› 5x07

X-ray diffraction
2.8Å resolution

Crystal structure of FOXA2 DNA binding domain bound to a full consensus DNA site

Released:
DOI: 10.2210/pdb5x07/pdb
PDB entry 5x07 coloured by chain, front view.
PDB entry 5x07 coloured by chain, side view.
PDB entry 5x07 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structure of the Forkhead Domain of FOXA2 Bound to a Complete DNA Consensus Site.
Li J, Dantas Machado AC, Guo M, Sagendorf JM, Zhou Z, Jiang L, Chen X, Wu D, Qu L, Chen Z, Chen L, Rohs R, Chen Y
Biochemistry 56 3745-3753 (2017)
PMID: 28644006

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-119368 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Hepatocyte nuclear factor 3-beta Chains: C, F, I, L
Molecule details ›
Chains: C, F, I, L
Length: 104 amino acids
Theoretical weight: 12.39 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9Y261 (Residues: 157-258; Coverage: 22%)
Gene names: FOXA2, HNF3B, TCF3B
Sequence domains: Forkhead domain
Structure domains: Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain
DNA (5'-D(*TP*CP*TP*TP*GP*TP*TP*TP*AP*CP*AP*TP*TP*TP*TP*G)-3') Chains: A, D, G, J
Molecule details ›
Chains: A, D, G, J
Length: 16 nucleotides
Theoretical weight: 4.86 KDa
Source organism: Homo sapiens
Expression system: Not provided
DNA (5'-D(*CP*AP*AP*AP*AP*TP*GP*TP*AP*AP*AP*CP*AP*AP*GP*A)-3') Chains: B, E, H, K
Molecule details ›
Chains: B, E, H, K
Length: 16 nucleotides
Theoretical weight: 4.93 KDa
Source organism: Homo sapiens
Expression system: Not provided

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL17U
Spacegroup: C2
Unit cell:
a: 195.126Å b: 71.932Å c: 72.155Å
α: 90° β: 103.14° γ: 90°
R-values:
R R work R free
0.243 0.24 0.278
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

2 review citations

Host Transcription Factors in Hepatitis B Virus RNA Synthesis.
Turton et al. (2020)
1 more

7 mentions without citation

Toward a mechanistic understanding of DNA binding by forkhead transcription factors and its perturbation by pathogenic mutations.
Dai et al. (2021)
6 more