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    LTN1 listerin E3 ubiquitin protein ligase 1 [ Homo sapiens (human) ]

    Gene ID: 26046, updated on 12-Nov-2024

    Summary

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    Official Symbol
    LTN1provided by HGNC
    Official Full Name
    listerin E3 ubiquitin protein ligase 1provided by HGNC
    Primary source
    HGNC:HGNC:13082
    See related
    Ensembl:ENSG00000198862 MIM:613083; AllianceGenome:HGNC:13082
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    RNF160; ZNF294; C21orf10; C21orf98
    Summary
    Like most RING finger proteins, LTN1 functions as an E3 ubiquitin ligase (Chu et al., 2009 [PubMed 19196968]).[supplied by OMIM, Nov 2010]
    Expression
    Ubiquitous expression in thyroid (RPKM 7.5), placenta (RPKM 7.3) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See LTN1 in Genome Data Viewer
    Location:
    21q21.3
    Exon count:
    32
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 21 NC_000021.9 (28928144..28992877, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 21 NC_060945.1 (27290835..27355596, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 21 NC_000021.8 (30300466..30365198, complement)

    Chromosome 21 - NC_000021.9Genomic Context describing neighboring genes Neighboring gene THUMP domain containing 1 pseudogene 1 Neighboring gene uncharacterized LOC124905004 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr21:30294636-30295176 Neighboring gene ReSE screen-validated silencer GRCh37_chr21:30341106-30341288 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18324 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18325 Neighboring gene uncharacterized LOC105372766 Neighboring gene ribosomal protein L23 pseudogene 2

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    Related articles in PubMed

    1. Expression Analysis of Ermin and Listerin E3 Ubiquitin Protein Ligase 1 Genes in the Periphery of Patients with Schizophrenia. Farhang S, et al. J Mol Neurosci, 2022 Feb. PMID 34676516
    2. LTN1 promotes RLR degradation to inhibit immune response to RNA virus through the ESCRT pathway. Qin F, et al. Autophagy, 2024 Jun. PMID 38060409,
    3. A mouse forward genetics screen identifies LISTERIN as an E3 ubiquitin ligase involved in neurodegeneration. Chu J, et al. Proc Natl Acad Sci U S A, 2009 Feb 17. PMID 19196968, Free PMC Article
    4. Newly translated proteins are substrates for ubiquitin, ISG15, and FAT10. Spinnenhirn V, et al. FEBS Lett, 2017 Jan. PMID 27926780
    5. Tuning BRCA1 and BARD1 activity to investigate RING ubiquitin ligase mechanisms. Stewart MD, et al. Protein Sci, 2017 Mar. PMID 27977889, Free PMC Article

    See all (86) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. LTN1 promotes RLR degradation to inhibit immune response to RNA virus through the ESCRT pathway.
      Title: LTN1 promotes RLR degradation to inhibit immune response to RNA virus through the ESCRT pathway.
    2. Expression Analysis of Ermin and Listerin E3 Ubiquitin Protein Ligase 1 Genes in the Periphery of Patients with Schizophrenia.
      Title: Expression Analysis of Ermin and Listerin E3 Ubiquitin Protein Ligase 1 Genes in the Periphery of Patients with Schizophrenia.
    3. E3 ligase listerin accesses nascent polypeptides stalled at the Sec61 translocon via a gap in the ribosome-translocon junction near the Sec61 lateral gate.
      Title: The ribosome quality control pathway can access nascent polypeptides stalled at the Sec61 translocon.
    4. Results show that Listerin specificity for nascent chain-60S complexes depends on nuclear export mediator factor.
      Title: Structure and assembly pathway of the ribosome quality control complex.
    5. Clinical trial of gene-disease association and gene-environment interaction. (HuGE Navigator)
      Title: Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score.
    Submit: New GeneRIF Correction

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • FLJ11053, KIAA0714

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables ribosomal large subunit binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables ubiquitin protein ligase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables ubiquitin protein ligase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in protein autoubiquitination IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in rescue of stalled ribosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in rescue of stalled ribosome IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in ribosome-associated ubiquitin-dependent protein catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in ribosome-associated ubiquitin-dependent protein catabolic process IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of RQC complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of RQC complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in cytosolic ribosome IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    E3 ubiquitin-protein ligase listerin
    Names
    RING-type E3 ubiquitin transferase listerin
    ring finger protein 160
    zinc finger protein 294
    NP_001307695.2
    NP_056380.3
    XP_016883806.1
    XP_047296696.1
    XP_047296697.1
    XP_047296698.1
    XP_054180403.1
    XP_054180404.1
    XP_054180405.1
    XP_054180406.1
    XP_054189279.1
    XP_054189280.1
    XP_054189281.1
    XP_054189282.1

    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_001320766.2 → NP_001307695.2  E3 ubiquitin-protein ligase listerin isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate, in-frame exon in the central coding region compared to variant 1. It encodes isoform 2, which is shorter than isoform 1.
      Source sequence(s)
      AB018257, AF260011, BC029371, BC140790, BF059116, HY001556
      Conserved Domains (1) summary
      COG5219
      Location:1463 → 1751
      COG5219; Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

    2. NM_015565.3 → NP_056380.3  E3 ubiquitin-protein ligase listerin isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AB018257, BC140790, BF059116, DB452437
      Consensus CDS
      CCDS33527.3
      UniProtKB/Swiss-Prot
      A6NL41, A7E2D0, B2RTS0, C9J7U3, J3KPL4, O94822, Q05C47, Q9H8M4, Q9NUY5, Q9P0E9
      Related
      ENSP00000354977.4, ENST00000361371.10
      Conserved Domains (1) summary
      COG5219
      Location:1477 → 1765
      COG5219; Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000021.9 Reference GRCh38.p14 Primary Assembly

      Range
      28928144..28992877 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047440741.1 → XP_047296697.1  E3 ubiquitin-protein ligase listerin isoform X2

    2. XM_047440740.1 → XP_047296696.1  E3 ubiquitin-protein ligase listerin isoform X1

    3. XM_017028317.2 → XP_016883806.1  E3 ubiquitin-protein ligase listerin isoform X3

    4. XM_047440742.1 → XP_047296698.1  E3 ubiquitin-protein ligase listerin isoform X4

    Reference GRCh38.p14 PATCHES

    Genomic

    1. NW_025791813.1 Reference GRCh38.p14 PATCHES

      Range
      18878..83611 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054333305.1 → XP_054189280.1  E3 ubiquitin-protein ligase listerin isoform X2

    2. XM_054333304.1 → XP_054189279.1  E3 ubiquitin-protein ligase listerin isoform X1

    3. XM_054333306.1 → XP_054189281.1  E3 ubiquitin-protein ligase listerin isoform X3

    4. XM_054333307.1 → XP_054189282.1  E3 ubiquitin-protein ligase listerin isoform X4

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060945.1 Alternate T2T-CHM13v2.0

      Range
      27290835..27355596 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054324429.1 → XP_054180404.1  E3 ubiquitin-protein ligase listerin isoform X2

    2. XM_054324428.1 → XP_054180403.1  E3 ubiquitin-protein ligase listerin isoform X1

    3. XM_054324430.1 → XP_054180405.1  E3 ubiquitin-protein ligase listerin isoform X3

    4. XM_054324431.1 → XP_054180406.1  E3 ubiquitin-protein ligase listerin isoform X4

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    O94822.6 GenPept UniProtKB/Swiss-Prot:O94822

    Gene LinkOut

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