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    CSDP1 cold shock domain protein 1 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 829758, updated on 18-Sep-2024

    Summary

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    Official Symbol
    CSDP1
    Official Full Name
    cold shock domain protein 1
    Primary source
    TAIR:AT4G36020
    Locus tag
    AT4G36020
    See related
    Araport:AT4G36020
    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
    AtCSP1; cold shock domain protein 1; cold shock protein 1; CSP1; T19K4.150; T19K4_150
    Summary
    Encodes a cold shock domain protein. Involved in cold acclimation by blocking the secondary structure of mRNA which in turn facilitates translation at cold temperature.
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    Genomic context

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    See CSDP1 in Genome Data Viewer
    Location:
    chromosome: 4
    Exon count:
    2
    Sequence:
    Chromosome: 4; NC_003075.7 (17042769..17044599, complement)

    Chromosome 4 - NC_003075.7Genomic Context describing neighboring genes Neighboring gene Pathogenesis-related thaumatin superfamily protein Neighboring gene Pathogenesis-related thaumatin superfamily protein Neighboring gene ncRNA Neighboring gene armadillo repeat only 3 Neighboring gene Chaperone DnaJ-domain superfamily protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003075.7

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. AtCSP1 regulates germination timing promoted by low temperature. Yang Y, et al. FEBS Lett, 2013 Jul 11. PMID 23732703
    2. Cold shock protein 1 chaperones mRNAs during translation in Arabidopsis thaliana. Juntawong P, et al. Plant J, 2013 Jun. PMID 23551487
    3. Cold shock domain proteins affect seed germination and growth of Arabidopsis thaliana under abiotic stress conditions. Park SJ, et al. Plant Cell Physiol, 2009 Apr. PMID 19258348
    4. Conservation of the cold shock domain protein family in plants. Karlson D, et al. Plant Physiol, 2003 Jan. PMID 12529510, Free PMC Article
    5. Cold shock domain proteins and glycine-rich RNA-binding proteins from Arabidopsis thaliana can promote the cold adaptation process in Escherichia coli. Kim JS, et al. Nucleic Acids Res, 2007. PMID 17169986, Free PMC Article

    See all (12) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. CSP1 selectively chaperones mRNAs, providing translational enhancement during stress.
      Title: Cold shock protein 1 chaperones mRNAs during translation in Arabidopsis thaliana.
    2. AtCSP1 affects early stages of seed germination subsequent to stratification treatment of seeds.
      Title: AtCSP1 regulates germination timing promoted by low temperature.
    3. CSDP1 overexpression delayed the seed germination of Arabidopsis under dehydration or salt stress.
      Title: Cold shock domain proteins affect seed germination and growth of Arabidopsis thaliana under abiotic stress conditions.
    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_001342395.1
    NM_119769.4

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables RNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables double-stranded DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables mRNA binding HDA PubMed 
    enables mRNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables single-stranded DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within DNA duplex unwinding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within RNA secondary structure unwinding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in cold acclimation IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in response to cold IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    acts_upstream_of_or_within response to cold IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in response to salt stress IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in response to water deprivation IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in plasma membrane HDA PubMed 

    General protein information

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    Preferred Names
    cold shock domain protein 1
    NP_001320149.1
    • cold shock domain protein 1 (CSDP1); CONTAINS InterPro DOMAIN/s: Nucleic acid-binding, OB-fold (InterPro:IPR012340), Cold-shock conserved site (InterPro:IPR019844), Zinc finger, CCHC retroviral-type (InterPro:IPR013084), Cold shock protein (InterPro:IPR011129), Nucleic acid-binding, OB-fold-like (InterPro:IPR016027), Zinc finger, CCHC-type (InterPro:IPR001878), Cold-shock protein, DNA-binding (InterPro:IPR002059); BEST Arabidopsis thaliana protein match is: cold shock domain protein 3 (TAIR:AT2G17870.1); Has 93964 Blast hits to 39618 proteins in 2725 species: Archae - 55; Bacteria - 19157; Metazoa - 4501; Fungi - 1919; Plants - 2885; Viruses - 60267; Other Eukaryotes - 5180 (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_003075.7 Reference assembly

      Range
      17042769..17044599 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001342396.1 → NP_001329650.1  cold shock domain protein 1 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1P8B8F3

    2. NM_001342395.1 → NP_001320149.1  cold shock domain protein 1 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      O65639
      UniProtKB/TrEMBL
      A0A178UVZ7, A0A654FVY1

    3. NM_119769.4 → NP_195326.1  cold shock domain protein 1 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_195326.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      O65639
      UniProtKB/TrEMBL
      A0A178UVZ7, A0A654FVY1
      Conserved Domains (2) summary
      PTZ00368
      Location:134 → 297
      PTZ00368; universal minicircle sequence binding protein (UMSBP); Provisional
      pfam00313
      Location:12 → 77
      CSD; 'Cold-shock' DNA-binding domain
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    O65639.1

    Gene LinkOut

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