4npl

X-ray diffraction
1.65Å resolution

Crystal structure of Zebrafish ALKBH5 in complex with alpha-ketoglutarate

Released:
Source organism: Danio rerio
Entry authors: He C, Chen W, Zhang L

Function and Biology Details

Reaction catalysed:
N(6)-methyladenosine in mRNA + 2-oxoglutarate + O(2) = adenosine in mRNA + formaldehyde + succinate + CO(2)
Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
monomeric (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
RNA demethylase ALKBH5 Chains: A, B
Molecule details ›
Chains: A, B
Length: 250 amino acids
Theoretical weight: 28.36 KDa
Source organism: Danio rerio
Expression system: Escherichia coli
UniProt:
  • Canonical: Q08BA6 (Residues: 38-287; Coverage: 71%)
Gene name: alkbh5
Sequence domains: 2OG-Fe(II) oxygenase superfamily
Structure domains: Alpha-ketoglutarate-dependent dioxygenase AlkB-like

Ligands and Environments

2 bound ligands:
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-C
Spacegroup: P212121
Unit cell:
a: 65.948Å b: 68.595Å c: 114.909Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.21 0.209 0.238
Expression system: Escherichia coli