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

Gene ID: 55284, updated on 7-Apr-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
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Genomic context

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Location:
8q21.11
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 8 NC_000008.11 (73780096..73878862, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 8 NC_060932.1 (74209518..74308222, complement)
105.20220307 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
  • 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. 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
  3. 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
  4. Building ubiquitin chains: E2 enzymes at work. Ye Y, et al. Nat Rev Mol Cell Biol, 2009 Nov. PMID 19851334, 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 (61) 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_2023_10

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

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