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Protein

Skp1-related protein

Gene

skr-1

Organism
Caenorhabditis elegans
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Probable essential component of SCF (SKP1-CUL1-F-box protein) E3 ubiquitin-protein ligase complexes, which mediate the ubiquitination and subsequent proteasomal degradation of target proteins (PubMed:17626846). Regulates cell proliferation during embryonic and larval development (PubMed:11864567, PubMed:11864566). Involved in synapse elimination in early synapse development (PubMed:17626846). May negatively regulate the apoptotic activity of cep-1 in response to genotoxic stress (PubMed:18340346). Plays a role in sex determination (PubMed:18718460).5 Publications

GO - Biological processi

  • female sex differentiation Source: UniProtKB
  • negative regulation of centrosome duplication Source: UniProtKB
  • negative regulation of DNA damage response, signal transduction by p53 class mediator Source: UniProtKB
  • negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage Source: UniProtKB
  • nervous system development Source: UniProtKB-KW
  • positive regulation of apoptotic process Source: WormBase
  • regulation of protein stability Source: UniProtKB
  • ubiquitin-dependent protein catabolic process Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

Developmental protein

Keywords - Biological processi

Neurogenesis, Ubl conjugation pathway

Enzyme and pathway databases

ReactomeiR-CEL-174113. SCF-beta-TrCP mediated degradation of Emi1.
R-CEL-187577. SCF(Skp2)-mediated degradation of p27/p21.
R-CEL-69231. Cyclin D associated events in G1.

Names & Taxonomyi

Protein namesi
Recommended name:
Skp1-related proteinImported
Gene namesi
Name:skr-1Imported
ORF Names:F46A9.5Imported
OrganismiCaenorhabditis elegansImported
Taxonomic identifieri6239 [NCBI]
Taxonomic lineageiEukaryotaMetazoaEcdysozoaNematodaChromadoreaRhabditidaRhabditoideaRhabditidaePeloderinaeCaenorhabditis
Proteomesi
  • UP000001940 Componenti: Chromosome I

Organism-specific databases

WormBaseiF46A9.5; CE10580; WBGene00004807; skr-1.

Pathology & Biotechi

Disruption phenotypei

The majority of animals are either embryonic or larval lethal. Rare surviving animals develop into uncoordinated sterile adults with hyperplasia of tissues including the uterus and the spermatheca of the somatic gonad (PubMed:18718460). RNAi-mediated knockdown results in a reduction in brood size of the injected parent and embryonic lethality of offspring between gastrulation and the two-cell phase of embryogenesis (PubMed:11864566). RNAi-mediated knockdown causes synapse clusters that are retained rather than eliminated in the secondary synapse region, anterior to the vulva during synapse development (PubMed:17626846). RNAi-mediated knockdown leads to an increase in germ cell apoptosis in response to genotoxic stress (PubMed:18340346). RNAi-mediated knockdown within 16 hours of RNAi administration results in defects in embryonic divisions including spindle mispositioning, abnormal polar bodies and ectopic furrows, and hyperplasia of the somatic gonad and hypodermis in larvae (PubMed:11864567). All embryos laid 16 hours post RNAi treatment arrest and contain almost twice the number of cells as wild-type embryos (PubMed:11864567). Zygotic RNAi-mediated knockdown results in 90% sterility (PubMed:11864567).5 Publications

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi140 – 1401M → I in sm151; weak loss of function mutation, does not bind to sel-10 protein. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 176176Skp1-related proteinCuratedPRO_0000433874Add
BLAST

Proteomic databases

EPDiG5ECU1.
PaxDbiG5ECU1.

Expressioni

Tissue specificityi

Ubiquitously expressed in the adult.1 Publication

Gene expression databases

ExpressionAtlasiG5ECU1. baseline.

Interactioni

Subunit structurei

Probable component of the SCF(sel-10) E3 ubiquitin-protein ligase complex containing F-box domain-containing protein sel-10 as the substrate recognition component (PubMed:17626846). Interacts with cul-1 (PubMed:11864567, PubMed:11864566). Interacts with dre-1 (PubMed:17336909). Interacts with syg-1 (PubMed:17626846). Interacts with sel-10 (PubMed:18718460).By similarity5 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
CELE_C14B1.3Q179623EBI-323117,EBI-2003707
CELE_F46F11.6P913053EBI-323117,EBI-2003766
dre-1Q942513EBI-323117,EBI-314286
fbxa-101G5EDX94EBI-323117,EBI-2003730
fbxa-164O171984EBI-323117,EBI-2412975
fbxa-196O165255EBI-323117,EBI-329491
fog-2Q2YS434EBI-323117,EBI-2417735
fsn-1Q182233EBI-323117,EBI-2003744
sel-10Q937945EBI-323117,EBI-323098

Protein-protein interaction databases

IntActiG5ECU1. 19 interactions.

Structurei

3D structure databases

ProteinModelPortaliG5ECU1.
SMRiG5ECU1. Positions 16-174.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the SKP1 family.Curated

Phylogenomic databases

eggNOGiKOG1724. Eukaryota.
COG5201. LUCA.
GeneTreeiENSGT00390000012652.
InParanoidiG5ECU1.
KOiK03094.
OMAiIDMVEGI.
OrthoDBiEOG7QVM4C.
PhylomeDBiG5ECU1.

Family and domain databases

InterProiIPR016897. SKP1.
IPR001232. SKP1-like.
IPR011333. SKP1/BTB/POZ.
IPR016072. Skp1_comp_dimer.
IPR016073. Skp1_comp_POZ.
[Graphical view]
PfamiPF01466. Skp1. 1 hit.
PF03931. Skp1_POZ. 1 hit.
[Graphical view]
PIRSFiPIRSF028729. E3_ubiquit_lig_SCF_Skp. 1 hit.
SMARTiSM00512. Skp1. 1 hit.
[Graphical view]
SUPFAMiSSF54695. SSF54695. 1 hit.
SSF81382. SSF81382. 1 hit.

Sequencei

Sequence statusi: Complete.

G5ECU1-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MADQKKVSEA AKEREIKISS SDNEIFLVPR NVIRLSNTIN TLLMDLGLDD
60 70 80 90 100
EEGTNAEPIP VQNVTASILK KVISWCNHHH SDPISTEDSD NREKRTDDIG
110 120 130 140 150
SWDVEFLKVD QGTLFELILA ANYLDIKGLL DVTCKTVANM IKGKSPEEIR
160 170
RTFNIKNDFT PEEEEQIRKE NAWCED
Length:176
Mass (Da):20,032
Last modified:December 14, 2011 - v1
Checksum:i3FCDC4D52BC2DF35
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BX284601 Genomic DNA. Translation: CAB03110.1.
AF440505 mRNA. Translation: AAL34093.1.
PIRiT21573.
RefSeqiNP_492513.1. NM_060112.5.
UniGeneiCel.18311.

Genome annotation databases

EnsemblMetazoaiF46A9.5.1; F46A9.5.1; WBGene00004807.
F46A9.5.2; F46A9.5.2; WBGene00004807.
F46A9.5.3; F46A9.5.3; WBGene00004807.
F46A9.5.4; F46A9.5.4; WBGene00004807.
GeneIDi172775.
KEGGicel:CELE_F46A9.5.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BX284601 Genomic DNA. Translation: CAB03110.1.
AF440505 mRNA. Translation: AAL34093.1.
PIRiT21573.
RefSeqiNP_492513.1. NM_060112.5.
UniGeneiCel.18311.

3D structure databases

ProteinModelPortaliG5ECU1.
SMRiG5ECU1. Positions 16-174.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiG5ECU1. 19 interactions.

Proteomic databases

EPDiG5ECU1.
PaxDbiG5ECU1.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblMetazoaiF46A9.5.1; F46A9.5.1; WBGene00004807.
F46A9.5.2; F46A9.5.2; WBGene00004807.
F46A9.5.3; F46A9.5.3; WBGene00004807.
F46A9.5.4; F46A9.5.4; WBGene00004807.
GeneIDi172775.
KEGGicel:CELE_F46A9.5.

Organism-specific databases

CTDi172775.
WormBaseiF46A9.5; CE10580; WBGene00004807; skr-1.

Phylogenomic databases

eggNOGiKOG1724. Eukaryota.
COG5201. LUCA.
GeneTreeiENSGT00390000012652.
InParanoidiG5ECU1.
KOiK03094.
OMAiIDMVEGI.
OrthoDBiEOG7QVM4C.
PhylomeDBiG5ECU1.

Enzyme and pathway databases

ReactomeiR-CEL-174113. SCF-beta-TrCP mediated degradation of Emi1.
R-CEL-187577. SCF(Skp2)-mediated degradation of p27/p21.
R-CEL-69231. Cyclin D associated events in G1.

Miscellaneous databases

NextBioi876957.
PROiG5ECU1.

Gene expression databases

ExpressionAtlasiG5ECU1. baseline.

Family and domain databases

InterProiIPR016897. SKP1.
IPR001232. SKP1-like.
IPR011333. SKP1/BTB/POZ.
IPR016072. Skp1_comp_dimer.
IPR016073. Skp1_comp_POZ.
[Graphical view]
PfamiPF01466. Skp1. 1 hit.
PF03931. Skp1_POZ. 1 hit.
[Graphical view]
PIRSFiPIRSF028729. E3_ubiquit_lig_SCF_Skp. 1 hit.
SMARTiSM00512. Skp1. 1 hit.
[Graphical view]
SUPFAMiSSF54695. SSF54695. 1 hit.
SSF81382. SSF81382. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Genome sequence of the nematode C. elegans: a platform for investigating biology."
    The C. elegans sequencing consortium
    Science 282:2012-2018(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Bristol N2Imported.
  2. "The Caenorhabditis elegans Skp1-related gene family: diverse functions in cell proliferation, morphogenesis, and meiosis."
    Nayak S., Santiago F.E., Jin H., Lin D., Schedl T., Kipreos E.T.
    Curr. Biol. 12:277-287(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 7-176, FUNCTION, INTERACTION WITH CUL-1, DISRUPTION PHENOTYPE.
  3. "Multiple Skp1-related proteins in Caenorhabditis elegans: diverse patterns of interaction with Cullins and F-box proteins."
    Yamanaka A., Yada M., Imaki H., Koga M., Ohshima Y., Nakayama K.
    Curr. Biol. 12:267-275(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INTERACTION WITH CUL-1, TISSUE SPECIFICITY, DISRUPTION PHENOTYPE.
  4. "DRE-1: an evolutionarily conserved F box protein that regulates C. elegans developmental age."
    Fielenbach N., Guardavaccaro D., Neubert K., Chan T., Li D., Feng Q., Hutter H., Pagano M., Antebi A.
    Dev. Cell 12:443-455(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH DRE-1.
  5. "Spatial regulation of an E3 ubiquitin ligase directs selective synapse elimination."
    Ding M., Chao D., Wang G., Shen K.
    Science 317:947-951(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INTERACTION WITH SYG-1, DISRUPTION PHENOTYPE.
  6. "The SCF FSN-1 ubiquitin ligase controls germline apoptosis through CEP-1/p53 in C. elegans."
    Gao M.X., Liao E.H., Yu B., Wang Y., Zhen M., Derry W.B.
    Cell Death Differ. 15:1054-1062(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, DISRUPTION PHENOTYPE.
  7. "SKR-1, a homolog of Skp1 and a member of the SCF(SEL-10) complex, regulates sex-determination and LIN-12/Notch signaling in C. elegans."
    Killian D.J., Harvey E., Johnson P., Otori M., Mitani S., Xue D.
    Dev. Biol. 322:322-331(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INTERACTION WITH SEL-10, DISRUPTION PHENOTYPE, MUTAGENESIS OF MET-140.

Entry informationi

Entry nameiSKR1_CAEEL
AccessioniPrimary (citable) accession number: G5ECU1
Secondary accession number(s): Q8WSZ9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 16, 2015
Last sequence update: December 14, 2011
Last modified: May 11, 2016
This is version 47 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programCaenorhabditis annotation project

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Caenorhabditis elegans
    Caenorhabditis elegans: entries, gene names and cross-references to WormBase
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.