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    Rnf111 ring finger protein 111 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 300813, updated on 30-Mar-2024

    Summary

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    Official Symbol
    Rnf111provided by RGD
    Official Full Name
    ring finger protein 111provided by RGD
    Primary source
    RGD:1310097
    See related
    Ensembl:ENSRNOG00000060750 AllianceGenome:RGD:1310097
    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
    Enables SMAD binding activity. Predicted to be involved in cellular protein metabolic process; positive regulation of transcription, DNA-templated; and positive regulation of transforming growth factor beta receptor signaling pathway. Predicted to act upstream of or within pattern specification process; positive regulation of protein ubiquitination; and protein polyubiquitination. Predicted to be located in cytosol and nucleoplasm. Predicted to be part of protein-containing complex. Predicted to be active in cytoplasm and nucleus. Orthologous to human RNF111 (ring finger protein 111). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Spleen (RPKM 117.8), Thymus (RPKM 112.2) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    Location:
    8q24
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 8 NC_086026.1 (79984831..80061022, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 8 NC_051343.1 (71103967..71180172, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (76864343..76940235, complement)

    Chromosome 8 - NC_086026.1Genomic Context describing neighboring genes Neighboring gene myosin IE Neighboring gene U6 spliceosomal RNA Neighboring gene cyclin B2 Neighboring gene RNA polymerase II, I and III subunit K, pseudogene 1 Neighboring gene small nucleolar RNA, H/ACA box 20 Neighboring gene U6 spliceosomal RNA Neighboring gene SAFB-like, transcription modulator

    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. Arkadia protein expression is reduced in the liver during the progression of hepatic fibrosis. Hou F, et al. Int J Mol Med, 2018 Mar. PMID 29286088, Free PMC Article
    2. SnoN upregulation ameliorates renal fibrosis in diabetic nephropathy. Liu L, et al. PLoS One, 2017. PMID 28350874, Free PMC Article
    3. Arkadia-Smad7-mediated positive regulation of TGF-beta signaling in a rat model of tubulointerstitial fibrosis. Liu FY, et al. Am J Nephrol, 2007. PMID 17347560
    4. Effects of Arkadia on airway remodeling through enhancing TGF-beta signaling in allergic rats. Li XZ, et al. Lab Invest, 2010 Jul. PMID 20386537
    5. Poly-small ubiquitin-like modifier (PolySUMO)-binding proteins identified through a string search. Sun H, et al. J Biol Chem, 2012 Dec 7. PMID 23086935, Free PMC Article

    See all (9) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. rkadia may regulate the pathogenesis and progression of hepatic fibrosis.
      Title: Arkadia protein expression is reduced in the liver during the progression of hepatic fibrosis.
    2. High glucose stress suppresses SnoN while activating TGF-beta1 and Rnf111 (Arkadia) in renal tubular epithelial cells and diabetic rats.
      Title: SnoN upregulation ameliorates renal fibrosis in diabetic nephropathy.
    3. Arkadia may contribute to the pathogenesis of airway remodeling through enhancing TGF-beta signaling by inducing the reduction of Smad7, SnoN and Ski proteins.
      Title: Effects of Arkadia on airway remodeling through enhancing TGF-beta signaling in allergic rats.
    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

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables SMAD binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables SMAD binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables SUMO polymer binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables SUMO polymer binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    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
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within pattern specification process ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within positive regulation of protein ubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of transforming growth factor beta receptor signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within positive regulation of transforming growth factor beta receptor signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within protein polyubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein ubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in ubiquitin-dependent protein catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within ubiquitin-dependent protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in PML body IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    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 Arkadia
    Names
    ring finger 111
    NP_001100306.1
    XP_006243434.1
    XP_006243435.1
    XP_006243436.1
    XP_038937059.1
    XP_038937060.1
    XP_038937061.1
    XP_038937063.1
    XP_038937064.1
    XP_038937065.1
    XP_063121238.1
    XP_063121240.1

    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_001106836.2 → NP_001100306.1  E3 ubiquitin-protein ligase Arkadia

      See identical proteins and their annotated locations for NP_001100306.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008
      UniProtKB/TrEMBL
      A6KET4, D4A9T1
      Related
      ENSRNOP00000069810.2, ENSRNOT00000084313.2
      Conserved Domains (2) summary
      pfam13639
      Location:935 → 976
      zf-RING_2; Ring finger domain
      pfam15303
      Location:18 → 247
      RNF111_N; E3 ubiquitin-protein ligase Arkadia N-terminus

    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_086026.1 Reference GRCr8

      Range
      79984831..80061022 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039081137.2 → XP_038937065.1  E3 ubiquitin-protein ligase Arkadia isoform X8

      UniProtKB/TrEMBL
      D4A9T1
      Conserved Domains (3) summary
      cd16474
      Location:943 → 987
      RING-H2_RNF111_like; RING finger, H2 subclass, found in RING finger proteins RNF111, RNF165, and similar proteins
      pfam08192
      Location:276 → 427
      Peptidase_S64; Peptidase family S64
      pfam15303
      Location:18 → 247
      RNF111_N; E3 ubiquitin-protein ligase Arkadia N-terminus

    2. XM_039081135.2 → XP_038937063.1  E3 ubiquitin-protein ligase Arkadia isoform X8

      UniProtKB/TrEMBL
      D4A9T1
      Conserved Domains (3) summary
      cd16474
      Location:943 → 987
      RING-H2_RNF111_like; RING finger, H2 subclass, found in RING finger proteins RNF111, RNF165, and similar proteins
      pfam08192
      Location:276 → 427
      Peptidase_S64; Peptidase family S64
      pfam15303
      Location:18 → 247
      RNF111_N; E3 ubiquitin-protein ligase Arkadia N-terminus

    3. XM_039081132.2 → XP_038937060.1  E3 ubiquitin-protein ligase Arkadia isoform X2

      UniProtKB/TrEMBL
      D4A9T1
      Conserved Domains (3) summary
      cd16474
      Location:1041 → 1085
      RING-H2_RNF111_like; RING finger, H2 subclass, found in RING finger proteins RNF111, RNF165, and similar proteins
      pfam08192
      Location:375 → 526
      Peptidase_S64; Peptidase family S64
      pfam15303
      Location:117 → 346
      RNF111_N; E3 ubiquitin-protein ligase Arkadia N-terminus

    4. XM_063265168.1 → XP_063121238.1  E3 ubiquitin-protein ligase Arkadia isoform X5

    5. XM_039081133.2 → XP_038937061.1  E3 ubiquitin-protein ligase Arkadia isoform X3

      UniProtKB/TrEMBL
      D4A9T1
      Conserved Domains (3) summary
      cd16474
      Location:1034 → 1078
      RING-H2_RNF111_like; RING finger, H2 subclass, found in RING finger proteins RNF111, RNF165, and similar proteins
      pfam08192
      Location:375 → 526
      Peptidase_S64; Peptidase family S64
      pfam15303
      Location:117 → 346
      RNF111_N; E3 ubiquitin-protein ligase Arkadia N-terminus

    6. XM_039081131.2 → XP_038937059.1  E3 ubiquitin-protein ligase Arkadia isoform X1

      UniProtKB/TrEMBL
      D4A9T1
      Conserved Domains (3) summary
      cd16474
      Location:1042 → 1086
      RING-H2_RNF111_like; RING finger, H2 subclass, found in RING finger proteins RNF111, RNF165, and similar proteins
      pfam08192
      Location:375 → 526
      Peptidase_S64; Peptidase family S64
      pfam15303
      Location:117 → 346
      RNF111_N; E3 ubiquitin-protein ligase Arkadia N-terminus

    7. XM_006243374.5 → XP_006243436.1  E3 ubiquitin-protein ligase Arkadia isoform X7

      UniProtKB/TrEMBL
      D4A9T1
      Conserved Domains (2) summary
      pfam13639
      Location:1025 → 1066
      zf-RING_2; Ring finger domain
      pfam15303
      Location:117 → 346
      RNF111_N; E3 ubiquitin-protein ligase Arkadia N-terminus

    8. XM_006243373.5 → XP_006243435.1  E3 ubiquitin-protein ligase Arkadia isoform X6

      UniProtKB/TrEMBL
      D4A9T1
      Conserved Domains (2) summary
      pfam13639
      Location:1026 → 1067
      zf-RING_2; Ring finger domain
      pfam15303
      Location:117 → 346
      RNF111_N; E3 ubiquitin-protein ligase Arkadia N-terminus

    9. XM_006243372.5 → XP_006243434.1  E3 ubiquitin-protein ligase Arkadia isoform X4

      UniProtKB/TrEMBL
      D4A9T1
      Conserved Domains (2) summary
      pfam13639
      Location:1034 → 1075
      zf-RING_2; Ring finger domain
      pfam15303
      Location:117 → 346
      RNF111_N; E3 ubiquitin-protein ligase Arkadia N-terminus

    10. XM_039081136.2 → XP_038937064.1  E3 ubiquitin-protein ligase Arkadia isoform X8

      UniProtKB/TrEMBL
      D4A9T1
      Conserved Domains (3) summary
      cd16474
      Location:943 → 987
      RING-H2_RNF111_like; RING finger, H2 subclass, found in RING finger proteins RNF111, RNF165, and similar proteins
      pfam08192
      Location:276 → 427
      Peptidase_S64; Peptidase family S64
      pfam15303
      Location:18 → 247
      RNF111_N; E3 ubiquitin-protein ligase Arkadia N-terminus

    11. XM_063265170.1 → XP_063121240.1  E3 ubiquitin-protein ligase Arkadia isoform X8

    Nucleotide Protein Strain
    Heading Accession and Version

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