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    EMB2820 Cytidine/deoxycytidylate deaminase family protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 832539, updated on 18-Sep-2024

    Summary

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    Official Symbol
    EMB2820
    Official Full Name
    Cytidine/deoxycytidylate deaminase family protein
    Primary source
    TAIR:AT5G24670
    Locus tag
    AT5G24670
    See related
    Araport:AT5G24670
    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
    AtTAD3; EMBRYO DEFECTIVE 2820; MXC17.5; MXC17_5; TAD3; tRNA adenosine deaminase 3
    Summary
    A protein coding gene with unknown function. The 5?UTR of this gene overlaps with a RNA coding gene TER2. TER2 (GenBank accession no. HQ401285) encodes a putative template sequence corresponding to 1.5 copies of the Arabidopsis telomere repeat (PNAS 2011, 108:73-78).
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    Genomic context

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    See EMB2820 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    12
    Sequence:
    Chromosome: 5; NC_003076.8 (8447378..8451569)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene response to low sulfur 4 Neighboring gene response to low sulfur 2 Neighboring gene Peptidase C78, ubiquitin fold modifier-specific peptidase 1/ 2 Neighboring gene plant/protein, putative (DUF3411) Neighboring gene Transducin/WD40 repeat-like superfamily protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003076.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. tRNA ADENOSINE DEAMINASE 3 is required for telomere maintenance in Arabidopsis thaliana. Bose S, et al. Plant Cell Rep, 2020 Dec. PMID 32959123, Free PMC Article
    2. Identification of enzymes for adenosine-to-inosine editing and discovery of cytidine-to-uridine editing in nucleus-encoded transfer RNAs of Arabidopsis. Zhou W, et al. Plant Physiol, 2014 Dec. PMID 25315605, Free PMC Article
    3. Sequence and analysis of chromosome 5 of the plant Arabidopsis thaliana. Tabata S, et al. Nature, 2000 Dec 14. PMID 11130714

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. tRNA ADENOSINE DEAMINASE 3 is required for telomere maintenance in Arabidopsis thaliana.
      Title: tRNA ADENOSINE DEAMINASE 3 is required for telomere maintenance in Arabidopsis thaliana.
    2. Knockdown mutants for AtTAD2 and AtTAD3 display reduced growth and inefficient editing from adenosine to inosine in six nucleus-encoded tRNA species. [AtTAD3]
      Title: Identification of enzymes for adenosine-to-inosine editing and discovery of cytidine-to-uridine editing in nucleus-encoded transfer RNAs of Arabidopsis.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    NM_001203457.2
    NM_001343891.1
    NM_001343892.1
    NM_001343893.1
    NM_122376.4

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables tRNA-specific adenosine deaminase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables tRNA-specific adenosine deaminase activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in tRNA modification IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in tRNA wobble adenosine to inosine editing IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    Cytidine/deoxycytidylate deaminase family protein
    NP_001318639.1
    • Cytidine/deoxycytidylate deaminase family protein; FUNCTIONS IN: hydrolase activity, catalytic activity, zinc ion binding; INVOLVED IN: biological_process unknown; LOCATED IN: cellular_component unknown; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: CMP/dCMP deaminase, zinc-binding (InterPro:IPR002125), Cytidine deaminase-like (InterPro:IPR016193); Has 3111 Blast hits to 3096 proteins in 1409 species: Archae - 0; Bacteria - 2358; Metazoa - 102; Fungi - 142; Plants - 42; Viruses - 0; Other Eukaryotes - 467 (source: NCBI BLink).
    NP_001318640.1
    • Cytidine/deoxycytidylate deaminase family protein; FUNCTIONS IN: hydrolase activity, zinc ion binding, catalytic activity; INVOLVED IN: biological_process unknown; LOCATED IN: cellular_component unknown; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: CMP/dCMP deaminase, zinc-binding (InterPro:IPR002125), Cytidine deaminase-like (InterPro:IPR016193).

    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_003076.8 Reference assembly

      Range
      8447378..8451569
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001343891.1 → NP_001318639.1  Cytidine/deoxycytidylate deaminase family protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      F4KH86, Q0WRI1, Q5XF54, Q9FIR8
      UniProtKB/TrEMBL
      A0A178UPX8, A0A654G3U6
      Conserved Domains (1) summary
      cl00269
      Location:321 → 397
      cytidine_deaminase-like; Cytidine and deoxycytidylate deaminase zinc-binding region. The family contains cytidine deaminases, nucleoside deaminases, deoxycytidylate deaminases and riboflavin deaminases. Also included are the apoBec family of mRNA editing enzymes. All members ...

    2. NM_122376.4 → NP_197855.3  Cytidine/deoxycytidylate deaminase family protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_197855.3

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      F4KH86, Q0WRI1, Q5XF54, Q9FIR8
      UniProtKB/TrEMBL
      A0A178UPX8, A0A654G3U6
      Conserved Domains (1) summary
      cl00269
      Location:321 → 397
      cytidine_deaminase-like; Cytidine and deoxycytidylate deaminase zinc-binding region. The family contains cytidine deaminases, nucleoside deaminases, deoxycytidylate deaminases and riboflavin deaminases. Also included are the apoBec family of mRNA editing enzymes. All members ...

    3. NM_001343892.1 → NP_001318640.1  Cytidine/deoxycytidylate deaminase family protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178UPX8, F4KH85

    4. NM_001343893.1 → NP_001330739.1  Cytidine/deoxycytidylate deaminase family protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      F4KH86, Q0WRI1, Q5XF54, Q9FIR8
      UniProtKB/TrEMBL
      A0A178UPX8, A0A654G3U6
      Conserved Domains (1) summary
      cl00269
      Location:321 → 397
      cytidine_deaminase-like; Cytidine and deoxycytidylate deaminase zinc-binding region. The family contains cytidine deaminases, nucleoside deaminases, deoxycytidylate deaminases and riboflavin deaminases. Also included are the apoBec family of mRNA editing enzymes. All members ...

    5. NM_001203457.2 → NP_001190386.1  Cytidine/deoxycytidylate deaminase family protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001190386.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178UPX8, F4KH85
      Conserved Domains (1) summary
      COG0590
      Location:325 → 401
      TadA; tRNA(Arg) A34 adenosine deaminase TadA [Translation, ribosomal structure and biogenesis]
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    F4KH86.1

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