› 7u5v

X-ray diffraction
2.59Å resolution

Crystal structure of the Mixed Lineage Leukaemia (MLL1) SET Domain with the cofactor product S-Adenosylhomocysteine and Borealin peptide

Released:
DOI: 10.2210/pdb7u5v/pdb
Model geometry
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PDB entry 7u5v coloured by chain, front view.
PDB entry 7u5v coloured by chain, side view.
PDB entry 7u5v coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Non-canonical MLL1 activity regulates centromeric phase separation and genome stability.
Sha L, Yang Z, An S, Yang W, Kim S, Oh H, Xu J, Yin J, Wang H, Lenz HJ, An W, Cho US, Dou Y
Nat Cell Biol 25 1637-1649 (2023)
PMID: 37945831

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-230338 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
MLL cleavage product C180 Chain: A
Molecule details ›
Chain: A
Length: 159 amino acids
Theoretical weight: 18 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q03164 (Residues: 3811-3969; Coverage: 4%)
Gene names: ALL1, CXXC7, HRX, HTRX, KMT2A, MLL, MLL1, TRX1
Sequence domains: SET domain
Borealin Chain: C
Molecule details ›
Chain: C
Length: 9 amino acids
Theoretical weight: 1.09 KDa
Source organism: Homo sapiens
Expression system: Not provided
UniProt:
  • Canonical: Q53HL2 (Residues: 137-145; Coverage: 3%)
Gene names: CDCA8, PESCRG3

Ligands and Environments

2 bound ligands:
Ligand ZN 1 x ZN
Ligand SAH 1 x SAH
1 modified residue:
Ligand MLZ 1 x MLZ

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: APS BEAMLINE 21-ID-D
Spacegroup: P3221
Unit cell:
a: 54.48Å b: 54.48Å c: 105.63Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.248 0.248 0.304
Expression systems:
  • Escherichia coli
  • Not provided

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