SMTL ID : 8rqr.1

In meso structure of apolipoprotein N-acyltransferase, Lnt, from Escherichia coli in 7.10 monoacylglycerol

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.19 Å

Oligo State

monomer

Ligands

8 x 01: 7.10 monoacylglycerol (S-form)

01.1: 16 residues within 4Å: Chain A: V.95, S.98, I.99, L.113, V.114, L.116, L.117, Y.120, V.359, P.360, F.361, G.362, W.435, F.436 Ligands: 01.2, 01.7 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:I.99, A:L.116, A:Y.120, A:F.361, A:F.361 Hydrogen bonds: A:S.98 01.2: 23 residues within 4Å: Chain A: W.94, V.95, L.117, Y.120, L.121, V.162, L.163, T.164, G.165, F.166, W.168, V.359, P.360, F.361, V.365, P.366, L.367, C.407, Y.408, D.433, F.436, H.445 Ligands: 01.1 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:L.117, A:L.117, A:Y.120, A:L.163, A:L.163, A:F.166, A:F.166, A:F.166, A:P.360, A:F.361, A:F.361, A:P.366, A:L.367 Hydrogen bonds: A:D.433 01.3: 14 residues within 4Å: Chain A: L.36, L.39, F.40, A.42, C.43, T.45, L.46, Y.51, I.59, S.90, N.93, I.440 Ligands: 01.5, GOL.9 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:L.36, A:L.39, A:F.40, A:F.40, A:L.46 Hydrogen bonds: A:N.93 Water bridges: A:S.90, A:N.93 01.4: 17 residues within 4Å: Chain A: L.183, I.186, M.187, A.191, F.194, L.195, M.198, L.228, W.233, L.500, T.501, P.502, R.505, L.511, L.514 Ligands: 01.6, GOL.12 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:I.186, A:I.186, A:A.191, A:F.194, A:L.195, A:W.233, A:P.502, A:L.511, A:L.514 Hydrogen bonds: A:R.505, A:R.505 Water bridges: A:L.500 01.5: 14 residues within 4Å: Chain A: L.38, L.39, A.42, F.85, G.86, G.89, S.90, N.93, Y.96, I.111, V.114, V.115, A.118 Ligands: 01.3 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.38, A:A.42, A:F.85, A:F.85 01.6: 21 residues within 4Å: Chain A: W.141, A.145, I.146, L.183, L.195, M.198, L.202, L.205, N.211, R.213, P.214, V.217, L.221, L.224, P.225, P.227, L.228, L.514, F.518 Ligands: 01.4, GOL.12 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:W.141, A:A.145, A:I.146, A:L.195, A:L.221, A:F.518 01.7: 14 residues within 4Å: Chain A: L.34, A.77, A.78, F.81, C.82, L.116, A.119, Y.120, L.123, G.126, L.127, G.130 Ligands: 01.1, 01.8 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:F.81, A:F.81, A:F.81, A:L.116, A:A.119, A:Y.120 Hydrogen bonds: A:L.123 01.8: 13 residues within 4Å: Chain A: E.28, R.31, I.32, L.34, L.35, L.38, F.81, C.82, F.85, V.115, L.116, A.119 Ligands: 01.7 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:R.31, A:L.35, A:L.38, A:F.81, A:F.85

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.9: 7 residues within 4Å: Chain A: L.36, F.40, G.63, A.66, L.67, V.208 Ligands: 01.3 No protein-ligand interaction detected (PLIP) GOL.10: 4 residues within 4Å: Chain A: W.161, V.162, L.163, T.164 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:W.161, A:L.163 GOL.11: 4 residues within 4Å: Chain A: D.52, V.53, W.54, P.55 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.52, A:W.54 GOL.12: 2 residues within 4Å: Ligands: 01.4, 01.6 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Krawinski, P. et al., 7.10 MAG. A Novel Host Monoacylglyceride for In Meso (Lipid Cubic Phase) Crystallization of Membrane Proteins. Cryst.Growth Des. (2024)

Release Date

2024-04-03

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

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