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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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