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TitleStructural insights into plant DNA CG methylation maintenance by MET1.
Journal, issue, pagesPlant Cell, Vol. 37, Issue 11, Year 2025
Publish dateOct 31, 2025
AuthorsZhihui Zhang / Wentao Li / Yue Liu / Cheng Chi / Jing Nan / Changshi Wang / Yongkun Zhu / Jun Zhao / Yan Xue / Yong Li / Peiyi Wang / Jixian Zhai / Jiamu Du /
PubMed AbstractDNA methylation plays critical roles in eukaryotic gene silencing, genome defense, and the suppression of transposable elements. During DNA replication, DNA methylation is diluted and must therefore ...DNA methylation plays critical roles in eukaryotic gene silencing, genome defense, and the suppression of transposable elements. During DNA replication, DNA methylation is diluted and must therefore be restored through maintenance DNA methylation. In plants, in addition to symmetric CG methylation, non-CG methylation is also abundant, with the maintenance of each DNA methylation pattern employing different pathways. Here, we investigate the molecular basis of CG maintenance methylation by plant METHYLTRANSFERASE 1 (MET1), an ortholog of mammalian DNA Methyltransferase 1 (DNMT1). The cryogenic electron microscopy structure of full-length Arabidopsis (Arabidopsis thaliana) MET1 reveals a unique autoinhibitory mechanism that is distinct from that of DNMT1. The structure of the MET1 catalytic domain in complex with hemimethylated substrate DNA suggests specific recognition of hemimethylated CG DNA and reveals the catalytic mechanism. Overall, our study illuminates the molecular basis of MET1 autoinhibition and its preference for hemimethylated DNA substrates.
External linksPlant Cell / PubMed:41082561
MethodsEM (single particle)
Resolution2.34 - 2.92 Å
Structure data

64781

9v4o

EMDB-64781, PDB-9v4o:
Cryo-EM structure of A. thaliana MET1 with bound SAH
Method: EM (single particle) / Resolution: 2.92 Å

64782

9v4p

EMDB-64782, PDB-9v4p:
Cryo-EM structure of A. thaliana MET1(610-1534) bound covalently to a hemi-mCpG DNA
Method: EM (single particle) / Resolution: 2.34 Å

Chemicals

ChemComp-SAH:
S-ADENOSYL-L-HOMOCYSTEINE

ChemComp-ZN:
Unknown entry

ChemComp-HOH:
WATER

Source
  • arabidopsis thaliana (thale cress)
  • synthetic construct (others)
KeywordsGENE REGULATION / DNA methylation / covalent AtMET1-DNA complex / Cryo-EM structure / epigenetic regulation / GENE REGULATION/DNA / MET1 / GENE REGULATION-DNA complex

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