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    SIG4 sigma factor 4 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 831218, updated on 18-Sep-2024

    Summary

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    Official Symbol
    SIG4
    Official Full Name
    sigma factor 4
    Primary source
    TAIR:AT5G13730
    Locus tag
    AT5G13730
    See related
    Araport:AT5G13730
    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
    MSH12.20; MSH12_20; SIGD; sigma factor 4
    Summary
    Encodes sigma 4 factor, involved in regulating the activity of the plastid-encoded RNA polymerase PEP. Regulates the overall quantity of NDH complexes and thus influences NDH activity.
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    Genomic context

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    See SIG4 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    4
    Sequence:
    Chromosome: 5; NC_003076.8 (4429095..4430901, complement)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene alpha-N-acetylglucosaminidase family / NAGLU family Neighboring gene polyamine oxidase 1 Neighboring gene sterol methyltransferase 1 Neighboring gene Uncharacterized protein family (UPF0114) Neighboring gene zinc induced facilitator 1 Neighboring gene zinc induced facilitator-like 1

    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. Specific function of a plastid sigma factor for ndhF gene transcription. Favory JJ, et al. Nucleic Acids Res, 2005. PMID 16243785, Free PMC Article
    2. Three new nuclear genes, sigD, sigE and sigF, encoding putative plastid RNA polymerase sigma factors in Aarabidopsis thaliana. Fujiwara M, et al. FEBS Lett, 2000 Sep 8. PMID 10984613
    3. Blue light specific and differential expression of a plastid sigma factor, Sig5 in Arabidopsis thaliana. Tsunoyama Y, et al. FEBS Lett, 2002 Apr 10. PMID 11959137
    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 5 of the plant Arabidopsis thaliana. Tabata S, et al. Nature, 2000 Dec 14. PMID 11130714

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    NM_121376.4

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables sigma factor activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    enables sigma factor activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in DNA-templated transcription initiation ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    acts_upstream_of_or_within DNA-templated transcription initiation TAS
    Traceable Author Statement
    more info
    		 PubMed 
    involved_in cellular response to light stimulus IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in regulation of RNA biosynthetic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in chloroplast ISM
    Inferred from Sequence Model
    more info
    		  
    located_in chloroplast ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

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    Preferred Names
    sigma factor 4
    NP_196877.1
    • sigma factor 4 (SIG4); FUNCTIONS IN: DNA-directed RNA polymerase activity, sigma factor activity, DNA binding, sequence-specific DNA binding transcription factor activity; INVOLVED IN: regulation of transcription, DNA-dependent, transcription initiation; LOCATED IN: chloroplast; EXPRESSED IN: 20 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: RNA polymerase sigma factor, region 2 (InterPro:IPR013325), Winged helix-turn-helix transcription repressor DNA-binding (InterPro:IPR011991), RNA polymerase sigma-70 region 3 (InterPro:IPR007624), RNA polymerase sigma-70 (InterPro:IPR014284), RNA polymerase sigma factor, region 3/4 (InterPro:IPR013324), RNA polymerase sigma-70 factor (InterPro:IPR000943), RNA polymerase sigma-70 region 2 (InterPro:IPR007627), RNA polymerase sigma-70 region 4 (InterPro:IPR007630); BEST Arabidopsis thaliana protein match is: RNApolymerase sigma subunit 2 (TAIR:AT1G08540.1); Has 1807 Blast hits to 1807 proteins in 277 species: Archae - 0; Bacteria - 0; Metazoa - 736; Fungi - 347; Plants - 385; Viruses - 0; Other Eukaryotes - 339 (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_003076.8 Reference assembly

      Range
      4429095..4430901 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_121376.4 → NP_196877.1  sigma factor 4 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_196877.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q9SXP8, Q9ZSL6
      UniProtKB/TrEMBL
      A0A178U7C2, A0A5S9Y4P4
      Conserved Domains (1) summary
      TIGR02997
      Location:158 → 403
      Sig70-cyanoRpoD; RNA polymerase sigma factor, cyanobacterial RpoD-like family
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9ZSL6.1

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