› 7uu3

X-ray diffraction
3.1Å resolution

Crystal structure of APOBEC3G complex with 3'overhangs RNA-Complex

Released:
DOI: 10.2210/pdb7uu3/pdb
PDB entry 7uu3 coloured by chain, front view.
PDB entry 7uu3 coloured by chain, side view.
PDB entry 7uu3 coloured by chain, top view.
Source organisms:
Primary publication:
Structural basis of sequence-specific RNA recognition by the antiviral factor APOBEC3G.
Yang H, Kim K, Li S, Pacheco J, Chen XS
OpenAccess logo Nat Commun 13 7498 (2022)
PMID: 36470880

Function and Biology Details

Reaction catalysed: 
Cytosine in single-stranded DNA + H(2)O = uracil in single-stranded DNA + NH(3)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-125929 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct RNA molecules
Macromolecules (3 distinct):
DNA dC->dU-editing enzyme APOBEC-3G Chains: A, B
Molecule details ›
Chains: A, B
Length: 386 amino acids
Theoretical weight: 45.14 KDa
Source organism: Macaca mulatta
Expression system: Escherichia coli
UniProt:
  • Canonical: M1GSK9 (Residues: 1-383; Coverage: 99%)
Gene name: APOBEC3G
Sequence domains: Novel AID APOBEC clade 2
RNA (5'-R(*CP*CP*CP*AP*CP*GP*GP*GP*AP*AP*U)-3') Chain: C
Molecule details ›
Chain: C
Length: 14 nucleotides
Theoretical weight: 4.42 KDa
Source organism: synthetic construct
Expression system: Not provided
RNA (5'-R(*CP*CP*CP*GP*UP*GP*GP*GP*AP*AP*U)-3') Chain: D
Molecule details ›
Chain: D
Length: 14 nucleotides
Theoretical weight: 4.44 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand ZN 4 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 23-ID-D
Spacegroup: P1
Unit cell:
a: 60.709Å b: 67.192Å c: 79.624Å
α: 98.29° β: 108.72° γ: 112.66°
R-values:
R R work R free
0.174 0.17 0.21
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

1 mention without citation

Structural basis of sequence-specific RNA recognition by the antiviral factor APOBEC3G.
Yang et al. (2022)