› 4row

X-ray diffraction
1.7Å resolution

The crystal structure of novel APOBEC3G CD2 head-to-tail dimer suggests the binding mode of full-length APOBEC3G to HIV-1 ssDNA

Released:
DOI: 10.2210/pdb4row/pdb
PDB entry 4row coloured by chain, front view.
PDB entry 4row coloured by chain, side view.
PDB entry 4row coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Crystal structure of DNA cytidine deaminase ABOBEC3G catalytic deamination domain suggests a binding mode of full-length enzyme to single-stranded DNA.
Lu X, Zhang T, Xu Z, Liu S, Zhao B, Lan W, Wang C, Ding J, Cao C
J Biol Chem 290 4010-21 (2015)
PMID: 25542899

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:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-190763 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
DNA dC->dU-editing enzyme APOBEC-3G Chain: A
Molecule details ›
Chain: A
Length: 198 amino acids
Theoretical weight: 23.19 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9HC16 (Residues: 193-384; Coverage: 50%)
Gene names: APOBEC3G, MDS019
Sequence domains: APOBEC-like C-terminal domain

Ligands and Environments

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

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL17U
Unit cell:
a: 35.308Å b: 70.007Å c: 82.347Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.149 0.147 0.188
Expression system: Escherichia coli

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Citations

7 review citations

The APOBEC Protein Family: United by Structure, Divergent in Function.
Salter et al. (2016)
6 more

5 mentions without citation

A Novel Regulator of Activation-Induced Cytidine Deaminase/APOBECs in Immunity and Cancer: Schrödinger's CATalytic Pocket.
King et al. (2017)
4 more