› 5ef6

X-ray diffraction
3Å resolution

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-118628 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Homeobox protein Hox-B13 Chains: A, B, G, J
Molecule details ›
Chains: A, B, G, J
Length: 62 amino acids
Theoretical weight: 7.51 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q92826 (Residues: 217-278; Coverage: 22%)
Gene name: HOXB13
Sequence domains: Homeodomain
Structure domains: Homeodomain-like
DNA (5'-D(P*TP*TP*GP*TP*GP*TP*TP*TP*TP*AP*(5CM)P*GP*AP*GP*GP*TP*CP*C)-3') Chains: C, D, H, K
Molecule details ›
Chains: C, D, H, K
Length: 18 nucleotides
Theoretical weight: 5.54 KDa
Source organism: synthetic construct
Expression system: Not provided
DNA (5'-D(P*GP*GP*AP*CP*CP*TP*(5CM)P*GP*TP*AP*AP*AP*AP*CP*AP*CP*AP*A)-3') Chains: E, F, I, L
Molecule details ›
Chains: E, F, I, L
Length: 18 nucleotides
Theoretical weight: 5.52 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

No bound ligands
1 modified residue:
Ligand 5CM 8 x 5CM

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID23-1
Spacegroup: P2
Unit cell:
a: 77.969Å b: 55.557Å c: 102.01Å
α: 90° β: 102.24° γ: 90°
R-values:
R R work R free
0.292 0.291 0.32
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

124 review citations

DNA methylation-based biomarkers and the epigenetic clock theory of ageing.
Horvath et al. (2018)
123 more

2 mentions without citation

Toward a Mechanistic Understanding of DNA Methylation Readout by Transcription Factors.
Kribelbauer et al. (2020)
1 more