› 4o6d

X-ray diffraction
2.59Å resolution

West Nile Virus Non-structural protein 1 (NS1) Form 1 crystal

Released:
DOI: 10.2210/pdb4o6d/pdb
PDB entry 4o6d coloured by chain, front view.
PDB entry 4o6d coloured by chain, side view.
PDB entry 4o6d coloured by chain, top view.
Source organism: West Nile virus
Primary publication:
Flavivirus NS1 structures reveal surfaces for associations with membranes and the immune system.
Akey DL, Brown WC, Dutta S, Konwerski J, Jose J, Jurkiw TJ, DelProposto J, Ogata CM, Skiniotis G, Kuhn RJ, Smith JL
Science 343 881-5 (2014)
PMID: 24505133

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-192975 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (4 distinct):
Non-structural protein 1 Chain: A
Molecule details ›
Chain: A
Length: 377 amino acids
Theoretical weight: 42.61 KDa
Source organism: West Nile virus
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q9Q6P4 (Residues: 774-774, 791-1143; Coverage: 10%)
Gene names: GP1, MZ11_60484gpGP1, MZ11_60553gpGP1
Sequence domains: Flavivirus non-structural Protein NS1
Non-structural protein 1 Chain: B
Molecule details ›
Chain: B
Length: 377 amino acids
Theoretical weight: 42.37 KDa
Source organism: West Nile virus
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q9Q6P4 (Residues: 774-774, 791-1143; Coverage: 10%)
Gene names: GP1, MZ11_60484gpGP1, MZ11_60553gpGP1
Sequence domains: Flavivirus non-structural Protein NS1

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, BMA, MAN
Carbohydrate polymer
3 bound ligands:
Ligand NAG 1 x NAG
Ligand OXN 4 x OXN
Ligand SO4 2 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 23-ID-D
Spacegroup: P321
Unit cell:
a: 168.689Å b: 168.689Å c: 92.894Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.164 0.162 0.191
Expression system: Trichoplusia ni

Quick links

Citations

59 review citations

The continued threat of emerging flaviviruses.
Pierson et al. (2020)
58 more

12 mentions without citation

Molecular Insights into the Flavivirus Replication Complex.
van den Elsen et al. (2021)
11 more