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

Gene ID: 26046, updated on 5-Mar-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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Location:
21q21.3
Exon count:
32
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 21 NC_000021.9 (28928144..28992877, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 21 NC_060945.1 (27290835..27355596, complement)
105.20220307 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
  • 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. Tuning BRCA1 and BARD1 activity to investigate RING ubiquitin ligase mechanisms. Stewart MD, et al. Protein Sci, 2017 Mar. PMID 27977889, Free PMC Article
  3. Newly translated proteins are substrates for ubiquitin, ISG15, and FAT10. Spinnenhirn V, et al. FEBS Lett, 2017 Jan. PMID 27926780
  4. 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
  5. The ribosome quality control pathway can access nascent polypeptides stalled at the Sec61 translocon. von der Malsburg K, et al. Mol Biol Cell, 2015 Jun 15. PMID 25877867, Free PMC Article

See all (75) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. 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.
  2. 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.
  3. 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.
  4. 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)

Genotypes

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_2023_10

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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