› 3wus

X-ray diffraction
2.54Å resolution

Crystal Structure of the Vif-Binding Domain of Human APOBEC3F

Released:
DOI: 10.2210/pdb3wus/pdb
PDB entry 3wus coloured by chain, front view.
PDB entry 3wus coloured by chain, side view.
PDB entry 3wus coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural Insights into HIV-1 Vif-APOBEC3F Interaction.
Nakashima M, Ode H, Kawamura T, Kitamura S, Naganawa Y, Awazu H, Tsuzuki S, Matsuoka K, Nemoto M, Hachiya A, Sugiura W, Yokomaku Y, Watanabe N, Iwatani Y
J Virol 90 1034-47 (2016)
PMID: 26537685

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)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
DNA dC->dU-editing enzyme APOBEC-3F Chains: A, B
Molecule details ›
Chains: A, B
Length: 190 amino acids
Theoretical weight: 22.87 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q8IUX4 (Residues: 187-373; Coverage: 50%)
Gene name: APOBEC3F
Sequence domains: APOBEC-like N-terminal domain

Ligands and Environments

1 bound ligand:
Ligand ZN 2 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-5A
Spacegroup: P3121
Unit cell:
a: 117.294Å b: 117.294Å c: 78.96Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.203 0.2 0.256
Expression system: Escherichia coli

Quick links

Citations

5 review citations

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

9 mentions without citation

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