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    RNF6 ring finger protein (C3H2C3 type) 6 [ Homo sapiens ]

    Gene ID: 6049, updated on 11-May-2012
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    Summary

    Official Symbol
    RNF6provided by HGNC
    Official Full Name
    ring finger protein (C3H2C3 type) 6provided by HGNC
    Primary source
    HGNC:10069
    Locus tag
    RP11-380N8.5
    See related
    Ensembl:ENSG00000127870; HPRD:05027; MIM:604242; Vega:OTTHUMG00000016614
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    DKFZp686P0776
    Summary
    The protein encoded by this gene contains a RING-H2 finger motif. Deletions and mutations in this gene were detected in esophageal squamous cell carcinoma (ESCC), suggesting that this protein may be a potential tumor suppressor. Studies of the mouse counterpart suggested a role of this protein in the transcription regulation that controls germinal differentiation. Multiple alternatively spliced transcript variants encoding the same protein are observed. [provided by RefSeq, Jul 2008]
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    Genomic context

    Location :
    13q12.2
    Sequence :
    Chromosome: 13; NC_000013.10 (26786905..26796508, complement)
    See RNF6 in Epigenomics, MapViewer

    Chromosome 13 - NC_000013.10Genomic Context describing neighboring genes Neighboring gene shisa homolog 2 (Xenopus laevis) Neighboring gene prune homolog (Drosophila) pseudogene 1 Neighboring gene protein-kinase, interferon-inducible double stranded RNA dependent inhibitor, repressor of (P58 repressor) pseudogene 6 Neighboring gene cyclin-dependent kinase 8

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    Genomic regions, transcripts, and products

    Go to nucleotideGraphics FASTA GenBank

    Go to reference sequence details
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    Bibliography

    Related articles in PubMed

    1. Systematic and quantitative assessment of the ubiquitin-modified proteome. Kim W, et al. Mol Cell, 2011 Oct 21. PMID 21906983.
    2. Analysis of the human E2 ubiquitin conjugating enzyme protein interaction network. Markson G, et al. Genome Res, 2009 Oct. PMID 19549727.
    3. In vitro nuclear interactome of the HIV-1 Tat protein. Gautier VW, et al. Retrovirology, 2009 May 19. PMID 19454010.
    4. Regulation of androgen receptor transcriptional activity and specificity by RNF6-induced ubiquitination. Xu K, et al. Cancer Cell, 2009 Apr 7. PMID 19345326.
    5. Cloning and identification of a novel RNF6 transcriptional splice variant Spg2 in human development. Zhu L, et al. Sci China C Life Sci, 2008 Apr. PMID 18368307.

    See all (13) citations in PubMed

    See citations in PubMed for homologs of this gene provided by HomoloGene

    GeneRIFs: Gene References Into Functions What's a GeneRIF?

    1. Results describe thet cloning and identification of a novel RNF6 transcriptional splice variant, Spg2, in human development.
      Title: Cloning and identification of a novel RNF6 transcriptional splice variant Spg2 in human development.
    2. Rnf6 controls cellular LIMK1 concentrations and indicate a new function for the ubiquitin/proteasome system in regulating local growth cone actin dynamics
      Title: The ubiquitin ligase Rnf6 regulates local LIM kinase 1 levels in axonal growth cones.
    3. Functional anaylysis of the mouse homolog
      Title: Gene control in germinal differentiation: RNF6, a transcription regulatory protein in the mouse sertoli cell.
    Submit: New GeneRIF Correction
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    Phenotypes

    Review eQTL and phenotype association data in this region using PheGenI

    Esophageal carcinoma, somatic

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    Interactions

    Products Interactant Other Gene Complex Source Pubs Description
    BioGRID:111976 BioGRID:106862 AR    BioGRID  PubMed Affinity Capture-Western; Reconstituted Complex 
    BioGRID:111976 BioGRID:113164 UBC    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:111976 BioGRID:113176 UBE2H    BioGRID  PubMed Two-hybrid 
    BioGRID:111976 BioGRID:1205541 tat    BioGRID  PubMed Reconstituted Complex 
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    General gene information

    Markers

    Genotypes

    Homology

    Pathways from BioSystems

    • Adaptive Immune System, organism-specific biosystem (from REACTOME)
      Adaptive Immune System, organism-specific biosystemAdaptive immunity refers to antigen-specific immune response efficiently involved in clearing the pathogens. The adaptive immune system is comprised of B and T lymphocytes that express receptors with...
    • Antigen processing: Ubiquitination & Proteasome degradation, organism-specific biosystem (from REACTOME)
      Antigen processing: Ubiquitination & Proteasome degradation, organism-specific biosystemIntracellular foreign or aberrant host proteins are cleaved into peptide fragments of a precise size, such that they can be loaded on to class I MHC molecules and presented externally to cytotoxic T ...
    • Class I MHC mediated antigen processing & presentation, organism-specific biosystem (from REACTOME)
      Class I MHC mediated antigen processing & presentation, organism-specific biosystemMajor histocompatibility complex (MHC) class I molecules play an important role in cell mediated immunity by reporting on intracellular events such as viral infection, the presence of intracellular b...
    • Immune System, organism-specific biosystem (from REACTOME)
      Immune System, organism-specific biosystemHumans are exposed to millions of potential pathogens daily, through contact, ingestion, and inhalation. Our ability to avoid infection depends on the adaptive immune system and during the first crit...

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    androgen receptor binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    ligase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    ubiquitin-protein ligase activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    negative regulation of axon extension ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    positive regulation of transcription, DNA-dependent IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    protein K27-linked ubiquitination IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    protein K48-linked ubiquitination ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    protein K6-linked ubiquitination IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    protein ubiquitination IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    regulation of androgen receptor signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    regulation of transcription, DNA-dependent IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    ubiquitin-dependent protein catabolic process ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    PML body IEA
    Inferred from Electronic Annotation
    more info
    		  
    axon ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    cell projection IEA
    Inferred from Electronic Annotation
    more info
    		  
    cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
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    General protein information

    Preferred Names
    E3 ubiquitin-protein ligase RNF6
    Names
    E3 ubiquitin-protein ligase RNF6
    RING-H2 protein RNF-6
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    NCBI Reference Sequences (RefSeq)

    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.

    Genomic

    1. NG_017042.1 RefSeqGene

      Range
      5001..14604
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_005977.3 → NP_005968.1  E3 ubiquitin-protein ligase RNF6

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longest transcript.
      Source sequence(s)
      AL138966
      Consensus CDS
      CCDS9316.1
      UniProtKB/TrEMBL
      Q5W0H0
      UniProtKB/Swiss-Prot
      Q9Y252
      Related
      ENSP00000371000, OTTHUMP00000018156, ENST00000381588, OTTHUMT00000044246
      Conserved Domains (2) summary
      cd00162
      Location:632 – 676
      Blast Score: 156
      RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...
      pfam13923
      Location:631 – 674
      Blast Score: 137
      zf-C3HC4_2; Zinc finger, C3HC4 type (RING finger)

    2. NM_183043.2 → NP_898864.1  E3 ubiquitin-protein ligase RNF6

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) differs in the 5' UTR, as compared to variant 1.
      Source sequence(s)
      AJ010347, AK293272, DC310579
      Consensus CDS
      CCDS9316.1
      UniProtKB/TrEMBL
      B4DDP0
      UniProtKB/TrEMBL
      Q5W0H0
      UniProtKB/Swiss-Prot
      Q9Y252
      Related
      ENSP00000342121, OTTHUMP00000018154, ENST00000346166, OTTHUMT00000044241
      Conserved Domains (2) summary
      cd00162
      Location:632 – 676
      Blast Score: 156
      RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...
      pfam13923
      Location:631 – 674
      Blast Score: 137
      zf-C3HC4_2; Zinc finger, C3HC4 type (RING finger)

    3. NM_183044.2 → NP_898865.1  E3 ubiquitin-protein ligase RNF6

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR, as compared to variant 1.
      Source sequence(s)
      AY009109, BP310130, BU633523, DB062601
      Consensus CDS
      CCDS9316.1
      UniProtKB/TrEMBL
      Q5W0H0
      UniProtKB/Swiss-Prot
      Q9Y252
      Related
      ENSP00000370982, OTTHUMP00000018155, ENST00000381570, OTTHUMT00000044242
      Conserved Domains (2) summary
      cd00162
      Location:632 – 676
      Blast Score: 156
      RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...
      pfam13923
      Location:631 – 674
      Blast Score: 137
      zf-C3HC4_2; Zinc finger, C3HC4 type (RING finger)

    RefSeqs of Annotated Genomes: Build 37.3

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

    Reference GRCh37.p5 Primary Assembly

    Genomic

    1. NC_000013.10 Reference GRCh37.p5 Primary Assembly

      Range
      26786905..26796508, complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate HuRef

    Genomic

    1. AC_000145.1 Alternate HuRef

      Range
      7604511..7614114, complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_183045.1: Suppressed sequence

      Description
      NM_183045.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
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    Related Sequences

    Nucleotide Protein
    Heading Accession and Version
    genomic AL138966.19 CAH73183.1
    genomic CH471075.1 EAX08380.1
      EAX08381.1
      EAX08382.1
      EAX08383.1
    mRNA AF293342.1 AAK00848.1
    mRNA AJ010346.1 CAB40413.1
    mRNA AJ010347.1 CAB40414.1
    mRNA AK293272.1 BAG56801.1
    mRNA AK312435.1 BAG35344.1
    mRNA AL133621.1 CAB63747.1
    mRNA AY009109.1 AAG49400.1
    mRNA BC034688.2 AAH34688.1
    mRNA BI461269.1 None
    mRNA BP310130.1 None
    mRNA BU633523.1 None
    mRNA CR749238.1 CAH18094.1
    mRNA DB062601.1 None
    mRNA DC310579.1 None
    other-genetic DQ891481.2 ABM82407.1
    other-genetic DQ896825.2 ABM87824.1
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5W0H0 GenPept UniProtKB/TrEMBL:Q5W0H0
    Q68DX6 GenPept UniProtKB/TrEMBL:Q68DX6
    Q9BZP5 GenPept UniProtKB/TrEMBL:Q9BZP5
    Q9Y252.1 GenPept UniProtKB/Swiss-Prot:Q9Y252
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    Additional Links

    Gene LinkOut

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

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