› 1av6

X-ray diffraction
2.8Å resolution

VACCINIA METHYLTRANSFERASE VP39 COMPLEXED WITH M7G CAPPED RNA HEXAMER AND S-ADENOSYLHOMOCYSTEINE

Released:
DOI: 10.2210/pdb1av6/pdb
PDB entry 1av6 coloured by chain, front view.
PDB entry 1av6 coloured by chain, side view.
PDB entry 1av6 coloured by chain, top view.
Source organism: Vaccinia virus WR
Primary publication:
Structural basis for sequence-nonspecific recognition of 5'-capped mRNA by a cap-modifying enzyme.
Hodel AE, Gershon PD, Quiocho FA
Mol Cell 1 443-7 (1998)
PMID: 9660928

Function and Biology Details

Reaction catalysed: 
S-adenosyl-L-methionine + a 5'-(N(7)-methyl 5'-triphosphoguanosine)-(ribonucleotide)-[mRNA] = S-adenosyl-L-homocysteine + a 5'-(N(7)-methyl 5'-triphosphoguanosine)-(2'-O-methyl-ribonucleotide)-[mRNA]
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-139669 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct RNA molecule
Macromolecules (2 distinct):
Cap-specific mRNA (nucleoside-2'-O-)-methyltransferase Chain: A
Molecule details ›
Chain: A
Length: 295 amino acids
Theoretical weight: 34.57 KDa
Source organism: Vaccinia virus WR
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P07617 (Residues: 3-297; Coverage: 89%)
Gene names: J3R, OPG102, PAPS, VACWR095
Sequence domains: Poly A polymerase regulatory subunit
Structure domains: Vaccinia Virus protein VP39
RNA (5'-R(*GP*AP*AP*AP*AP*A)-3') Chain: B
Molecule details ›
Chain: B
Length: 6 nucleotides
Theoretical weight: 1.95 KDa
Source organism: Vaccinia virus WR
Expression system: Not provided

Ligands and Environments


Cofactor: Ligand SAH 1 x SAH
1 bound ligand:
Ligand MGT 1 x MGT
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU RU200
Spacegroup: P212121
Unit cell:
a: 61.8Å b: 64.6Å c: 99.5Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.215 0.215 0.285
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

12 review citations

AdoMet-dependent methylation, DNA methyltransferases and base flipping.
Cheng et al. (2001)
11 more

32 mentions without citation

Many paths to methyltransfer: a chronicle of convergence.
Schubert et al. (2003)
31 more