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CMT1 chromomethylase 1 [ Arabidopsis thaliana (thale cress) ]

Gene ID: 844413, updated on 15-Oct-2023

Summary

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Gene symbol
CMT1
Gene description
chromomethylase 1
Primary source
Araport:AT1G80740
Locus tag
AT1G80740
See related
TAIR:AT1G80740
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Arabidopsis thaliana (ecotype: Columbia)
Lineage
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Also known as
chromomethylase 1; CHROMOMETHYLASE 1; DMT4; DNA METHYLTRANSFERASE 4; F23A5.9; F23A5_9
Summary
ecotype Kl-0 chromomethylase (CMT1). A plant line expressing an RNAi construct directed against DMT4 has reduced agrobacterium-mediated tumor formation.
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Genomic context

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See CMT1 in Genome Data Viewer
Location:
chromosome: 1
Exon count:
20
Sequence:
Chromosome: 1; NC_003070.9 (30342394..30347048)

Chromosome 1 - NC_003070.9Genomic Context describing neighboring genes Neighboring gene Mitochondrial glycoprotein family protein Neighboring gene zinc-finger protein 1 Neighboring gene Transcription factor TFIIIC, tau55-related protein Neighboring gene Ribosomal protein L30/L7 family protein Neighboring gene NOD26-like intrinsic protein 6;1

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_003070.9

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Inner Envelope CHLOROPLAST MANGANESE TRANSPORTER 1 Supports Manganese Homeostasis and Phototrophic Growth in Arabidopsis. Zhang B, et al. Mol Plant, 2018 Jul 2. PMID 29734003
  2. CMT3 and SUVH4/KYP silence the exonic Evelknievel retroelement to allow for reconstitution of CMT1 mRNA. Yadav NS, et al. Epigenetics Chromatin, 2018 Nov 16. PMID 30446008, Free PMC Article
  3. The Plastid Envelope CHLOROPLAST MANGANESE TRANSPORTER1 Is Essential for Manganese Homeostasis in Arabidopsis. Eisenhut M, et al. Mol Plant, 2018 Jul 2. PMID 29734002
  4. RNAi-mediated gene silencing reveals involvement of Arabidopsis chromatin-related genes in Agrobacterium-mediated root transformation. Crane YM, et al. Proc Natl Acad Sci U S A, 2007 Sep 18. PMID 17827277, Free PMC Article
  5. Sequence and analysis of chromosome 1 of the plant Arabidopsis thaliana. Theologis A, et al. Nature, 2000 Dec 14. PMID 11130712

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. CMT1 is expressed primarily in green tissues, and its encoded product is localized in the inner envelope membrane of the chloroplast. Disruption of CMT1 in the T-DNA insertional mutant cmt1-1 resulted in stunted plant growth, defective thylakoid stacking, and severe reduction of photosystem II complexes and photosynthetic activity.
    Title: Inner Envelope CHLOROPLAST MANGANESE TRANSPORTER 1 Supports Manganese Homeostasis and Phototrophic Growth in Arabidopsis.
  2. The cmt1 mutant is severely suppressed in growth, chloroplast ultrastructure, and PSII activity owing to a decrease in the amounts of pigments and thylakoid membrane proteins. The importance of CMT1 for chloroplast Mn homeostasis is demonstrated by the significant reduction in chloroplast Mn concentrations in cmt1-1, which exhibited reduced Mn binding in PSII complexes.
    Title: The Plastid Envelope CHLOROPLAST MANGANESE TRANSPORTER1 Is Essential for Manganese Homeostasis in Arabidopsis.
  3. The role of Evelknievel retroelement in the reconstitution of CMT1 mRNA.
    Title: CMT3 and SUVH4/KYP silence the exonic Evelknievel retroelement to allow for reconstitution of CMT1 mRNA.
Submit: New GeneRIF Correction

General gene information

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Homology

NM_106722.2

Gene Ontology Provided by TAIR

Function Evidence Code Pubs
enables DNA (cytosine-5-)-methyltransferase activity IEA
Inferred from Electronic Annotation
more info
  
enables chromatin binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within DNA-mediated transformation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
located_in nucleus ISM
Inferred from Sequence Model
more info
  

General protein information

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Preferred Names
chromomethylase 1
NP_565245.1
  • chromomethylase 1 (CMT1); FUNCTIONS IN: chromatin binding, DNA binding; INVOLVED IN: DNA mediated transformation, DNA methylation; LOCATED IN: chromatin, nucleus; CONTAINS InterPro DOMAIN/s: Chromo domain subgroup (InterPro:IPR017984), DNA methylase, C-5 cytosine-specific (InterPro:IPR001525), Chromo domain-like (InterPro:IPR016197), Bromo adjacent homology (BAH) domain (InterPro:IPR001025), Chromo domain (InterPro:IPR000953); BEST Arabidopsis thaliana protein match is: chromomethylase 3 (TAIR:AT1G69770.1); Has 30201 Blast hits to 17322 proteins in 780 species: Archae - 12; Bacteria - 1396; Metazoa - 17338; Fungi - 3422; Plants - 5037; Viruses - 0; Other Eukaryotes - 2996 (source: NCBI BLink).

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

  1. NC_003070.9 Reference assembly

    Range
    30342394..30347048
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_106722.2 → NP_565245.1  chromomethylase 1 [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_565245.1

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    O49137, O49138, O49139, O49141, O50057, O50073, Q38940, Q7G196
    UniProtKB/TrEMBL
    A0A654EQU1
    Conserved Domains (3) summary
    cd04716
    Location:78 → 196
    BAH_plantDCM_I; BAH, or Bromo Adjacent Homology domain, first copy present in DNA (Cytosine-5)-methyltransferases (DCM) from plants. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects ...
    cd18635
    Location:338 → 394
    CD_CMT3_like; chromodomain of chromomethylase 3, and similar proteins
    cl17173
    Location:412 → 760
    AdoMet_MTases; S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). ...
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
O49139.2

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