5d9y

X-ray diffraction
1.97Å resolution

Crystal structure of TET2-5fC complex

Released:

Function and Biology Details

Reaction catalysed:
DNA 5-methylcytosine + 2-oxoglutarate + O(2) = DNA 5-hydroxymethylcytosine + succinate + CO(2) 
Biological process:
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Methylcytosine dioxygenase TET2 Chain: A
Molecule details ›
Chain: A
Length: 462 amino acids
Theoretical weight: 51.4 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q6N021 (Residues: 1129-1480, 1844-1936; Coverage: 22%)
  • Best match: Q6N021-3 (Residues: 1129-1136, 772-796, 797-856, 857-872, 873-918)
Gene names: KIAA1546, Nbla00191, TET2
Sequence domains: Oxygenase domain of the 2OGFeDO superfamily
DNA (5'-D(*AP*CP*TP*GP*TP*(5FC)P*GP*AP*AP*GP*CP*T)-3') Chain: B
Molecule details ›
Chain: B
Length: 12 nucleotides
Theoretical weight: 3.69 KDa
DNA (5'-D(*AP*GP*CP*TP*TP*CP*GP*AP*CP*AP*GP*T)-3') Chain: C
Molecule details ›
Chain: C
Length: 12 nucleotides
Theoretical weight: 3.66 KDa

Ligands and Environments

3 bound ligands:

1 modified residue:

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL19U1
Spacegroup: C2221
Unit cell:
a: 48.154Å b: 87.958Å c: 268.02Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.207 0.205 0.248
Expression system: Escherichia coli