SMTL ID : 4ine.1

Crystal structure of N-methyl transferase (PMT-2) from Caenorhabditis elegant complexed with S-adenosyl homocysteine and phosphoethanolamine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.45 Å

Oligo State

homo-dimer

Ligands

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

SAH.1: 22 residues within 4Å: Chain A: F.195, L.199, Y.204, F.220, I.221, S.222, G.249, V.250, G.251, D.271, L.272, S.273, M.276, T.297, D.298, A.299, R.315, D.316, C.317, H.320, I.321 Ligands: OPE.2 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:I.221, A:S.222, A:G.249, A:G.251, A:L.272, A:S.273, A:D.298, A:D.298, A:A.299 Water bridges: A:V.250, A:R.315 SAH.4: 22 residues within 4Å: Chain B: F.195, L.199, Y.204, F.220, I.221, S.222, G.249, V.250, G.251, D.271, L.272, S.273, M.276, T.297, D.298, A.299, R.315, D.316, C.317, H.320, I.321 Ligands: OPE.5 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:I.221, B:S.222, B:G.249, B:G.251, B:L.272, B:S.273, B:D.298, B:A.299 Water bridges: B:V.250, B:R.315

2 x OPE: PHOSPHORIC ACID MONO-(2-AMINO-ETHYL) ESTER(Non-covalent)

OPE.2: 10 residues within 4Å: Chain A: Q.203, Y.204, Y.212, I.221, Y.346, Y.360, R.364, Y.366, K.432 Ligands: SAH.1 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:Q.203, A:Y.204, A:Y.346, A:Y.360, A:Y.360, A:Y.366 Water bridges: A:Y.204, A:Y.204, A:R.364, A:R.364 Salt bridges: A:R.364, A:K.432 OPE.5: 11 residues within 4Å: Chain B: Q.203, Y.204, Y.212, F.216, I.221, Y.346, Y.360, R.364, Y.366, K.432 Ligands: SAH.4 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:Q.203, B:Y.204, B:Y.204, B:Y.212, B:Y.360, B:Y.360, B:Y.366 Water bridges: B:Y.346, B:R.364, B:R.364 Salt bridges: B:R.364, B:K.432

2 x BME: BETA-MERCAPTOETHANOL(Non-functional Binders)

BME.3: 4 residues within 4Å: Chain A: S.95, I.98, D.123, C.127 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.123 BME.6: 2 residues within 4Å: Chain B: I.98, C.127 1 PLIP interactions: 1 interactions with chain B Water bridges: B:D.126

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lukk, T. et al., Crystal structure of N-methyl transferase (PMT-2) from Caenorhabditis elegant complexed with S-adenosyl homocysteine and phosphoethanolamine. To be Published

Release Date

2014-01-15

Peptides

Protein PMT-2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Protein PMT-2