› 2p3q

X-ray diffraction
2.75Å resolution

Crystal Structure of Dengue Methyltransferase in Complex with GpppG and S-Adenosyl-L-homocysteine

Released:
DOI: 10.2210/pdb2p3q/pdb
PDB 2p3q coloured by chain and viewed from the front.
PDB 2p3q coloured by chain and viewed from the side.
PDB 2p3q coloured by chain and viewed from the top.
Source organism: Dengue virus 2
Primary publication:
Structural and functional analysis of methylation and 5'-RNA sequence requirements of short capped RNAs by the methyltransferase domain of dengue virus NS5.
Egloff MP, Decroly E, Malet H, Selisko B, Benarroch D, Ferron F, Canard B
J. Mol. Biol. 372 723-36 (2007)
PMID: 17686489

Function and Biology Details

Reactions catalysed: 
NTP + H(2)O = NDP + phosphate
ATP + H(2)O = ADP + phosphate
Selective hydrolysis of -Xaa-Xaa-|-Yaa- bonds in which each of the Xaa can be either Arg or Lys and Yaa can be either Ser or Ala.
Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assemblies composition:
monomeric (preferred)
homo dimer
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
type II methyltransferase Chain: A
Molecule details ›
Chain: A
Length: 305 amino acids
Theoretical weight: 34.4 KDa
Source organism: Dengue virus 2
Expression system: Escherichia coli
UniProt:
  • Canonical: Q20IJ2 (Residues: 2495-2787; Coverage: 9%)
Sequence domains: FtsJ-like methyltransferase
Structure domains: Vaccinia Virus protein VP39

Ligands and Environments

3 bound ligands:
Ligand SO4 6 x SO4
Ligand GP3 1 x GP3
Ligand SAH 1 x SAH
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID14-2
Spacegroup: P3121
Unit cell:
a: 111.502Å b: 111.502Å c: 56.534Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.212 0.208 0.271
Expression system: Escherichia coli

Quick links

Citations

36 review citations

An epigenetic 'extreme makeover': the methylation of flaviviral RNA (and beyond).
Ruggieri et al. (2021)
35 more

6 mentions without citation

RNA methyltransferases involved in 5' cap biosynthesis.
Byszewska et al. (2014)
5 more