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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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