› 3m56

X-ray diffraction
1.65Å resolution

SET7/9 Y305F in complex with TAF10-K189me2 peptide and AdoHcy

Released:
DOI: 10.2210/pdb3m56/pdb
PDB entry 3m56 coloured by chain, front view.
PDB entry 3m56 coloured by chain, side view.
PDB entry 3m56 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
SET7/9 catalytic mutants reveal the role of active site water molecules in lysine multiple methylation.
Del Rizzo PA, Couture JF, Dirk LM, Strunk BS, Roiko MS, Brunzelle JS, Houtz RL, Trievel RC
J Biol Chem 285 31849-58 (2010)
PMID: 20675860

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:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-171459 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Histone-lysine N-methyltransferase SETD7 Chain: A
Molecule details ›
Chain: A
Length: 261 amino acids
Theoretical weight: 29.03 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q8WTS6 (Residues: 110-366; Coverage: 70%)
Gene names: KIAA1717, KMT7, SET7, SET9, SETD7
Sequence domains:
Structure domains:
Transcription initiation factor TFIID subunit 10 Chain: B
Molecule details ›
Chain: B
Length: 11 amino acids
Theoretical weight: 1.28 KDa
Source organism: Homo sapiens
Expression system: Not provided
UniProt:
  • Canonical: Q12962 (Residues: 186-195; Coverage: 5%)
Gene names: TAF10, TAF2A, TAF2H, TAFII30

Ligands and Environments

1 bound ligand:
Ligand SAH 1 x SAH
1 modified residue:
Ligand MLY 1 x MLY

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 23-ID-D
Spacegroup: P3221
Unit cell:
a: 82.953Å b: 82.953Å c: 95.575Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.194 0.193 0.221
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

5 review citations

Carbon-oxygen hydrogen bonding in biological structure and function.
Horowitz et al. (2012)
4 more

4 mentions without citation

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