PDBe 3a1b

X-ray diffraction
2.29Å resolution

Crystal structure of the DNMT3A ADD domain in complex with histone H3

Released:

Function and Biology Details

Reaction catalysed:
S-adenosyl-L-methionine + DNA = S-adenosyl-L-homocysteine + DNA containing 5-methylcytosine
Biochemical function:
Biological process:
Cellular component:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
DNA (cytosine-5)-methyltransferase 3A; Histone H3.1 Chain: A
Molecule details ›
Chain: A
Length: 159 amino acids
Theoretical weight: 18.07 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: NEW Q9Y6K1 (Residues: 476-614; Coverage: 15%)
  • Canonical: NEW P68431 (Residues: 2-21; Coverage: 15%)
  • nullnull
Gene names: DNMT3A, H3FA, H3FB, H3FC, H3FD, H3FF, H3FH, H3FI, H3FJ, H3FK, H3FL, HIST1H3A, HIST1H3B, HIST1H3C, HIST1H3D, HIST1H3E, HIST1H3F, HIST1H3G, HIST1H3H, HIST1H3I, HIST1H3J

Ligands and Environments

2 bound ligands:

No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-5A
Spacegroup: P41212
Unit cell:
a: 68.547Å b: 68.547Å c: 109.95Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.193 0.192 0.224
Expression system: Escherichia coli BL21(DE3)