› 4euw

X-ray diffraction
2.77Å resolution

Crystal structure of a HMG domain of transcription factor SOX-9 bound to DNA (SOX-9/DNA) from Homo sapiens at 2.77 A resolution

Released:
DOI: 10.2210/pdb4euw/pdb
PDB entry 4euw coloured by chain, front view.
PDB entry 4euw coloured by chain, side view.
PDB entry 4euw coloured by chain, top view.
Source organism: Homo sapiens
Entry authors: Joint Center for Structural Genomics (JCSG), Partnership for Stem Cell Biology (STEMCELL)

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-117434 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Transcription factor SOX-9 Chain: A
Molecule details ›
Chain: A
Length: 106 amino acids
Theoretical weight: 12.92 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P48436 (Residues: 98-181; Coverage: 17%)
Gene name: SOX9
Sequence domains: HMG (high mobility group) box
Structure domains: High mobility group box domain
DNA (5'-D(*CP*TP*CP*TP*TP*TP*GP*AP*GP*AP*AP*G)-3') Chain: B
Molecule details ›
Chain: B
Length: 12 nucleotides
Theoretical weight: 3.68 KDa
Source organism: Homo sapiens
Expression system: Not provided
DNA (5'-D(*CP*TP*TP*CP*TP*CP*AP*AP*AP*GP*AP*G)-3') Chain: C
Molecule details ›
Chain: C
Length: 12 nucleotides
Theoretical weight: 3.65 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: SSRL BEAMLINE BL11-1
Spacegroup: C222
Unit cell:
a: 55.772Å b: 134.654Å c: 49.987Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.248 0.247 0.278
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

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