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    Rbbp6 RB binding protein 6, ubiquitin ligase [ Rattus norvegicus (Norway rat) ]

    Gene ID: 308968, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Rbbp6provided by RGD
    Official Full Name
    RB binding protein 6, ubiquitin ligaseprovided by RGD
    Primary source
    RGD:1311964
    See related
    EnsemblRapid:ENSRNOG00000012806 AllianceGenome:RGD:1311964
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable protein kinase binding activity and ubiquitin protein ligase activity. Predicted to be involved in several processes, including protein ubiquitination; regulation of DNA replication; and ubiquitin-dependent protein catabolic process. Predicted to act upstream of or within embryonic organ development; in utero embryonic development; and somite development. Predicted to be located in centrosome and nuclear speck. Predicted to be part of protein-containing complex. Predicted to be active in nucleus. Orthologous to human RBBP6 (RB binding protein 6, ubiquitin ligase). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Thymus (RPKM 141.0), Testes (RPKM 126.6) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Rbbp6 in Genome Data Viewer
    Location:
    1q36
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (186934563..186966852)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (177503988..177537397)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (192933264..192965160)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene glyceraldehyde-3-phosphate dehydrogenase-like Neighboring gene uncharacterized LOC134485175 Neighboring gene trinucleotide repeat containing adaptor 6A Neighboring gene uncharacterized LOC120099930 Neighboring gene RNA, U6 small nuclear 799

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. The RBBP6/ZBTB38/MCM10 axis regulates DNA replication and common fragile site stability. Miotto B, et al. Cell Rep, 2014 Apr 24. PMID 24726359
    2. PACT is a negative regulator of p53 and essential for cell growth and embryonic development. Li L, et al. Proc Natl Acad Sci U S A, 2007 May 8. PMID 17470788, Free PMC Article
    3. RBBP6 interacts with multifunctional protein YB-1 through its RING finger domain, leading to ubiquitination and proteosomal degradation of YB-1. Chibi M, et al. J Mol Biol, 2008 Dec 26. PMID 18851979
    4. Characterization of hNek6 interactome reveals an important role for its short N-terminal domain and colocalization with proteins at the centrosome. Vaz Meirelles G, et al. J Proteome Res, 2010 Dec 3. PMID 20873783
    5. Maturation of human dendritic cells is accompanied by functional remodelling of the ubiquitin-proteasome system. Ebstein F, et al. Int J Biochem Cell Biol, 2009 May. PMID 19028597

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein kinase binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ubiquitin protein ligase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables ubiquitin protein ligase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ubiquitin-protein transferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in DNA damage response ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within embryonic organ development ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within in utero embryonic development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within multicellular organism growth ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein ubiquitination IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of DNA replication ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within somite development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in ubiquitin-dependent protein catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in ubiquitin-dependent protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in centrosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear speck IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nuclear speck ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of protein-containing complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    E3 ubiquitin-protein ligase RBBP6
    Names
    retinoblastoma binding protein 6
    NP_001414116.1
    XP_006230260.1
    XP_017445712.1
    XP_219296.3

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001427187.1 → NP_001414116.1  E3 ubiquitin-protein ligase RBBP6

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      Related
      ENSRNOP00000109263.1, ENSRNOT00000146812.1

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086019.1 Reference GRCr8

      Range
      186934563..186966852
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017590223.3 → XP_017445712.1  E3 ubiquitin-protein ligase RBBP6 isoform X1

      UniProtKB/TrEMBL
      A6I8Y0
      Related
      ENSRNOP00000092613.2, ENSRNOT00000102275.2

    2. XM_219296.8 → XP_219296.3  E3 ubiquitin-protein ligase RBBP6 isoform X2

      See identical proteins and their annotated locations for XP_219296.3

      UniProtKB/TrEMBL
      A6I8X8, A6I8X9
      Related
      ENSRNOP00000036139.5, ENSRNOT00000035770.8
      Conserved Domains (5) summary
      smart00184
      Location:260 → 300
      RING; Ring finger
      COG5222
      Location:2 → 420
      COG5222; Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
      pfam08783
      Location:4 → 75
      DWNN; DWNN domain
      pfam13696
      Location:157 → 177
      zf-CCHC_2; Zinc knuckle
      cl17171
      Location:1092 → 1152
      PH-like; Pleckstrin homology-like domain

    3. XM_006230198.4 → XP_006230260.1  E3 ubiquitin-protein ligase RBBP6 isoform X3

      See identical proteins and their annotated locations for XP_006230260.1

      UniProtKB/TrEMBL
      A6I8Y0
      Conserved Domains (5) summary
      smart00184
      Location:260 → 300
      RING; Ring finger
      COG5222
      Location:2 → 420
      COG5222; Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
      pfam08783
      Location:4 → 75
      DWNN; DWNN domain
      pfam13696
      Location:157 → 177
      zf-CCHC_2; Zinc knuckle
      cl17171
      Location:1058 → 1118
      PH-like; Pleckstrin homology-like domain
    Nucleotide Protein Strain
    Heading Accession and Version

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