U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    zinc finger (CCCH-type) family protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 817393, updated on 18-Sep-2024

    Summary

    Go to the top of the page Help
    Official Full Name
    zinc finger (CCCH-type) family protein
    Primary source
    TAIR:AT2G28450
    Locus tag
    AT2G28450
    See related
    Araport:AT2G28450
    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
    T1B3.3; T1B3_3
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    Location:
    chromosome: 2
    Exon count:
    13
    Sequence:
    Chromosome: 2; NC_003071.7 (12162051..12166039, complement)

    Chromosome 2 - NC_003071.7Genomic Context describing neighboring genes Neighboring gene zinc finger, C3HC4 type family protein Neighboring gene proline-rich family protein Neighboring gene Cysteine/Histidine-rich C1 domain family protein Neighboring gene beta-galactosidase 8 Neighboring gene RNA-binding CRS1 / YhbY (CRM) domain protein

    Genomic regions, transcripts, and products

    Go to the top of the page Help
    Genomic Sequence:
    NC_003071.7

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Pyrimidine catabolism is required to prevent the accumulation of 5-methyluridine in RNA. Gao S, et al. Nucleic Acids Res, 2023 Aug 11. PMID 37334828, Free PMC Article
    2. Targeted interactomics reveals a complex core cell cycle machinery in Arabidopsis thaliana. Van Leene J, et al. Mol Syst Biol, 2010 Aug 10. PMID 20706207, Free PMC Article
    3. An Arabidopsis gene regulatory network for secondary cell wall synthesis. Taylor-Teeples M, et al. Nature, 2015 Jan 29. PMID 25533953, Free PMC Article
    4. CrY2H-seq: a massively multiplexed assay for deep-coverage interactome mapping. Wanamaker SA, et al. Nat Methods, 2017 Aug. PMID 28650476, Free PMC Article
    5. Sequence and analysis of chromosome 2 of the plant Arabidopsis thaliana. Lin X, et al. Nature, 1999 Dec 16. PMID 10617197

    GeneRIFs: Gene References Into Functions

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help
    NM_001202694.1

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables RNA methyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA methyltransferase activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    enables transcription cis-regulatory region binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in RNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    zinc finger (CCCH-type) family protein
    NP_001189623.1
    • zinc finger (CCCH-type) family protein; FUNCTIONS IN: zinc ion binding, RNA methyltransferase activity, nucleic acid binding; INVOLVED IN: RNA processing; LOCATED IN: cellular_component unknown; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Zinc finger, CCCH-type (InterPro:IPR000571), (Uracil-5)-methyltransferase (InterPro:IPR010280); BEST Arabidopsis thaliana protein match is: RNA methyltransferase family protein (TAIR:AT3G21300.1).
    NP_180412.2
    • zinc finger (CCCH-type) family protein; FUNCTIONS IN: zinc ion binding, RNA methyltransferase activity, nucleic acid binding; INVOLVED IN: acetate biosynthetic process from carbon monoxide, methanol oxidation, RNA processing; LOCATED IN: cellular_component unknown; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Zinc finger, CCCH-type (InterPro:IPR000571), (Uracil-5)-methyltransferase (InterPro:IPR010280); BEST Arabidopsis thaliana protein match is: RNA methyltransferase family protein (TAIR:AT3G21300.1); Has 8231 Blast hits to 7095 proteins in 1964 species: Archae - 111; Bacteria - 7000; Metazoa - 343; Fungi - 116; Plants - 121; Viruses - 4; Other Eukaryotes - 536 (source: NCBI BLink).

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    Genome Annotation

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

    Reference assembly

    Genomic

    1. NC_003071.7 Reference assembly

      Range
      12162051..12166039 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_128405.3 → NP_180412.2  zinc finger (CCCH-type) family protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_180412.2

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q8L7S3, Q9SKM5
      UniProtKB/TrEMBL
      A0A178VUA7, A0A5S9X223
      Conserved Domains (4) summary
      COG2265
      Location:265 → 802
      TrmA; tRNA/tmRNA/rRNA uracil-C5-methylase, TrmA/RlmC/RlmD family [Translation, ribosomal structure and biogenesis]
      pfam00642
      Location:80 → 106
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
      cl17169
      Location:185 → 228
      RRM_SF; RNA recognition motif (RRM) superfamily
      cl17173
      Location:512 → 809
      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). ...

    2. NM_001202694.1 → NP_001189623.1  zinc finger (CCCH-type) family protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001189623.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178VUA7, A0A5S9X223, F4IIP9
      Conserved Domains (4) summary
      COG2265
      Location:265 → 797
      TrmA; tRNA/tmRNA/rRNA uracil-C5-methylase, TrmA/RlmC/RlmD family [Translation, ribosomal structure and biogenesis]
      pfam00642
      Location:80 → 106
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
      cl17169
      Location:185 → 228
      RRM_SF; RNA recognition motif (RRM) superfamily
      cl17173
      Location:512 → 804
      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
    Q8L7S3.1

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Molecular Biology Databases
    Research Materials
    Tools