› 8fjn

X-ray diffraction
2.1Å resolution

Crystal Structure of the Trypanosoma brucei DOT1A histone H3K76 methyltransferase in complex with AdoHcy - C2221 space group

Released:
DOI: 10.2210/pdb8fjn/pdb
PDB entry 8fjn coloured by chain, front view.
PDB entry 8fjn coloured by chain, side view.
PDB entry 8fjn coloured by chain, top view.
Source organism: Trypanosoma brucei brucei
Primary publication:
Two DOT1 enzymes cooperatively mediate efficient ubiquitin-independent histone H3 lysine 76 tri-methylation in kinetoplastids.
Frisbie VS, Hashimoto H, Xie Y, De Luna Vitorino FN, Baeza J, Nguyen T, Yuan Z, Kiselar J, Garcia BA, Debler EW
Nat Commun 15 2467 (2024)
PMID: 38503750

Function and Biology Details

Reaction catalysed: 
(1a) S-adenosyl-L-methionine + a [histone H3]-L-lysine(79) = S-adenosyl-L-homocysteine + a [histone H3]-N(6)-methyl-L-lysine(79)
Biochemical function:
Biological process:
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-239731 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Histone-lysine N-methyltransferase, H3 lysine-79 specific Chain: A
Molecule details ›
Chain: A
Length: 257 amino acids
Theoretical weight: 29.33 KDa
Source organism: Trypanosoma brucei brucei
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q581Z0 (Residues: 43-295; Coverage: 86%)
Gene names: Tb08.26N11.380, Tb927.8.1920
Sequence domains: Histone methylation protein DOT1

Ligands and Environments

4 bound ligands:
Ligand SAH 1 x SAH
Ligand ZN 1 x ZN
Ligand CA 1 x CA
Ligand CL 1 x CL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL9-2
Spacegroup: C2221
Unit cell:
a: 57.842Å b: 59.423Å c: 169.947Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.184 0.182 0.21
Expression system: Escherichia coli BL21(DE3)

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