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    SKP2B RNI-like superfamily protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 844036, updated on 18-Sep-2024

    Summary

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    Official Symbol
    SKP2B
    Official Full Name
    RNI-like superfamily protein
    Primary source
    TAIR:AT1G77000
    Locus tag
    AT1G77000
    See related
    Araport:AT1G77000
    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
    ARABIDOPSIS HOMOLOG OF HOMOLOG OF HUMAN SKP2 2; ATSKP2;2; F22K20.10; F22K20_10
    Summary
    AtSKP2;2 is a homolog of human SKP2, the human F-box protein that recruits E2F1. Contains an F-box motif at the N-terminal region and a C-terminal Leu-rich repeat domain. Forms part of an E3-ubiquitin-ligase SCF (Skp1, cullin, F-box) complex and recruits phosphorylated AtE2Fc, a transcriptional factor that might play a role in cell division and during the transition from skotomorphogenesis to photomorphogenesis. AtSKP2;1 (At1g21410) and AtSKP2;2 (At1g77000) may be duplicated genes. AtSKP2b may also be involved in the degradation of KRP1/ICK1, a CDK inhibitor.
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    Genomic context

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    See SKP2B in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    5
    Sequence:
    Chromosome: 1; NC_003070.9 (28940147..28942639)

    Chromosome 1 - NC_003070.9Genomic Context describing neighboring genes Neighboring gene ACT domain repeat 3 Neighboring gene miscRNA Neighboring gene uncharacterized protein Neighboring gene Pentatricopeptide repeat (PPR) superfamily protein Neighboring gene DNAJ heat shock N-terminal domain-containing protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003070.9

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Auxin and epigenetic regulation of SKP2B, an F-box that represses lateral root formation. Manzano C, et al. Plant Physiol, 2012 Oct. PMID 22837358, Free PMC Article
    2. Degradation of the cyclin-dependent kinase inhibitor KRP1 is regulated by two different ubiquitin E3 ligases. Ren H, et al. Plant J, 2008 Mar. PMID 18005227
    3. Arabidopsis E2Fc functions in cell division and is degraded by the ubiquitin-SCF(AtSKP2) pathway in response to light. del Pozo JC, et al. Plant Cell, 2002 Dec. PMID 12468727, Free PMC Article
    4. Gene expression profiles during heat acclimation in Arabidopsis thaliana suspension-culture cells. Lim CJ, et al. J Plant Res, 2006 Jul. PMID 16807682
    5. F-box proteins in Arabidopsis. Xiao W, et al. Trends Plant Sci, 2000 Nov. PMID 11077244

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. SKP2B negatively regulates cell cycle and lateral root formation.
      Title: Auxin and epigenetic regulation of SKP2B, an F-box that represses lateral root formation.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    NM_001198486.2
    NM_001334757.1
    NM_001334758.1
    NM_106351.4

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within heat acclimation IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    acts_upstream_of_or_within negative regulation of lateral root development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within proteolysis involved in protein catabolic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within ubiquitin-dependent protein catabolic process TAS
    Traceable Author Statement
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    RNI-like superfamily protein
    NP_001185415.1
    • SKP2B; CONTAINS InterPro DOMAIN/s: F-box domain, cyclin-like (InterPro:IPR001810), Leucine-rich repeat, cysteine-containing subtype (InterPro:IPR006553), Leucine-rich repeat (InterPro:IPR001611); BEST Arabidopsis thaliana protein match is: F-box/RNI-like superfamily protein (TAIR:AT1G21410.1).
    NP_565147.1
    • SKP2B; CONTAINS InterPro DOMAIN/s: F-box domain, cyclin-like (InterPro:IPR001810), Leucine-rich repeat, cysteine-containing subtype (InterPro:IPR006553), Leucine-rich repeat (InterPro:IPR001611); BEST Arabidopsis thaliana protein match is: F-box/RNI-like superfamily protein (TAIR:AT1G21410.1); Has 9510 Blast hits to 4016 proteins in 276 species: Archae - 0; Bacteria - 549; Metazoa - 3688; Fungi - 1101; Plants - 3231; Viruses - 6; Other Eukaryotes - 935 (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_003070.9 Reference assembly

      Range
      28940147..28942639
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001198486.2 → NP_001185415.1  RNI-like superfamily protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001185415.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      O49286, Q680E2, Q8GY48
      UniProtKB/TrEMBL
      A0A178WNL6, A0A5S9WV22
      Conserved Domains (3) summary
      cd09293
      Location:115 → 264
      AMN1; Antagonist of mitotic exit network protein 1
      sd00034
      Location:66 → 91
      LRR_AMN1; leucine-rich repeat [structural motif]
      pfam00646
      Location:28 → 63
      F-box; F-box domain

    2. NM_001334757.1 → NP_001322101.1  RNI-like superfamily protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1P8AT24
      Conserved Domains (2) summary
      cd09293
      Location:65 → 239
      AMN1; Antagonist of mitotic exit network protein 1
      sd00034
      Location:66 → 91
      LRR_AMN1; leucine-rich repeat [structural motif]

    3. NM_001334758.1 → NP_001322102.1  RNI-like superfamily protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1P8AT24
      Conserved Domains (2) summary
      cd09293
      Location:65 → 239
      AMN1; Antagonist of mitotic exit network protein 1
      sd00034
      Location:66 → 91
      LRR_AMN1; leucine-rich repeat [structural motif]

    4. NM_106351.4 → NP_565147.1  RNI-like superfamily protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_565147.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      O49286, Q680E2, Q8GY48
      UniProtKB/TrEMBL
      A0A178WNL6, A0A5S9WV22
      Conserved Domains (3) summary
      cd09293
      Location:115 → 264
      AMN1; Antagonist of mitotic exit network protein 1
      sd00034
      Location:66 → 91
      LRR_AMN1; leucine-rich repeat [structural motif]
      pfam00646
      Location:28 → 63
      F-box; F-box domain
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    O49286.1

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