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    Rbck1 RANBP2-type and C3HC4-type zinc finger containing 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 60383, updated on 27-Nov-2024

    Summary

    Official Symbol
    Rbck1provided by RGD
    Official Full Name
    RANBP2-type and C3HC4-type zinc finger containing 1provided by RGD
    Primary source
    RGD:708404
    See related
    EnsemblRapid:ENSRNOG00000006695 AllianceGenome:RGD:708404
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    HOIL-1; Pkcbpb15
    Summary
    Enables double-stranded DNA binding activity and protein kinase C binding activity. Involved in positive regulation of transcription by RNA polymerase II. Predicted to be part of LUBAC complex. Human ortholog(s) of this gene implicated in glycogen storage disease. Orthologous to human RBCK1 (RANBP2-type and C3HC4-type zinc finger containing 1). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Thymus (RPKM 303.6), Spleen (RPKM 189.4) and 9 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See Rbck1 in Genome Data Viewer
    Location:
    3q41
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (161249389..161266321, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (140789079..140806017, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (147793014..147809941, complement)

    Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene casein kinase 2 alpha 1 Neighboring gene TBC1 domain family, member 20 Neighboring gene tribbles pseudokinase 3 Neighboring gene neurensin 2

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables double-stranded DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables identical protein binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein kinase C binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein sequestering activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables transcription coactivator activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables transferase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables ubiquitin binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables ubiquitin binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables ubiquitin binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables ubiquitin binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables ubiquitin ligase activator activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables ubiquitin ligase activator activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables ubiquitin-protein transferase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables ubiquitin-protein transferase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables ubiquitin-protein transferase activity ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    involved_in T cell receptor signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in T cell receptor signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cytoplasmic sequestering of protein ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in defense response to bacterium IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in defense response to bacterium ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in defense response to bacterium ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in negative regulation of NF-kappaB transcription factor activity ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of necroptotic process IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within negative regulation of necroptotic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of NF-kappaB transcription factor activity ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of apoptotic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of canonical NF-kappaB signal transduction IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in positive regulation of canonical NF-kappaB signal transduction IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of canonical NF-kappaB signal transduction ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of canonical NF-kappaB signal transduction ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in positive regulation of extrinsic apoptotic signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within positive regulation of extrinsic apoptotic signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of metabolic process IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of non-canonical NF-kappaB signal transduction IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of non-canonical NF-kappaB signal transduction ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in proteasome-mediated ubiquitin-dependent protein catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in proteasome-mediated ubiquitin-dependent protein catabolic process IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in proteasome-mediated ubiquitin-dependent protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in protein linear polyubiquitination IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in protein linear polyubiquitination IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in protein linear polyubiquitination ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in protein linear polyubiquitination ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in protein polyubiquitination ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in protein ubiquitination IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    part_of LUBAC complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of LUBAC complex IEA
    Inferred from Electronic Annotation
    more info
     
    part_of LUBAC complex ISO
    Inferred from Sequence Orthology
    more info
     
    part_of LUBAC complex ISS
    Inferred from Sequence or Structural Similarity
    more info
     

    General protein information

    Preferred Names
    ranBP-type and C3HC4-type zinc finger-containing protein 1
    Names
    RBCC protein interacting with PKC 1
    RING-type E3 ubiquitin transferase HOIL-1
    RanBP-type and C3HC4-type zinc finger containing 1
    heme-oxidized IRP2 ubiquitin ligase 1 homolog
    protein kinase C-binding protein Beta15
    protein kinase C-binding protein beta-15
    ubiquitin-conjugating enzyme 7-interacting protein 3
    NP_068532.2
    XP_006235314.1
    XP_038961694.1
    XP_063140525.1
    XP_063140526.1
    XP_063140527.1

    NCBI Reference Sequences (RefSeq)

    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_021764.1NP_068532.2  ranBP-type and C3HC4-type zinc finger-containing protein 1

      See identical proteins and their annotated locations for NP_068532.2

      Status: PROVISIONAL

      Source sequence(s)
      U48248
      UniProtKB/Swiss-Prot
      Q62921, Q9QWN4, Q9Z334
      UniProtKB/TrEMBL
      A0A0G2K3H9
      Related
      ENSRNOP00000072645.3, ENSRNOT00000085995.3
      Conserved Domains (4) summary
      cd01799
      Location:57131
      Hoil1_N; Ubiquitin-like domain of HOIL1
      smart00547
      Location:195215
      ZnF_RBZ; Zinc finger domain
      sd00029
      Location:195214
      zf-RanBP2; RanBP2-type Zn finger [structural motif]
      pfam13445
      Location:280322
      zf-RING_UBOX; RING-type zinc-finger

    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_086021.1 Reference GRCr8

      Range
      161249389..161266321 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006235252.5XP_006235314.1  ranBP-type and C3HC4-type zinc finger-containing protein 1 isoform X1

      See identical proteins and their annotated locations for XP_006235314.1

      UniProtKB/TrEMBL
      A0A0G2K3H9, A0A0G2K9L6, A6KHM8
      Conserved Domains (4) summary
      cd01799
      Location:57131
      Hoil1_N; Ubiquitin-like domain of HOIL1
      smart00547
      Location:195215
      ZnF_RBZ; Zinc finger domain
      sd00029
      Location:195214
      zf-RanBP2; RanBP2-type Zn finger [structural motif]
      pfam13445
      Location:280322
      zf-RING_UBOX; RING-type zinc-finger
    2. XM_063284455.1XP_063140525.1  ranBP-type and C3HC4-type zinc finger-containing protein 1 isoform X2

    3. XM_063284456.1XP_063140526.1  ranBP-type and C3HC4-type zinc finger-containing protein 1 isoform X3

    4. XM_063284457.1XP_063140527.1  ranBP-type and C3HC4-type zinc finger-containing protein 1 isoform X4

      Related
      ENSRNOP00000047637.5, ENSRNOT00000045314.5
    5. XM_039105766.2XP_038961694.1  ranBP-type and C3HC4-type zinc finger-containing protein 1 isoform X5

      Conserved Domains (3) summary
      smart00547
      Location:195215
      ZnF_RBZ; Zinc finger domain
      sd00029
      Location:195214
      zf-RanBP2; RanBP2-type Zn finger [structural motif]
      cd01799
      Location:53133
      Ubl_HOIL1; ubiquitin-like (Ubl) domain found in heme-oxidized IRP2 ubiquitin ligase 1 (HOIL-1) and similar proteins