› 6od3

X-ray diffraction
1.49Å resolution

Human TCF4 C-terminal bHLH domain in Complex with 13-bp Oligonucleotide Containing E-box Sequence

Released:
DOI: 10.2210/pdb6od3/pdb
PDB entry 6od3 coloured by chain, front view.
PDB entry 6od3 coloured by chain, side view.
PDB entry 6od3 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural basis for preferential binding of human TCF4 to DNA containing 5-carboxylcytosine.
Yang J, Horton JR, Li J, Huang Y, Zhang X, Blumenthal RM, Cheng X
Nucleic Acids Res 47 8375-8387 (2019)
PMID: 31081034

Function and Biology Details

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

Structure analysis Details

Assemblies composition:
hetero tetramer (preferred)
homo dimer
Assembly name:
PDBe Complex ID:
PDB-CPX-120378 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct DNA molecule
Macromolecules (2 distinct):
Transcription factor 4 Chains: A, B, E, F, G, H, I, J
Molecule details ›
Chains: A, B, E, F, G, H, I, J
Length: 62 amino acids
Theoretical weight: 7.4 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P15884 (Residues: 565-624; Coverage: 9%)
Gene names: BHLHB19, ITF2, SEF2, TCF4
Sequence domains: Helix-loop-helix DNA-binding domain
Structure domains: Helix-loop-helix DNA-binding domain
DNA (5'-D(*CP*AP*TP*AP*CP*AP*CP*GP*TP*GP*TP*AP*T)-3') Chains: W, X, Y, Z
Molecule details ›
Chains: W, X, Y, Z
Length: 13 nucleotides
Theoretical weight: 3.95 KDa
Source organism: Homo sapiens
Expression system: Not provided

Ligands and Environments

3 bound ligands:
Ligand EDO 11 x EDO
Ligand CL 2 x CL
Ligand PG4 1 x PG4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 22-ID
Spacegroup: P1
Unit cell:
a: 47.18Å b: 58.946Å c: 62.72Å
α: 104.63° β: 90.34° γ: 94.86°
R-values:
R R work R free
0.222 0.221 0.237
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

7 review citations

Transcription factor 4 and its association with psychiatric disorders.
Teixeira et al. (2021)
6 more

2 mentions without citation

Structural basis for preferential binding of human TCF4 to DNA containing 5-carboxylcytosine.
Yang et al. (2019)
1 more