› 2w5z

X-ray diffraction
2.2Å resolution

Ternary Complex of the Mixed Lineage Leukaemia (MLL1) SET Domain with the cofactor product S-Adenosylhomocysteine and histone peptide.

Released:
DOI: 10.2210/pdb2w5z/pdb
PDB entry 2w5z coloured by chain, front view.
PDB entry 2w5z coloured by chain, side view.
PDB entry 2w5z coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural basis for the requirement of additional factors for MLL1 SET domain activity and recognition of epigenetic marks.
Southall SM, Wong PS, Odho Z, Roe SM, Wilson JR
Mol Cell 33 181-91 (2009)
PMID: 19187761

Function and Biology Details

Reaction catalysed: 
S-adenosyl-L-methionine + a [histone H3]-L-lysine(4) = S-adenosyl-L-homocysteine + a [histone H3]-N(6)-methyl-L-lysine(4)
Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-159467 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
MLL cleavage product C180 Chain: A
Molecule details ›
Chain: A
Length: 192 amino acids
Theoretical weight: 22.18 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q03164 (Residues: 3785-3969; Coverage: 5%)
Gene names: ALL1, CXXC7, HRX, HTRX, KMT2A, MLL, MLL1, TRX1
Sequence domains: SET domain
Structure domains: SET domain
Histone H3.1 Chain: C
Molecule details ›
Chain: C
Length: 9 amino acids
Theoretical weight: 1.12 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P68433 (Residues: 2-9; Coverage: 6%)
Gene names: H3.1-221, H3.1-291, H3.1-I, H3a, H3c1, H3c10, H3c11, H3c8, H3g, H3h, H3i, Hist1h3a, Hist1h3g, Hist1h3h, Hist1h3i

Ligands and Environments


Cofactor: Ligand SAH 1 x SAH
2 bound ligands:
Ligand ZN 1 x ZN
Ligand GOL 2 x GOL
1 modified residue:
Ligand MLY 1 x MLY

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I03
Spacegroup: P212121
Unit cell:
a: 48.95Å b: 56.55Å c: 78.41Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.197 0.194 0.247
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

39 review citations

The molecular biology of mixed lineage leukemia.
Slany RK. (2009)
38 more

26 mentions without citation

Histone lysine methylation dynamics: establishment, regulation, and biological impact.
Black et al. (2012)
25 more