› 8pm5

X-ray diffraction
2.4Å resolution

transcription factor BARHL2 bound to TAAAT DNA sequence

Released:
DOI: 10.2210/pdb8pm5/pdb
Model geometry
Fit model/data
PDB entry 8pm5 coloured by chain, front view.
PDB entry 8pm5 coloured by chain, side view.
PDB entry 8pm5 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Interfacial water confers transcription factors with dinucleotide specificity.
Morgunova E, Nagy G, Yin Y, Zhu F, Nayak SP, Xiao T, Sokolov I, Popov A, Laughton C, Grubmuller H, Taipale J
Nat Struct Mol Biol (2025)
PMID: 39753777

Function and Biology Details

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

Structure analysis Details

Assemblies composition:
hetero trimer (preferred)
monomeric
Assembly name:
PDBe Complex ID:
PDB-CPX-270654 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
BarH-like 2 homeobox protein Chains: A, D, G, J, M, N
Molecule details ›
Chains: A, D, G, J, M, N
Length: 62 amino acids
Theoretical weight: 7.54 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9NY43 (Residues: 231-292; Coverage: 16%)
Gene name: BARHL2
Sequence domains: Homeodomain
DNA (5'-D(*CP*GP*CP*TP*AP*AP*AP*TP*GP*GP*TP*T)-3') Chains: B, E, H, K
Molecule details ›
Chains: B, E, H, K
Length: 12 nucleotides
Theoretical weight: 3.68 KDa
Source organism: Homo sapiens
Expression system: Not provided
DNA (5'-D(*AP*AP*CP*CP*AP*TP*TP*TP*AP*GP*CP*G)-3') Chains: C, F, I, L

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: ESRF BEAMLINE ID23-1
Spacegroup: P21
Unit cell:
a: 39.015Å b: 134.298Å c: 65.625Å
α: 90° β: 92.6° γ: 90°
R-values:
R R work R free
0.231 0.229 0.28
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

1 citations in other articles

Cytosine Methylation Changes the Preferred Cis-Regulatory Configuration of Arabidopsis WUSCHEL-Related Homeobox 14.
Jiang et al. (2025)