› 4l58

X-ray diffraction
1.48Å resolution

Crystal structure of the MLL5 PHD finger in complex with H3K4me3

Released:
DOI: 10.2210/pdb4l58/pdb
PDB entry 4l58 coloured by chain, front view.
PDB entry 4l58 coloured by chain, side view.
PDB entry 4l58 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Molecular basis for chromatin binding and regulation of MLL5.
Ali M, Rincón-Arano H, Zhao W, Rothbart SB, Tong Q, Parkhurst SM, Strahl BD, Deng LW, Groudine M, Kutateladze TG
Proc Natl Acad Sci U S A 110 11296-301 (2013)
PMID: 23798402

Function and Biology Details

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-160862 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Inactive histone-lysine N-methyltransferase 2E Chain: A
Molecule details ›
Chain: A
Length: 69 amino acids
Theoretical weight: 8.19 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q8IZD2 (Residues: 117-181; Coverage: 4%)
Gene names: KMT2E, MLL5
Sequence domains: PhD finger domain
Structure domains: Zinc/RING finger domain, C3HC4 (zinc finger)
Histone H3.3 Chain: B
Molecule details ›
Chain: B
Length: 12 amino acids
Theoretical weight: 1.35 KDa
Source organism: Homo sapiens
Expression system: Not provided
UniProt:
  • Canonical: P84243 (Residues: 2-13; Coverage: 9%)
Gene names: H3-3A, H3-3B, H3.3A, H3.3B, H3F3, H3F3A, H3F3B, PP781

Ligands and Environments

1 bound ligand:
Ligand ZN 2 x ZN
1 modified residue:
Ligand M3L 1 x M3L

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 4.2.2
Spacegroup: P212121
Unit cell:
a: 31.286Å b: 43.638Å c: 52.856Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.126 0.125 0.14
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

10 review citations

Interpreting the language of histone and DNA modifications.
Rothbart et al. (2014)
9 more

7 mentions without citation

Diverse functions of PHD fingers of the MLL/KMT2 subfamily.
Ali et al. (2014)
6 more