SMTL ID : 5vrh.1

Apolipoprotein N-acyltransferase C387S active site mutant

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.14 Å

Oligo State

monomer

Ligands

2 x OLB: (2S)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate(Non-covalent)

OLB.1: 6 residues within 4Å: Chain A: W.123, L.184, N.193, R.195, P.196, V.199 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:W.123, A:V.199 Hydrogen bonds: A:N.193 OLB.2: 9 residues within 4Å: Chain A: V.136, E.396, T.488, N.490, W.491, T.497, A.498, G.501 Ligands: PLM.5 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:V.136, A:A.498 Hydrogen bonds: A:T.488, A:N.490, A:W.491

1 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 2 residues within 4Å: Chain A: E.383, D.405 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.383, A:D.405, H2O.6

2 x PLM: PALMITIC ACID(Non-covalent)

PLM.4: 8 residues within 4Å: Chain A: A.24, C.25, L.28, Y.33, I.41, S.72, N.75, I.422 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:A.24, A:I.41 Hydrogen bonds: A:N.75 PLM.5: 3 residues within 4Å: Chain A: F.139, W.494 Ligands: OLB.2 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:F.139, A:F.139

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

CL.6: 5 residues within 4Å: Chain A: Q.235, K.238, W.239, N.414, W.417 Ligand excluded by PLIP

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

OLC.7: 12 residues within 4Å: Chain A: I.81, F.84, L.95, Y.102, E.269, N.316, V.341, F.343, G.344, E.345, W.417 Ligands: OLC.8 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:I.81, A:I.81, A:F.84, A:F.84, A:Y.102, A:Y.102, A:F.343, A:F.343, A:W.417 Hydrogen bonds: A:E.269 OLC.8: 17 residues within 4Å: Chain A: Y.102, L.145, F.148, E.269, N.316, K.337, V.341, P.342, F.343, E.345, P.348, S.389, Y.390, N.414, W.417, F.418 Ligands: OLC.7 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:Y.102, A:L.145, A:L.145, A:F.148, A:F.148, A:P.342, A:F.343, A:P.348 Hydrogen bonds: A:E.269, A:N.316, A:E.345, A:S.389 Salt bridges: A:K.337

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