› 4y60

X-ray diffraction
1.75Å resolution

Structure of SOX18-HMG/PROX1-DNA

Released:
DOI: 10.2210/pdb4y60/pdb
PDB entry 4y60 coloured by chain, front view.
PDB entry 4y60 coloured by chain, side view.
PDB entry 4y60 coloured by chain, top view.
Source organism: Mus musculus
Primary publication:
Structure and decoy-mediated inhibition of the SOX18/Prox1-DNA interaction.
Klaus M, Prokoph N, Girbig M, Wang X, Huang YH, Srivastava Y, Hou L, Narasimhan K, Kolatkar PR, Francois M, Jauch R
Nucleic Acids Res 44 3922-35 (2016)
PMID: 26939885

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-118303 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Transcription factor SOX-18 Chain: C
Molecule details ›
Chain: C
Length: 80 amino acids
Theoretical weight: 9.77 KDa
Source organism: Mus musculus
Expression system: Escherichia coli
UniProt:
  • Canonical: P43680 (Residues: 77-155; Coverage: 21%)
Gene names: Sox-18, Sox18
Sequence domains: HMG (high mobility group) box
Structure domains: High mobility group box domain
DNA (5'-D(*CP*AP*CP*TP*AP*GP*CP*AP*TP*TP*GP*TP*CP*TP*GP*GP*G)-3') Chain: A
Molecule details ›
Chain: A
Length: 17 nucleotides
Theoretical weight: 5.22 KDa
Source organism: Mus musculus
Expression system: Not provided
DNA (5'-D(*GP*CP*CP*CP*AP*GP*AP*CP*AP*AP*TP*GP*CP*TP*AP*GP*T)-3') Chain: B
Molecule details ›
Chain: B
Length: 17 nucleotides
Theoretical weight: 5.2 KDa
Source organism: Mus musculus
Expression system: Not provided

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X29A
Spacegroup: P64
Unit cell:
a: 111.942Å b: 111.942Å c: 32.417Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.175 0.174 0.199
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

9 review citations

Molecular basis for the genome engagement by Sox proteins.
Hou et al. (2017)
8 more

5 mentions without citation

Structure and decoy-mediated inhibition of the SOX18/Prox1-DNA interaction.
Klaus et al. (2016)
4 more