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3pt6, resolution 3.00Å ()
Ligands: ,
Gene: Dnmt1, Dnmt, Met1, Uim (Mus musculus)
Activity: DNA (cytosine-5-)-methyltransferase, with EC number
Related: 3pt9, 3pta

Resources: FirstGlance, OCA, PDBsum, RCSB
Coordinates: save as pdb, mmCIF, xml


Crystal structure of mouse DNMT1(650-1602) in complex with DNA

Publication Abstract from PubMed

Maintenance of genomic methylation patterns is mediated primarily by DNA methyltransferase-1 (DNMT1). We have solved structures of mouse DNMT1 composed of CXXC, tandem bromo-adjacent homology (BAH1/2) and methyltransferase domains bound to DNA containing unmethylated CpG sites. The CXXC specifically binds to unmethylated CpG dinucleotide and positions the CXXC-BAH1 linker between the DNA and the active site of DNMT1, thereby preventing de novo methylation. In addition, a loop projecting from BAH2 interacts with the target recognition domain (TRD) of the methyltransferase, stabilizing the TRD in a retracted position, and preventing it from inserting into the DNA major groove. Our studies identify an autoinhibitory mechanism, whereby occlusion of unmethylated CpG dinucleotides from de novo methylation ensures that only hemimethylated CpG dinucleotides gain access to the active site.

Structure of DNMT1-DNA Complex Reveals a Role for Autoinhibition in Maintenance DNA Methylation., Song J, Rechkoblit O, Bestor TH, Patel DJ, Science. 2010 Dec 16. PMID:21163962

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

About this Structure

3pt6 is a 6 chain structure with sequence from Mus musculus. The July 2011 RCSB PDB Molecule of the Month feature on DNA Methylases by David Goodsell is 10.2210/rcsb_pdb/mom_2011_7. Full crystallographic information is available from OCA.

See Also


  • Song J, Rechkoblit O, Bestor TH, Patel DJ. Structure of DNMT1-DNA Complex Reveals a Role for Autoinhibition in Maintenance DNA Methylation. Science. 2010 Dec 16. PMID:21163962 doi:10.1126/science.1195380

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