› 4qkb

X-ray diffraction
2.6Å resolution

Crystal structure of seleno-methionine labelled human ALKBH7 in complex with alpha-ketoglutarate and Mn(II)

Released:
DOI: 10.2210/pdb4qkb/pdb
PDB entry 4qkb coloured by chain, front view.
PDB entry 4qkb coloured by chain, side view.
PDB entry 4qkb coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
The atomic resolution structure of human AlkB homolog 7 (ALKBH7), a key protein for programmed necrosis and fat metabolism.
Wang G, He Q, Feng C, Liu Y, Deng Z, Qi X, Wu W, Mei P, Chen Z
J Biol Chem 289 27924-36 (2014)
PMID: 25122757

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assemblies composition:
monomeric (preferred)
homo trimer
Assembly name:
PDBe Complex ID:
PDB-CPX-189716 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Alpha-ketoglutarate-dependent dioxygenase alkB homolog 7, mitochondrial Chains: A, B, C
Molecule details ›
Chains: A, B, C
Length: 200 amino acids
Theoretical weight: 22.8 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9BT30 (Residues: 17-215; Coverage: 90%)
Gene names: ABH7, ALKBH7, SPATA11, UNQ6002/PRO34564
Sequence domains: 2OG-Fe(II) oxygenase superfamily
Structure domains: Alpha-ketoglutarate-dependent dioxygenase AlkB-like

Ligands and Environments

2 bound ligands:
Ligand MN 7 x MN
Ligand AKG 3 x AKG
1 modified residue:
Ligand MSE 15 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-5A
Spacegroup: P21
Unit cell:
a: 66.737Å b: 82.759Å c: 66.724Å
α: 90° β: 119.95° γ: 90°
R-values:
R R work R free
0.159 0.158 0.181
Expression system: Escherichia coli

Quick links

Citations

9 review citations

The AlkB Family of Fe(II)/α-Ketoglutarate-dependent Dioxygenases: Repairing Nucleic Acid Alkylation Damage and Beyond.
Fedeles et al. (2015)
8 more

2 mentions without citation

The atomic resolution structure of human AlkB homolog 7 (ALKBH7), a key protein for programmed necrosis and fat metabolism.
Wang et al. (2014)
1 more