SMTL ID : 8urt.1

Cholinephosphotransferase in complex with selective inhibitor chelerythrine

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

4 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 3 residues within 4Å: Chain A: D.96, D.99, D.117 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.96, A:D.117 MG.2: 4 residues within 4Å: Chain A: Y.92, D.96, D.117, D.121 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.96, A:D.96, A:D.121 MG.9: 3 residues within 4Å: Chain B: D.96, D.99, D.117 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:D.96, B:D.96, B:D.99, B:D.99, B:D.117 MG.10: 3 residues within 4Å: Chain B: Y.92, I.120, D.121 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:Y.92

6 x PCW: 1,2-DIOLEOYL-SN-GLYCERO-3-PHOSPHOCHOLINE(Non-covalent)

PCW.3: 11 residues within 4Å: Chain A: F.3, R.307, V.321, F.323, I.330, L.334, L.360 Chain B: L.362, M.367, Y.374 Ligands: PCW.4 11 PLIP interactions: 10 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:F.323, A:F.323, A:I.330, A:I.330, A:L.334, A:L.360, B:L.362 Hydrogen bonds: A:V.321 Salt bridges: A:R.307, A:R.307 pi-Cation interactions: A:F.3 PCW.4: 13 residues within 4Å: Chain A: L.334, M.338, D.343, Y.344, Q.345, S.348, I.349 Chain B: P.71, Y.72, Y.140, W.355 Ligands: PCW.3, PCW.8 6 PLIP interactions: 4 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:Y.72, B:W.355, B:W.355, A:L.334 Hydrogen bonds: B:Y.72, A:S.348 PCW.6: 12 residues within 4Å: Chain A: Y.72, W.355, L.362 Chain B: L.334, M.338, D.343, Y.344, Q.345, S.348, L.353 Ligands: PCW.7, PCW.11 6 PLIP interactions: 3 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:W.355, A:L.362, B:L.334, B:L.353 Hydrogen bonds: A:Y.72, B:S.348 PCW.7: 16 residues within 4Å: Chain A: L.53, V.63, F.116, C.119, I.120, I.123, L.362, H.365, G.366, I.369, N.370, Y.383, A.384, L.385 Ligands: PCW.6, PCW.11 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:L.53, A:V.63, A:F.116, A:I.120, A:I.123, A:I.123, A:L.362, A:I.369, A:L.385 Hydrogen bonds: A:A.384, A:L.385 PCW.8: 15 residues within 4Å: Chain B: F.56, L.67, F.116, C.119, I.123, F.299, H.365, G.366, I.369, I.373, T.377, Y.383, A.384, L.385 Ligands: PCW.4 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:F.56, B:L.67, B:F.116, B:F.116, B:F.116, B:I.123, B:F.299, B:I.369, B:I.369, B:I.373 Hydrogen bonds: B:A.384, B:L.385 PCW.11: 15 residues within 4Å: Chain A: M.367, Y.374 Chain B: F.3, P.6, F.303, R.307, V.321, F.323, I.330, Q.331, L.334, M.356, L.360 Ligands: PCW.6, PCW.7 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:F.323, B:F.323, B:I.330, B:Q.331, B:L.334, B:L.360, B:L.360 Salt bridges: B:R.307, B:R.307

2 x CTI: 1,2-dimethoxy-12-methyl[1,3]benzodioxolo[5,6-c]phenanthridin-12-ium(Non-covalent)

CTI.5: 10 residues within 4Å: Chain A: V.132, I.151, F.173, C.174, G.175, E.178, G.179, F.224, C.225, A.228 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:I.151, A:A.228 CTI.12: 10 residues within 4Å: Chain B: V.132, I.151, F.173, C.174, G.175, E.178, G.179, F.224, C.225, A.228 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:I.151, B:A.228

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Roberts, J.R. et al., Structural basis for catalysis and selectivity of phospholipid synthesis by eukaryotic choline-phosphotransferase. Nat Commun (2025)

Release Date

2024-10-30

Peptides

Cholinephosphotransferase 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Membrane

We predict this structure to be a membrane protein.
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Cholinephosphotransferase 1