SMTL ID : 8ys9.1 (1 other biounit)

Crystal structure of Phosphatidylethanolamine N-methyltransferase from R. thermophilum complexed with DMPE and SAH

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.46 Å

Oligo State

monomer

Ligands

1 x SAH: S-ADENOSYL-L-HOMOCYSTEINE(Non-covalent)

SAH.1: 22 residues within 4Å: Chain A: I.3, V.6, Y.10, Y.17, R.29, G.53, V.54, G.55, D.73, A.74, S.75, M.78, M.98, D.99, A.100, M.116, H.117, V.118, V.121, V.122, P.123 Ligands: 01.2 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:G.53, A:A.74, A:S.75, A:D.99, A:A.100, A:M.116 Water bridges: A:V.54, A:M.116 Salt bridges: A:R.29

1 x 01: [(2~{R})-3-[2-(dimethylamino)ethoxy-oxidanyl-phosphoryl]oxy-2-[(~{Z})-octadec-9-enoyl]oxy-propyl] (~{Z})-octadec-9-enoate

01.2: 19 residues within 4Å: Chain A: Y.10, W.13, T.20, F.21, H.117, S.120, V.121, T.146, H.147, L.159, E.160, M.163, G.171, W.172, S.174, L.198, L.200, M.201 Ligands: SAH.1 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:W.13, A:T.20, A:E.160, A:W.172, A:L.198, A:L.200, A:L.200 Hydrogen bonds: A:S.120, A:H.147 Salt bridges: A:H.117, A:H.147 pi-Cation interactions: A:F.21

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 2 residues within 4Å: Chain A: I.3, R.101 3 PLIP interactions: 3 interactions with chain A Water bridges: A:E.2, A:R.101 Salt bridges: A:R.101

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Salsabila, S.D. et al., Structural insights into phosphatidylethanolamine N -methyltransferase PmtA mediating bacterial phosphatidylcholine synthesis. Sci Adv (2024)

Release Date

2024-10-16

Peptides

Phosphatidylethanolamine N-methyltransferase/phosphatidyl-N-methylethanolamine N-methyltransferase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Phosphatidylethanolamine N-methyltransferase/phosphatidyl-N-methylethanolamine N-methyltransferase

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