99, A:L.145, A:F.148, A:F.148, A:F.148, A:V.341, A:F.343, A:F.418

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.8: 6 residues within 4Å: Chain A: Q.235, K.238, W.239, N.414, W.417 Ligands: OLC.1 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Noland, C.L. et al., Structural insights into lipoprotein N-acylation by Escherichia coli apolipoprotein N-acyltransferase. Proc. Natl. Acad. Sci. U.S.A. (2017)

Release Date

2017-07-12

Peptides

Apolipoprotein N-acyltransferase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Membrane

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