› 8e4x

X-ray diffraction
2.8Å resolution

Human Adenosine Deaminase Acting on dsRNA (ADAR2-R2D) bound to dsRNA containing a G:3-deaza dA pair adjacent to the target site

Released:
DOI: 10.2210/pdb8e4x/pdb
PDB entry 8e4x coloured by chain, front view.
PDB entry 8e4x coloured by chain, side view.
PDB entry 8e4x coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
ADAR activation by inducing a syn conformation at guanosine adjacent to an editing site.
Doherty EE, Karki A, Wilcox XE, Mendoza HG, Manjunath A, Matos VJ, Fisher AJ, Beal PA
OpenAccess logo Nucleic Acids Res (2022)
PMID: 36243986

Function and Biology Details

Reaction catalysed: 
Adenine in double-stranded RNA + H(2)O = hypoxanthine in double-stranded RNA + NH(3)
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-550792 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct RNA molecules
Macromolecules (3 distinct):
Double-stranded RNA-specific editase 1 Chains: A, B
Molecule details ›
Chains: A, B
Length: 488 amino acids
Theoretical weight: 53.99 KDa
Source organism: Homo sapiens
Expression system: Saccharomyces cerevisiae
UniProt:
  • Canonical: P78563 (Residues: 215-741; Coverage: 66%)
  • Best match: P78563-2 (Residues: 215-701)
Gene names: ADAR2, ADARB1, DRADA2, RED1
Sequence domains:
RNA (5-R(*GP*CP*UP*CP*GP*CP*GP*AP*UP*GP*CP*GP*(8AZ)P*GP*AP*GP*GP*GP*CP* UP*CP*UP*GP*AP*UP*AP*GP*CP*UP*AP*CP*G)-3) Chain: C
Molecule details ›
Chain: C
Length: 32 nucleotides
Theoretical weight: 10.36 KDa
Source organism: Homo sapiens
Expression system: Not provided
RNA(5-R(*CP*GP*UP*AP*GP*CP*UP*AP*UP*CP*AP*GP*AP*GP*CP*CP*CP*CP*CP*CP*(4DU)*GP*CP*AP*UP*CP*GP*CP*GP*AP*GP*C)-3) Chain: D
Molecule details ›
Chain: D
Length: 32 nucleotides
Theoretical weight: 10.2 KDa
Source organism: Homo sapiens
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand IHP 2 x IHP
Ligand ZN 2 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-C
Spacegroup: C2
Unit cell:
a: 169.914Å b: 63.236Å c: 142.646Å
α: 90° β: 118.07° γ: 90°
R-values:
R R work R free
0.197 0.195 0.239
Expression systems:
  • Saccharomyces cerevisiae
  • Not provided

Quick links

Citations

2 review citations

RNA editing: Expanding the potential of RNA therapeutics.
Booth et al. (2023)
1 more

1 mention without citation

ADAR activation by inducing a syn conformation at guanosine adjacent to an editing site.
Doherty et al. (2022)