PDBe 5dto

X-ray diffraction
2.6Å resolution

Dengue virus full length NS5 complexed with viral Cap 0-RNA and SAH


Function and Biology Details

Reactions catalysed:
S-adenosyl-L-methionine + a 5'-(N(7)-methyl 5'-triphosphoguanosine)-(purine-ribonucleotide)-[mRNA] = S-adenosyl-L-homocysteine + a 5'-(N(7)-methyl 5'-triphosphoguanosine)-(2'-O-methyl-purine-ribonucleotide)-[mRNA]
ATP + H(2)O = ADP + phosphate
NTP + H(2)O = NDP + 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.
Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1)
S-adenosyl-L-methionine + G(5')pppR-RNA = S-adenosyl-L-homocysteine + m(7)G(5')pppR-RNA
Biochemical function:
Biological process:
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct RNA molecule
Macromolecules (2 distinct):
RNA-directed RNA polymerase NS5 Chain: A
Molecule details ›
Chain: A
Length: 892 amino acids
Theoretical weight: 102.83 KDa
Source organism: Dengue virus 3
Expression system: Escherichia coli
  • Canonical: Q6YMS4 (Residues: 2496-3385; Coverage: 26%)
Gene name: pol
Sequence domains:
RNA (5'-R(P*AP*GP*UP*U)-3') Chain: B
Molecule details ›
Chain: B
Length: 4 nucleotides
Theoretical weight: 1.24 KDa
Source organism: Dengue virus
Expression system: Not provided

Ligands and Environments

No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X06DA
Spacegroup: P21212
Unit cell:
a: 94.66Å b: 151.394Å c: 69.432Å
α: 90° β: 90° γ: 90°
R R work R free
0.186 0.183 0.244
Expression systems:
  • Escherichia coli
  • Not provided