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    UBE2D2 ubiquitin conjugating enzyme E2 D2 [ Homo sapiens (human) ]

    Gene ID: 7322, updated on 5-Jan-2020

    Summary

    Official Symbol
    UBE2D2provided by HGNC
    Official Full Name
    ubiquitin conjugating enzyme E2 D2provided by HGNC
    Primary source
    HGNC:HGNC:12475
    See related
    Ensembl:ENSG00000131508 MIM:602962
    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
    UBC4; PUBC1; UBCH4; UBC4/5; UBCH5B; E2(17)KB2
    Summary
    Regulated degradation of misfolded, damaged or short-lived proteins in eukaryotes occurs via the ubiquitin (Ub)-proteasome system (UPS). An integral part of the UPS system is the ubiquitination of target proteins and covalent linkage of Ub-containing proteins to form polymeric chains, marking them as targets for 26S proteasome-mediated degradation. Ubiquitination of proteins is mediated by a cascade of enzymes which includes E1 (ubiquitin activating), E2 (ubiquitin conjugating), and E3 (ubiquitin ligases) enzymes. This gene encodes a member of the E2 enzyme family. Substrates of this enzyme include the tumor suppressor protein p53 and peroxisomal biogenesis factor 5 (PEX5). Alternative splicing results in multiple transcript variants of this gene. [provided by RefSeq, May 2013]
    Expression
    Ubiquitous expression in testis (RPKM 32.5), brain (RPKM 24.1) and 25 other tissues See more
    Orthologs

    Genomic context

    See UBE2D2 in Genome Data Viewer
    Location:
    5q31.2
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    109.20191205 current GRCh38.p13 (GCF_000001405.39) 5 NC_000005.10 (139561166..139628434)
    105 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (138940751..139008019)

    Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene cancer-related nucleoside-triphosphatase pseudogene Neighboring gene nuclear receptor coactivator 4 pseudogene 4 Neighboring gene heat shock protein family E (Hsp10) member 1 pseudogene 15 Neighboring gene H3 histone pseudogene 25 Neighboring gene CRISPRi-validated cis-regulatory element chr5.3240 Neighboring gene CXXC5 antisense RNA 1 Neighboring gene CXXC finger protein 5

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    NHGRI GWAS Catalog

    Description
    Genome-wide analysis of polymorphisms associated with cytokine responses in smallpox vaccine recipients.
    NHGRI GWA Catalog

    HIV-1 interactions

    Protein interactions

    Protein Gene Interaction Pubs
    Vif vif CUL5/RBX2/ELOB/ELOC/Vif/CBF-beta complex catalyzes polyubiquitin chain formation on A3G in the presence of ubiquitin E2 UBE2R1 (CDC34) or UBCH5b (UBE2D2) PubMed
    integrase gag-pol Analysis of HIV-1 proviral integration sites in antiretroviral treatment patients indicates that UBE2D2 gene favors HIV-1 integration for expansion and persistence of infected cells, suggesting HIV-1 IN interacts with UBE2D2 PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    ATP binding IEA
    Inferred from Electronic Annotation
    more info
     
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    ubiquitin conjugating enzyme activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    ubiquitin conjugating enzyme activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    ubiquitin protein ligase binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    ubiquitin-protein transferase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Process Evidence Code Pubs
    MyD88-independent toll-like receptor signaling pathway TAS
    Traceable Author Statement
    more info
     
    TRIF-dependent toll-like receptor signaling pathway TAS
    Traceable Author Statement
    more info
     
    cellular protein modification process TAS
    Traceable Author Statement
    more info
    PubMed 
    protein K48-linked ubiquitination IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    protein K48-linked ubiquitination IDA
    Inferred from Direct Assay
    more info
    PubMed 
    protein autoubiquitination IDA
    Inferred from Direct Assay
    more info
    PubMed 
    protein polyubiquitination IDA
    Inferred from Direct Assay
    more info
    PubMed 
    protein targeting to peroxisome TAS
    Traceable Author Statement
    more info
     
    protein ubiquitination IDA
    Inferred from Direct Assay
    more info
    PubMed 
    protein ubiquitination TAS
    Traceable Author Statement
    more info
     
    ubiquitin-dependent protein catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    Component Evidence Code Pubs
    cytosol TAS
    Traceable Author Statement
    more info
     
    extracellular exosome HDA PubMed 
    nucleoplasm TAS
    Traceable Author Statement
    more info
     
    protein-containing complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    ubiquitin ligase complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    ubiquitin ligase complex IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    ubiquitin-conjugating enzyme E2 D2
    Names
    (E3-independent) E2 ubiquitin-conjugating enzyme D2
    E2 ubiquitin-conjugating enzyme D2
    p53-regulated ubiquitin-conjugating enzyme 1
    ubiquitin carrier protein D2
    ubiquitin conjugating enzyme E2D 2
    ubiquitin-conjugating enzyme E2-17 kDa 2
    ubiquitin-conjugating enzyme E2D 2 (homologous to yeast UBC4/5)
    ubiquitin-protein ligase D2
    NP_003330.1
    NP_862821.1
    XP_016865309.1

    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.

    mRNA and Protein(s)

    1. NM_003339.3NP_003330.1  ubiquitin-conjugating enzyme E2 D2 isoform 1

      See identical proteins and their annotated locations for NP_003330.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (1).
      Source sequence(s)
      AF317220, AK001311, AK001428, BC033349
      Consensus CDS
      CCDS43369.1
      UniProtKB/Swiss-Prot
      P62837
      Related
      ENSP00000381717.3, ENST00000398733.8
      Conserved Domains (1) summary
      cl00154
      Location:1146
      UBCc; Ubiquitin-conjugating enzyme E2, catalytic (UBCc) domain. This is part of the ubiquitin-mediated protein degradation pathway in which a thiol-ester linkage forms between a conserved cysteine and the C-terminus of ubiquitin and complexes with ubiquitin ...
    2. NM_181838.1NP_862821.1  ubiquitin-conjugating enzyme E2 D2 isoform 2

      See identical proteins and their annotated locations for NP_862821.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) contains an alternate exon in the 5' region, differs in the 5' UTR and initiates translation at a downstream start codon, compared to variant 1. It encodes isoform 2 which is shorter at the N-terminus compared to isoform 1.
      Source sequence(s)
      AF317220, AK001311, AK001428, BC033349, BC048426, BQ186099
      Consensus CDS
      CCDS47275.1
      UniProtKB/Swiss-Prot
      P62837
      Related
      ENSP00000424941.1, ENST00000505548.5
      Conserved Domains (1) summary
      cl00154
      Location:1117
      UBCc; Ubiquitin-conjugating enzyme E2, catalytic (UBCc) domain. This is part of the ubiquitin-mediated protein degradation pathway in which a thiol-ester linkage forms between a conserved cysteine and the C-terminus of ubiquitin and complexes with ubiquitin ...

    RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20191205

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

    Reference GRCh38.p13 Primary Assembly

    Genomic

    1. NC_000005.10 Reference GRCh38.p13 Primary Assembly

      Range
      139561166..139628434
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017009820.1XP_016865309.1  ubiquitin-conjugating enzyme E2 D2 isoform X1

      Conserved Domains (2) summary
      COG5078
      Location:35173
      COG5078; Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
      cl00154
      Location:35172
      UBCc; Ubiquitin-conjugating enzyme E2, catalytic (UBCc) domain. This is part of the ubiquitin-mediated protein degradation pathway in which a thiol-ester linkage forms between a conserved cysteine and the C-terminus of ubiquitin and complexes with ubiquitin ...
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