2r29

X-ray diffraction
3Å resolution

Neutralization of dengue virus by a serotype cross-reactive antibody elucidated by cryoelectron microscopy and x-ray crystallography

Released:
Model geometry
Fit model/data

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-211004 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Envelope protein E Chain: A
Molecule details ›
Chain: A
Length: 97 amino acids
Theoretical weight: 10.93 KDa
Source organism: Dengue virus 2 Thailand/16681/84
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P29991 (Residues: 578-674; Coverage: 3%)
Sequence domains: Flavivirus glycoprotein, immunoglobulin-like domain
Structure domains: Immunoglobulin-like
Heavy chain of Fab 1A1D-2 Chain: H
Molecule details ›
Chain: H
Length: 216 amino acids
Theoretical weight: 23.07 KDa
Source organism: Mus musculus
Structure domains: Immunoglobulins
Light chain of Fab 1A1D-2 Chain: L

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 23-ID-D
Spacegroup: C2
Unit cell:
a: 168.12Å b: 58.66Å c: 78.19Å
α: 90° β: 114.41° γ: 90°
R-values:
R R work R free
0.259 0.259 0.321
Expression system: Escherichia coli BL21(DE3)