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    UBE2W ubiquitin conjugating enzyme E2 W [ Homo sapiens (human) ]

    Gene ID: 55284, updated on 2-Nov-2024

    Summary

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    Official Symbol
    UBE2Wprovided by HGNC
    Official Full Name
    ubiquitin conjugating enzyme E2 Wprovided by HGNC
    Primary source
    HGNC:HGNC:25616
    See related
    Ensembl:ENSG00000104343 MIM:614277; AllianceGenome:HGNC:25616
    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
    UBC16; UBC-16
    Summary
    This gene encodes a nuclear-localized ubiquitin-conjugating enzyme (E2) that, along with ubiquitin-activating (E1) and ligating (E3) enzymes, coordinates the addition of a ubiquitin moiety to existing proteins. The encoded protein promotes the ubiquitination of Fanconi anemia complementation group proteins and may be important in the repair of DNA damage. There is a pseudogene for this gene on chromosome 1. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Aug 2012]
    Expression
    Ubiquitous expression in brain (RPKM 6.0), thyroid (RPKM 4.9) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See UBE2W in Genome Data Viewer
    Location:
    8q21.11
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 8 NC_000008.11 (73780096..73878862, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 8 NC_060932.1 (74209518..74308222, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 8 NC_000008.10 (74692331..74791097, complement)

    Chromosome 8 - NC_000008.11Genomic Context describing neighboring genes Neighboring gene STAU2 antisense RNA 1 Neighboring gene staufen double-stranded RNA binding protein 2 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27532 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr8:74500454-74500955 Neighboring gene Sharpr-MPRA regulatory region 7553 Neighboring gene ReSE screen-validated silencer GRCh37_chr8:74583372-74583561 Neighboring gene MPRA-validated peak7072 silencer Neighboring gene VENT homeobox pseudogene 6 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19288 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19289 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19290 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19291 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19292 Neighboring gene ReSE screen-validated silencer GRCh37_chr8:74743717-74743929 Neighboring gene H3K27ac hESC enhancer GRCh37_chr8:74756087-74756814 Neighboring gene RNA, 7SL, cytoplasmic 760, pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27533 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:74785489-74785988 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27534 Neighboring gene H3K27ac hESC enhancer GRCh37_chr8:74790306-74791183 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27535 Neighboring gene long intergenic non-protein coding RNA 1617 Neighboring gene glycogenin 1 pseudogene 1

    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. Genetic code expansion reveals aminoacylated lysine ubiquitination mediated by UBE2W. Zang J, et al. Nat Struct Mol Biol, 2023 Jan. PMID 36593310
    2. Profiling of autoantibodies in IgA nephropathy, an integrative antibiomics approach. Sigdel TK, et al. Clin J Am Soc Nephrol, 2011 Dec. PMID 22157707, Free PMC Article
    3. Building ubiquitin chains: E2 enzymes at work. Ye Y, et al. Nat Rev Mol Cell Biol, 2009 Nov. PMID 19851334, Free PMC Article
    4. Prognostic value of ubiquitin E2 UBE2W and its correlation with tumor-infiltrating immune cells in breast cancer. Yuan Y, et al. BMC Cancer, 2021 Apr 30. PMID 33931024, Free PMC Article
    5. Loss of ubiquitin E2 Ube2w rescues hypersensitivity of Rnf4 mutant cells to DNA damage. Maure JF, et al. Sci Rep, 2016 May 17. PMID 27185577, Free PMC Article

    See all (67) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Genetic code expansion reveals aminoacylated lysine ubiquitination mediated by UBE2W.
      Title: Genetic code expansion reveals aminoacylated lysine ubiquitination mediated by UBE2W.
    2. Prognostic value of ubiquitin E2 UBE2W and its correlation with tumor-infiltrating immune cells in breast cancer.
      Title: Prognostic value of ubiquitin E2 UBE2W and its correlation with tumor-infiltrating immune cells in breast cancer.
    3. we show in vitro that UBE2W can modify the N-terminus of both a-synuclein and a tau tetra-repeat domain with a single ubiquitin. We demonstrate that an engineered N-terminal ubiquitin modification changes the aggregation process of both proteins, resulting in the formation of structurally distinct aggregates
      Title: N-Terminal Ubiquitination of Amyloidogenic Proteins Triggers Removal of Their Oligomers by the Proteasome Holoenzyme.
    4. Thus, although Rnf4 and Ube2w functionally interact in vitro, these genetic experiments indicate that in response to DNA damage Ube2w and Rnf4 function in distinct pathways.
      Title: Loss of ubiquitin E2 Ube2w rescues hypersensitivity of Rnf4 mutant cells to DNA damage.
    5. TRIM5alpha requires Ube2W to anchor Lys63-linked ubiquitin chains and restrict reverse transcription.
      Title: TRIM5α requires Ube2W to anchor Lys63-linked ubiquitin chains and restrict reverse transcription.
    6. We show the ubequitin-conjugating enzyme (E2) Ube2w uses a unique mechanism to facilitate the specific ubiquitination of the alpha-amino group
      Title: Intrinsic disorder drives N-terminal ubiquitination by Ube2w.
    7. Ube2w has novel enzymatic properties that direct ubiquitination of the N terminus of substrates
      Title: The ubiquitin-conjugating enzyme (E2) Ube2w ubiquitinates the N terminus of substrates.
    8. UBE2W regulates FANCD2 monoubiquitination by mechanisms different from UBE2T and HRR6.
      Title: UBE2W interacts with FANCL and regulates the monoubiquitination of Fanconi anemia protein FANCD2.
    9. human Ubiquitin-conjugating enzyme (E2) is homologous to the Arabidopsis thaliana UBC-16 gene product and contains 2 nuclear localization signals
      Title: Cloning, characterization and subcellular localization of a gene encoding a human Ubiquitin-conjugating enzyme (E2) homologous to the Arabidopsis thaliana UBC-16 gene product.
    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

    • FLJ11011, FLJ41537

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables ubiquitin conjugating enzyme activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables ubiquitin conjugating enzyme activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables ubiquitin protein ligase binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables ubiquitin-protein transferase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables ubiquitin-protein transferase activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in DNA repair IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in antiviral innate immune response IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in cellular response to misfolded protein ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in negative regulation of TORC1 signaling IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in proteasome-mediated ubiquitin-dependent protein catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in proteasome-mediated ubiquitin-dependent protein catabolic process IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in proteasome-mediated ubiquitin-dependent protein catabolic process ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in protein K11-linked ubiquitination IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in protein monoubiquitination IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in protein monoubiquitination IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in protein polyubiquitination IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in protein quality control for misfolded or incompletely synthesized proteins ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm IC
    Inferred by Curator
    more info
    		 PubMed 
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    ubiquitin-conjugating enzyme E2 W
    Names
    E2 ubiquitin-conjugating enzyme W
    N-terminal E2 ubiquitin-conjugating enzyme
    N-terminus-conjugating E2
    ubiquitin carrier protein W
    ubiquitin conjugating enzyme E2 W (putative)
    ubiquitin conjugating enzyme E2W (putative)
    ubiquitin-conjugating enzyme 16
    ubiquitin-conjugating enzyme 2W
    ubiquitin-protein ligase W
    NP_001001481.3
    NP_001257944.2
    NP_060769.5

    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_001001481.4 → NP_001001481.3  ubiquitin-conjugating enzyme E2 W isoform 1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      AC022826, AK024050, BX538145
      Consensus CDS
      CCDS47875.3
      UniProtKB/TrEMBL
      H3BMM0
      Related
      ENSP00000498255.1, ENST00000650817.1
      Conserved Domains (1) summary
      pfam00179
      Location:18 → 159
      UQ_con; Ubiquitin-conjugating enzyme

    2. NM_001271015.3 → NP_001257944.2  ubiquitin-conjugating enzyme E2 W isoform 3

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) lacks an alternate in-frame exon in the 5' coding region, lacks a portion of the 3' coding region, and differs in the 3' UTR, compared to variant 1. The encoded isoform (3) is shorter and has a distinct C-terminus, compared to isoform 1.
      Source sequence(s)
      AC022826, AK295792, BC010900
      UniProtKB/TrEMBL
      Q96FI0
      Related
      ENSP00000428835.1, ENST00000523278.5
      Conserved Domains (1) summary
      pfam00179
      Location:7 → 147
      UQ_con; Ubiquitin-conjugating enzyme

    3. NM_018299.6 → NP_060769.5  ubiquitin-conjugating enzyme E2 W isoform 2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) lacks an alternate in-frame exon in the coding region, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
      Source sequence(s)
      AC022826, AK295792, BC016326, BX538145
      Consensus CDS
      CCDS47874.3
      UniProtKB/Swiss-Prot
      B4DIV1, Q1XBE0, Q96B02, Q9H823, Q9HAG6, Q9NV07
      UniProtKB/TrEMBL
      H3BMM0
      Related
      ENSP00000473561.1, ENST00000602593.6
      Conserved Domains (1) summary
      pfam00179
      Location:7 → 148
      UQ_con; Ubiquitin-conjugating enzyme

    RNA

    1. NR_073119.3 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) lacks two internal exons and contains an alternate exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AC022826, AK295792, BX538145, DA352184

    2. NR_073120.3 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (5) lacks two internal exons and contains an alternate exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AC022826, AK295792, BU155172, BX538145

    3. NR_073121.3 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (6) lacks two internal exons, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AC022826, AK295792, BX538145, BX648427

    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_000008.11 Reference GRCh38.p14 Primary Assembly

      Range
      73780096..73878862 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060932.1 Alternate T2T-CHM13v2.0

      Range
      74209518..74308222 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001001482.1: Suppressed sequence

      Description
      NM_001001482.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q96B02.1 GenPept UniProtKB/Swiss-Prot:Q96B02

    Gene LinkOut

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

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