› 7vjv

X-ray diffraction
1.75Å resolution

Human AlkB homolog ALKBH6 in complex with alpha-katoglutarate and Mn

Released:
DOI: 10.2210/pdb7vjv/pdb
PDB entry 7vjv coloured by chain, front view.
PDB entry 7vjv coloured by chain, side view.
PDB entry 7vjv coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural insights into the interactions and epigenetic functions of human nucleic acid repair protein ALKBH6.
Ma L, Lu H, Tian Z, Yang M, Ma J, Shang G, Liu Y, Xie M, Wang G, Wu W, Zhang Z, Dai S, Chen Z
J Biol Chem 298 101671 (2022)
PMID: 35120926

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-174717 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Alpha-ketoglutarate-dependent dioxygenase alkB homolog 6 Chain: A
Molecule details ›
Chain: A
Length: 246 amino acids
Theoretical weight: 27.47 KDa
Source organism: Homo sapiens
Expression system: Komagataella pastoris
UniProt:
  • Canonical: Q3KRA9 (Residues: 1-238; Coverage: 100%)
Gene names: ABH6, ALKBH6
Sequence domains: 2OG-Fe(II) oxygenase superfamily

Ligands and Environments

2 bound ligands:
Ligand MN 1 x MN
Ligand AKG 1 x AKG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL17U
Spacegroup: P212121
Unit cell:
a: 46.118Å b: 64.407Å c: 88.416Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.191 0.19 0.207
Expression system: Komagataella pastoris

Quick links

Citations

1 review citation

The Repertoire of RNA Modifications Orchestrates a Plethora of Cellular Responses.
Adamopoulos et al. (2023)

2 mentions without citation

The role of demethylase AlkB homologs in cancer.
Li et al. (2023)
1 more