› 7vek

X-ray diffraction
2.6Å resolution

Crystal structure of Phytolacca americana UGT3 with capsaicin and UDP-2fluoroglucose

Released:
DOI: 10.2210/pdb7vek/pdb
PDB entry 7vek coloured by chain, front view.
PDB entry 7vek coloured by chain, side view.
PDB entry 7vek coloured by chain, top view.
Source organism: Phytolacca americana
Primary publication:
Structural basis for substrate recognition in the Phytolacca americana glycosyltransferase PaGT3.
Maharjan R, Fukuda Y, Nakayama T, Nakayama T, Hamada H, Ozaki SI, Inoue T
OpenAccess logo Acta Crystallogr D Struct Biol 78 379-389 (2022)
PMID: 35234151

Function and Biology Details

Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-503009 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Glycosyltransferase Chains: A, B
Molecule details ›
Chains: A, B
Length: 505 amino acids
Theoretical weight: 57.63 KDa
Source organism: Phytolacca americana
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: B5MGN9 (Residues: 1-485; Coverage: 100%)
Gene name: PaGT3
Sequence domains: UDP-glucoronosyl and UDP-glucosyl transferase

Ligands and Environments

4 bound ligands:
Ligand O4B 1 x O4B
Ligand K 1 x K
Ligand U2F 2 x U2F
Ligand 4DY 1 x 4DY
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL44XU
Spacegroup: P212121
Unit cell:
a: 94.276Å b: 103.022Å c: 109.648Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.207 0.204 0.258
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

2 mentions without citation

Structure-function and engineering of plant UDP-glycosyltransferase.
Wang et al. (2023)
1 more