› 6ht5

X-ray diffraction
3.45Å resolution

Oct4/Sox2:UTF1 structure

Released:
DOI: 10.2210/pdb6ht5/pdb
PDB entry 6ht5 coloured by chain, front view.
PDB entry 6ht5 coloured by chain, side view.
PDB entry 6ht5 coloured by chain, top view.
Source organism: Mus musculus
Entry authors: Vahokoski J, Meusch D, Groves M, Pogenberg V, Wilmanns M

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-119997 (preferred)
Entry contents:
2 distinct polypeptide molecules
2 distinct DNA molecules
Macromolecules (4 distinct):
Transcription factor SOX-2 Chain: D
Molecule details ›
Chain: D
Length: 83 amino acids
Theoretical weight: 10.09 KDa
Source organism: Mus musculus
Expression system: Escherichia coli
UniProt:
  • Canonical: P48432 (Residues: 41-120; Coverage: 25%)
Gene names: Sox-2, Sox2
Sequence domains: HMG (high mobility group) box
POU domain, class 5, transcription factor 1 Chain: E
Molecule details ›
Chain: E
Length: 154 amino acids
Theoretical weight: 17.83 KDa
Source organism: Mus musculus
Expression system: Escherichia coli
UniProt:
  • Canonical: P20263 (Residues: 131-282; Coverage: 43%)
Gene names: Oct-3, Oct-4, Otf-3, Otf3, Pou5f1
Sequence domains:
DNA (5'-D(P*CP*CP*TP*CP*AP*TP*TP*GP*TP*TP*AP*TP*GP*CP*TP*AP*GP*TP*GP*AP*AP*G)-3') Chain: A
Molecule details ›
Chain: A
Length: 22 nucleotides
Theoretical weight: 6.76 KDa
DNA (5'-D(*TP*TP*CP*AP*CP*TP*AP*GP*CP*AP*TP*AP*AP*CP*AP*AP*TP*GP*AP*GP*G)-3') Chain: B
Molecule details ›
Chain: B
Length: 21 nucleotides
Theoretical weight: 6.46 KDa

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID23-2
Spacegroup: P63
Unit cell:
a: 165.17Å b: 165.17Å c: 39.78Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.205 0.201 0.248
Expression system: Escherichia coli

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