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    rnf111 ring finger protein 111 [ Xenopus tropicalis (tropical clawed frog) ]

    Gene ID: 780266, updated on 4-Nov-2024

    Summary

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    Official Symbol
    rnf111provided by Xenbase
    Official Full Name
    ring finger protein 111provided by Xenbase
    Primary source
    Xenbase:XB-GENE-854131
    See related
    Ensembl:ENSXETG00000010842 AllianceGenome:Xenbase:XB-GENE-854131
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Xenopus tropicalis
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Amphibia; Batrachia; Anura; Pipoidea; Pipidae; Xenopodinae; Xenopus; Silurana
    Also known as
    ark; Arkadia; rnf111-a; rnf111-b
    Summary
    Predicted to enable SMAD binding activity; SUMO polymer binding activity; and ubiquitin protein ligase activity. Predicted to be involved in positive regulation of transforming growth factor beta receptor signaling pathway and ubiquitin-dependent protein catabolic process. Predicted to act upstream of or within several processes, including epiboly involved in gastrulation with mouth forming second; prechordal plate formation; and protein ubiquitination. Predicted to be located in PML body. Predicted to be active in cytoplasm and nucleus. Orthologous to human RNF111 (ring finger protein 111). [provided by Alliance of Genome Resources, Nov 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See rnf111 in Genome Data Viewer
    Location:
    chromosome: 3
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    104 current UCB_Xtro_10.0 (GCF_000004195.4) 3 NC_030679.2 (99172041..99199086)
    103 previous assembly Xenopus_tropicalis_v9.1 (GCF_000004195.3) 3 NC_030679.1 (89231143..89258898)

    Chromosome 3 - NC_030679.2Genomic Context describing neighboring genes Neighboring gene myosin IE, gene 1 Neighboring gene SAFB-like, transcription modulator Neighboring gene cyclin B5 Neighboring gene cyclin B2

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Genetic and genomic tools for Xenopus research: The NIH Xenopus initiative. Klein SL, et al. Dev Dyn, 2002 Dec. PMID 12454917
    2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    General gene information

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    Homology

    Clone Names

    • MGC81253, MGC146379

    Gene Ontology Provided by Xenbase

    Function Evidence Code Pubs
    enables SMAD binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables SUMO polymer binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables transferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ubiquitin protein ligase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within DNA repair IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within epiboly involved in gastrulation with mouth forming second IEA
    Inferred from Electronic Annotation
    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 prechordal plate formation IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within protein ubiquitination IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in ubiquitin-dependent protein catabolic process IBA
    Inferred from Biological aspect of Ancestor
    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 IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    E3 ubiquitin-protein ligase arkadia
    Names
    RING-type E3 ubiquitin transferase arkadia
    NP_001072805.1
    XP_012826020.2
    XP_012826021.2
    XP_012826022.2
    XP_012826023.2
    XP_012826024.2
    XP_012826025.2
    XP_012826026.2

    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_001079337.1 → NP_001072805.1  E3 ubiquitin-protein ligase arkadia

      See identical proteins and their annotated locations for NP_001072805.1

      Status: PROVISIONAL

      Source sequence(s)
      BC121428
      UniProtKB/Swiss-Prot
      Q0V9R0
      UniProtKB/TrEMBL
      A0A6I8PTY2
      Related
      ENSXETP00000062219.3, ENSXETT00000062454.3
      Conserved Domains (2) summary
      cd16474
      Location:901 → 945
      RING-H2_RNF111_like; RING finger, H2 subclass, found in RING finger proteins RNF111, RNF165, and similar proteins
      pfam15303
      Location:1 → 272
      RNF111_N; E3 ubiquitin-protein ligase Arkadia N-terminus

    RefSeqs of Annotated Genomes: Xenopus tropicalis Annotation Release 104 details...Open this link in a new tab

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

    Reference UCB_Xtro_10.0 Primary Assembly

    Genomic

    1. NC_030679.2 Reference UCB_Xtro_10.0 Primary Assembly

      Range
      99172041..99199086
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_012970572.3 → XP_012826026.2  E3 ubiquitin-protein ligase arkadia isoform X5

      UniProtKB/TrEMBL
      A0A6I8PTY2, A0A6I8S7Z8
      Related
      ENSXETP00000089309.2, ENSXETT00000104364.2
      Conserved Domains (2) summary
      cd16474
      Location:839 → 883
      RING-H2_RNF111_like; RING finger, H2 subclass, found in RING finger proteins RNF111, RNF165, and similar proteins
      pfam15303
      Location:1 → 272
      RNF111_N; E3 ubiquitin-protein ligase Arkadia N-terminus

    2. XM_012970569.3 → XP_012826023.2  E3 ubiquitin-protein ligase arkadia isoform X2

      UniProtKB/TrEMBL
      A0A6I8PTY2, A0A8J0SNP5
      Conserved Domains (2) summary
      cd16474
      Location:893 → 937
      RING-H2_RNF111_like; RING finger, H2 subclass, found in RING finger proteins RNF111, RNF165, and similar proteins
      pfam15303
      Location:1 → 272
      RNF111_N; E3 ubiquitin-protein ligase Arkadia N-terminus

    3. XM_012970571.3 → XP_012826025.2  E3 ubiquitin-protein ligase arkadia isoform X4

      UniProtKB/TrEMBL
      A0A6I8PTY2, A0A8J0SXM0
      Conserved Domains (2) summary
      cd16474
      Location:862 → 906
      RING-H2_RNF111_like; RING finger, H2 subclass, found in RING finger proteins RNF111, RNF165, and similar proteins
      pfam15303
      Location:1 → 272
      RNF111_N; E3 ubiquitin-protein ligase Arkadia N-terminus

    4. XM_012970566.3 → XP_012826020.2  E3 ubiquitin-protein ligase arkadia isoform X1

      UniProtKB/Swiss-Prot
      Q0V9R0
      UniProtKB/TrEMBL
      A0A6I8PTY2
      Conserved Domains (2) summary
      cd16474
      Location:901 → 945
      RING-H2_RNF111_like; RING finger, H2 subclass, found in RING finger proteins RNF111, RNF165, and similar proteins
      pfam15303
      Location:1 → 272
      RNF111_N; E3 ubiquitin-protein ligase Arkadia N-terminus

    5. XM_012970570.3 → XP_012826024.2  E3 ubiquitin-protein ligase arkadia isoform X3

      UniProtKB/TrEMBL
      A0A6I8PTY2, A0A6I8QUU3
      Related
      ENSXETP00000077177.2, ENSXETT00000071840.2
      Conserved Domains (2) summary
      cd16474
      Location:870 → 914
      RING-H2_RNF111_like; RING finger, H2 subclass, found in RING finger proteins RNF111, RNF165, and similar proteins
      pfam15303
      Location:1 → 272
      RNF111_N; E3 ubiquitin-protein ligase Arkadia N-terminus

    6. XM_012970568.2 → XP_012826022.2  E3 ubiquitin-protein ligase arkadia isoform X1

      UniProtKB/Swiss-Prot
      Q0V9R0
      UniProtKB/TrEMBL
      A0A6I8PTY2
      Conserved Domains (2) summary
      cd16474
      Location:901 → 945
      RING-H2_RNF111_like; RING finger, H2 subclass, found in RING finger proteins RNF111, RNF165, and similar proteins
      pfam15303
      Location:1 → 272
      RNF111_N; E3 ubiquitin-protein ligase Arkadia N-terminus

    7. XM_012970567.3 → XP_012826021.2  E3 ubiquitin-protein ligase arkadia isoform X1

      UniProtKB/Swiss-Prot
      Q0V9R0
      UniProtKB/TrEMBL
      A0A6I8PTY2
      Conserved Domains (2) summary
      cd16474
      Location:901 → 945
      RING-H2_RNF111_like; RING finger, H2 subclass, found in RING finger proteins RNF111, RNF165, and similar proteins
      pfam15303
      Location:1 → 272
      RNF111_N; E3 ubiquitin-protein ligase Arkadia N-terminus
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q0V9R0.1 GenPept UniProtKB/Swiss-Prot:Q0V9R0

    Gene LinkOut

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