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

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: Ensembl: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, Apr 2022]
Expression: Biased expression in Thymus (RPKM 303.6), Spleen (RPKM 189.4) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

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_086021.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

RBCK1 binds PKCbetaI and is a key regulator of PKCbetaI function in cells
Title: RBCK1, a protein kinase CbetaI (PKCbetaI)-interacting protein, regulates PKCbeta-dependent function.
RBCK1 (human C20orf18 and rat Pkcbpb15) is involved in transcriptional machinery in the nuclear bodies, and its transcriptional activity is regulated by nucleocytoplasmic shuttling.
Title: Nuclear-cytoplasmic shuttling of a RING-IBR protein RBCK1 and its functional interaction with nuclear body proteins.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

AU048771 (e-PCR)
- UniSTS:145221

BE109253 (e-PCR)
- UniSTS:248223

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 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 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

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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

EC 2.3.2.31

XP_006235314.1

EC 2.3.2.31

XP_038961694.1

EC 2.3.2.31

XP_063140525.1

EC 2.3.2.31

XP_063140526.1

EC 2.3.2.31

XP_063140527.1

EC 2.3.2.31

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)

NM_021764.1 → NP_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

ENSRNOP00000072645.2, ENSRNOT00000085995.2

Conserved Domains (4) summary

cd01799
Location:57 → 131

Hoil1_N; Ubiquitin-like domain of HOIL1

smart00547
Location:195 → 215

ZnF_RBZ; Zinc finger domain

sd00029
Location:195 → 214

zf-RanBP2; RanBP2-type Zn finger [structural motif]

pfam13445
Location:280 → 322

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

NC_086021.1 Reference GRCr8

Range

161249389..161266321 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006235252.5 → XP_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

Related

ENSRNOP00000075043.1

Conserved Domains (4) summary

cd01799
Location:57 → 131

Hoil1_N; Ubiquitin-like domain of HOIL1

smart00547
Location:195 → 215

ZnF_RBZ; Zinc finger domain

sd00029
Location:195 → 214

zf-RanBP2; RanBP2-type Zn finger [structural motif]

pfam13445
Location:280 → 322

zf-RING_UBOX; RING-type zinc-finger
XM_063284455.1 → XP_063140525.1 ranBP-type and C3HC4-type zinc finger-containing protein 1 isoform X2
XM_063284456.1 → XP_063140526.1 ranBP-type and C3HC4-type zinc finger-containing protein 1 isoform X3
XM_063284457.1 → XP_063140527.1 ranBP-type and C3HC4-type zinc finger-containing protein 1 isoform X4
XM_039105766.2 → XP_038961694.1 ranBP-type and C3HC4-type zinc finger-containing protein 1 isoform X5

Conserved Domains (3) summary

smart00547
Location:195 → 215

ZnF_RBZ; Zinc finger domain

sd00029
Location:195 → 214

zf-RanBP2; RanBP2-type Zn finger [structural motif]

cd01799
Location:53 → 133

Ubl_HOIL1; ubiquitin-like (Ubl) domain found in heme-oxidized IRP2 ubiquitin ligase 1 (HOIL-1) and similar proteins