5fwj

X-ray diffraction
2.1Å resolution

Function and Biology Details

Reaction catalysed:
(1a) a [histone H3]-N(6),N(6),N(6)-trimethyl-L-lysine(4) + 2-oxoglutarate + O(2) = a [histone H3]-N(6),N(6)-dimethyl-L-lysine(4) + succinate + formaldehyde + CO(2)
Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
monomeric (preferred)
PDBe Complex ID:
PDB-CPX-154348 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Lysine-specific demethylase 5C Chains: A, B
Molecule details ›
Chains: A, B
Length: 471 amino acids
Theoretical weight: 54.21 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: P41229 (Residues: 384-772; Coverage: 25%)
Gene names: DXS1272E, JARID1C, KDM5C, SMCX, XE169
Sequence domains:
Structure domains: Cupin

Ligands and Environments

No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I02
Spacegroup: P1
Unit cell:
a: 60.96Å b: 67.34Å c: 74.73Å
α: 86.71° β: 76.56° γ: 70.35°
R-values:
R R work R free
0.157 0.155 0.189
Expression system: Spodoptera frugiperda