› 8xds

X-ray diffraction
1.97Å resolution

O-methyltransferase from Lycoris longituba F186Y variant complexed with Mg and SAH

Released:
DOI: 10.2210/pdb8xds/pdb
PDB entry 8xds coloured by chain, front view.
PDB entry 8xds coloured by chain, side view.
PDB entry 8xds coloured by chain, top view.
Source organism: Lycoris longituba
Primary publication:
Structure-Based Catalytic Mechanism of Amaryllidaceae O-Methyltransferases
Hnin SYY, Nakashima Y, Kodama T, Morita H
ACS Catalysis 11865-11880 (2024)

Function and Biology Details

Reaction catalysed: 
S-adenosyl-L-methionine + norbelladine = S-adenosyl-L-homocysteine + 4'-O-methylnorbelladine
Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-247917 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
norbelladine O-methyltransferase Chains: A, B
Molecule details ›
Chains: A, B
Length: 242 amino acids
Theoretical weight: 27.46 KDa
Source organism: Lycoris longituba
Expression system: Escherichia coli M15
UniProt:
  • Canonical: A0A6B9TNK2 (Residues: 1-239; Coverage: 100%)
Sequence domains: O-methyltransferase

Ligands and Environments

3 bound ligands:
Ligand GOL 1 x GOL
Ligand MG 2 x MG
Ligand SAH 2 x SAH
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-1A
Unit cell:
a: 49.49Å b: 81.229Å c: 118.468Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.162 0.16 0.202
Expression system: Escherichia coli M15

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