SMTL ID : 5azc.1

Crystal structure of Escherichia coli Lgt in complex with phosphatidylglycerol

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

10 x PGT: (1S)-2-{[{[(2R)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL STEARATE(Non-covalent)

PGT.1: 7 residues within 4Å: Chain A: I.115, R.123, S.124, F.125, F.126, L.233 Ligands: PGT.10 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.233 Hydrogen bonds: A:S.124, A:F.125 PGT.2: 8 residues within 4Å: Chain A: V.33, P.137, F.138, G.141, A.142, G.208, F.212 Ligands: PGT.5 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:V.33, A:A.142 PGT.3: 6 residues within 4Å: Chain A: I.234, A.238, V.276, M.279, Y.283 Ligands: PGT.8 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:I.234, A:I.234, A:A.238, A:M.279, A:Y.283, A:Y.283 PGT.4: 10 residues within 4Å: Chain A: N.60, A.64, G.72, I.108, G.109, V.113, I.116, F.117, R.120, T.121 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:A.64, A:I.108, A:V.113, A:I.116, A:F.117, A:T.121 PGT.5: 6 residues within 4Å: Chain A: F.37, W.40, L.41, R.45, F.138 Ligands: PGT.2 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.37, A:F.37, A:F.37, A:W.40, A:W.40, A:L.41 PGT.6: 3 residues within 4Å: Chain A: I.272, V.273, V.276 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:I.272, A:I.272, A:V.273, A:V.276 PGT.7: 5 residues within 4Å: Chain A: E.11, F.12, D.13, W.26, M.30 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:D.13, A:W.26, A:W.26 PGT.8: 8 residues within 4Å: Chain A: Y.218, R.223, A.238, F.239, I.242, M.279, Y.283 Ligands: PGT.3 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Y.218, A:F.239, A:I.242, A:Y.283 PGT.9: 20 residues within 4Å: Chain A: Y.27, Y.31, G.34, F.35, A.38, F.66, F.70, V.96, W.97, G.99, G.100, M.101, L.135, G.139, N.150, E.152, G.255, A.256, W.257, V.258 19 PLIP interactions: 19 interactions with chain A Hydrophobic interactions: A:Y.31, A:Y.31, A:F.35, A:A.38, A:F.66, A:F.70, A:V.96, A:W.257, A:W.257 Hydrogen bonds: A:G.99, A:M.101, A:N.147, A:N.150, A:G.255, A:W.257, A:V.258 Water bridges: A:Y.31, A:A.256, A:Y.260 PGT.10: 15 residues within 4Å: Chain A: Y.31, F.103, I.136, G.139, L.140, G.143, R.144, Y.236, W.257, Y.260, L.267, P.270, M.271, A.274 Ligands: PGT.1 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:F.103, A:I.136, A:I.136, A:Y.236, A:W.257, A:Y.260, A:L.267, A:P.270, A:A.274 Hydrogen bonds: A:Y.31 Salt bridges: A:R.144

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mao, G. et al., Crystal structure of E. coli lipoprotein diacylglyceryl transferase. Nat Commun (2016)

Release Date

2016-01-27

Peptides

Prolipoprotein diacylglyceryl transferase: 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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Prolipoprotein diacylglyceryl transferase

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