› 6fuk

X-ray diffraction
2Å resolution

Crystal structure of UTX complexed with 5-carboxy-8-hydroxyquinoline

Released:
DOI: 10.2210/pdb6fuk/pdb
PDB entry 6fuk coloured by chain, front view.
PDB entry 6fuk coloured by chain, side view.
PDB entry 6fuk coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
In Silico Identification of JMJD3 Demethylase Inhibitors.
Esposito C, Wiedmer L, Caflisch A
J Chem Inf Model 58 2151-2163 (2018)
PMID: 30226987

Function and Biology Details

Reaction catalysed: 
(1a) a [histone H3]-N(6),N(6),N(6)-trimethyl-L-lysine(27) + 2-oxoglutarate + O(2) = a [histone H3]-N(6),N(6)-dimethyl-L-lysine(27) + succinate + formaldehyde + CO(2)
Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-127530 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Lysine-specific demethylase 6A Chain: A
Molecule details ›
Chain: A
Length: 531 amino acids
Theoretical weight: 60.26 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: O15550 (Residues: 877-1401; Coverage: 38%)
Gene names: KDM6A, UTX
Sequence domains:
Structure domains:

Ligands and Environments

6 bound ligands:
Ligand MN 1 x MN
Ligand 8XQ 1 x 8XQ
Ligand ZN 1 x ZN
Ligand SO4 2 x SO4
Ligand PEG 2 x PEG
Ligand PG0 1 x PG0
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X06SA
Spacegroup: P212121
Unit cell:
a: 80.417Å b: 83.261Å c: 92.898Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.188 0.186 0.228
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

1 citations in other articles

A quinolin-8-ol sub-millimolar inhibitor of UGGT, the ER glycoprotein folding quality control checkpoint.
Guay et al. (2023)

2 mentions without citation

Differential Occupancy and Regulatory Interactions of KDM6A in Bladder Cell Lines.
Özden-Yılmaz et al. (2023)
1 more