U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

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

Gene ID: 308968, updated on 2-Nov-2024

Summary

Go to the top of the page Help
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
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
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

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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

Go to the top of the pageHelp

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

Go to the top of the page Help

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
  
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

Go to the top of the page Help
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)

Go to the top of the page Help

NEW Try the new Transcript table

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

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.