› 3llr

X-ray diffraction
2.3Å resolution

Crystal structure of the PWWP domain of Human DNA (cytosine-5-)-methyltransferase 3 alpha

Released:
DOI: 10.2210/pdb3llr/pdb
PDB entry 3llr coloured by chain, front view.
PDB entry 3llr coloured by chain, side view.
PDB entry 3llr coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural and histone binding ability characterizations of human PWWP domains.
Wu H, Zeng H, Lam R, Tempel W, Amaya MF, Xu C, Dombrovski L, Qiu W, Wang Y, Min J
PLoS One 6 e18919 (2011)
PMID: 21720545

Function and Biology Details

Reaction catalysed: 
S-adenosyl-L-methionine + DNA = S-adenosyl-L-homocysteine + DNA containing 5-methylcytosine
Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domain:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-195368 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
DNA (cytosine-5)-methyltransferase 3A Chains: A, B, C, D, E
Molecule details ›
Chains: A, B, C, D, E
Length: 154 amino acids
Theoretical weight: 17.26 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9Y6K1 (Residues: 275-427; Coverage: 17%)
Gene name: DNMT3A
Sequence domains: PWWP domain
Structure domains:

Ligands and Environments

2 bound ligands:
Ligand BTB 5 x BTB
Ligand SO4 1 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: CLSI BEAMLINE 08ID-1
Spacegroup: P21
Unit cell:
a: 67.11Å b: 83.99Å c: 74.59Å
α: 90° β: 90.48° γ: 90°
R-values:
R R work R free
0.218 0.216 0.256
Expression system: Escherichia coli

Quick links

Citations

25 review citations

Perceiving the epigenetic landscape through histone readers.
Musselman et al. (2012)
24 more

9 mentions without citation

Structural Basis of DNMT1 and DNMT3A-Mediated DNA Methylation.
Ren et al. (2018)
8 more