LOCUS       NM_181891               3729 bp    mRNA    linear   PRI 19-SEP-2024
DEFINITION  Homo sapiens ubiquitin conjugating enzyme E2 D3 (UBE2D3),
            transcript variant 7, mRNA.
ACCESSION   NM_181891
VERSION     NM_181891.3
KEYWORDS    RefSeq; MANE Select.
SOURCE      Homo sapiens (human)
  ORGANISM  Homo sapiens
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini;
            Catarrhini; Hominidae; Homo.
REFERENCE   1  (bases 1 to 3729)
  AUTHORS   Yalcin,Z., Koot,D., Bezstarosti,K., Salas-Lloret,D.,
            Bleijerveld,O.B., Boersma,V., Falcone,M., Gonzalez-Prieto,R.,
            Altelaar,M., Demmers,J.A.A. and Jacobs,J.J.L.
  TITLE     Ubiquitinome Profiling Reveals in Vivo UBE2D3 Targets and
            Implicates UBE2D3 in Protein Quality Control
  JOURNAL   Mol Cell Proteomics 22 (6), 100548 (2023)
   PUBMED   37059365
  REMARK    GeneRIF: Ubiquitinome Profiling Reveals in Vivo UBE2D3 Targets and
            Implicates UBE2D3 in Protein Quality Control.
REFERENCE   2  (bases 1 to 3729)
  AUTHORS   Jiang,C., Dai,X., He,S., Zhou,H., Fang,L., Guo,J., Liu,S.,
            Zhang,T., Pan,W., Yu,H., Fu,T., Li,D., Inuzuka,H., Wang,P., Xiao,J.
            and Wei,W.
  TITLE     Ring domains are essential for GATOR2-dependent mTORC1 activation
  JOURNAL   Mol Cell 83 (1), 74-89 (2023)
   PUBMED   36528027
REFERENCE   3  (bases 1 to 3729)
  AUTHORS   Ray,P., Nancarrow,D.J., Ferrer-Torres,D., Wang,Z., San Martinho,M.,
            Hinton,T., Wu,J.H., Wu,A., Turgeon,D.K., Hammer,M.A., Dame,M.K.,
            Lawrence,T.S., O'Brien,P.J., Spence,J.R., Beer,D.G. and Ray,D.
  TITLE     UBCH5 Family Members Differentially Impact Stabilization of Mutant
            p53 via RNF128 Iso1 During Barrett's Progression to Esophageal
            Adenocarcinoma
  JOURNAL   Cell Mol Gastroenterol Hepatol 13 (1), 129-149 (2022)
   PUBMED   34416429
  REMARK    GeneRIF: UBCH5 Family Members Differentially Impact Stabilization
            of Mutant p53 via RNF128 Iso1 During Barrett's Progression to
            Esophageal Adenocarcinoma.
REFERENCE   4  (bases 1 to 3729)
  AUTHORS   Huttlin,E.L., Bruckner,R.J., Navarrete-Perea,J., Cannon,J.R.,
            Baltier,K., Gebreab,F., Gygi,M.P., Thornock,A., Zarraga,G., Tam,S.,
            Szpyt,J., Gassaway,B.M., Panov,A., Parzen,H., Fu,S., Golbazi,A.,
            Maenpaa,E., Stricker,K., Guha Thakurta,S., Zhang,T., Rad,R.,
            Pan,J., Nusinow,D.P., Paulo,J.A., Schweppe,D.K., Vaites,L.P.,
            Harper,J.W. and Gygi,S.P.
  TITLE     Dual proteome-scale networks reveal cell-specific remodeling of the
            human interactome
  JOURNAL   Cell 184 (11), 3022-3040 (2021)
   PUBMED   33961781
REFERENCE   5  (bases 1 to 3729)
  AUTHORS   Haenig,C., Atias,N., Taylor,A.K., Mazza,A., Schaefer,M.H., Russ,J.,
            Riechers,S.P., Jain,S., Coughlin,M., Fontaine,J.F., Freibaum,B.D.,
            Brusendorf,L., Zenkner,M., Porras,P., Stroedicke,M., Schnoegl,S.,
            Arnsburg,K., Boeddrich,A., Pigazzini,L., Heutink,P., Taylor,J.P.,
            Kirstein,J., Andrade-Navarro,M.A., Sharan,R. and Wanker,E.E.
  TITLE     Interactome Mapping Provides a Network of Neurodegenerative Disease
            Proteins and Uncovers Widespread Protein Aggregation in Affected
            Brains
  JOURNAL   Cell Rep 32 (7), 108050 (2020)
   PUBMED   32814053
REFERENCE   6  (bases 1 to 3729)
  AUTHORS   Ohta,T., Michel,J.J., Schottelius,A.J. and Xiong,Y.
  TITLE     ROC1, a homolog of APC11, represents a family of cullin partners
            with an associated ubiquitin ligase activity
  JOURNAL   Mol Cell 3 (4), 535-541 (1999)
   PUBMED   10230407
REFERENCE   7  (bases 1 to 3729)
  AUTHORS   Anan,T., Nagata,Y., Koga,H., Honda,Y., Yabuki,N., Miyamoto,C.,
            Kuwano,A., Matsuda,I., Endo,F., Saya,H. and Nakao,M.
  TITLE     Human ubiquitin-protein ligase Nedd4: expression, subcellular
            localization and selective interaction with ubiquitin-conjugating
            enzymes
  JOURNAL   Genes Cells 3 (11), 751-763 (1998)
   PUBMED   9990509
REFERENCE   8  (bases 1 to 3729)
  AUTHORS   Rogakou,E.P., Pilch,D.R., Orr,A.H., Ivanova,V.S. and Bonner,W.M.
  TITLE     DNA double-stranded breaks induce histone H2AX phosphorylation on
            serine 139
  JOURNAL   J Biol Chem 273 (10), 5858-5868 (1998)
   PUBMED   9488723
REFERENCE   9  (bases 1 to 3729)
  AUTHORS   Jensen,J.P., Bates,P.W., Yang,M., Vierstra,R.D. and Weissman,A.M.
  TITLE     Identification of a family of closely related human ubiquitin
            conjugating enzymes
  JOURNAL   J Biol Chem 270 (51), 30408-30414 (1995)
   PUBMED   8530467
REFERENCE   10 (bases 1 to 3729)
  AUTHORS   Scheffner,M., Huibregtse,J.M. and Howley,P.M.
  TITLE     Identification of a human ubiquitin-conjugating enzyme that
            mediates the E6-AP-dependent ubiquitination of p53
  JOURNAL   Proc Natl Acad Sci U S A 91 (19), 8797-8801 (1994)
   PUBMED   8090726
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from DA494746.1, BC003395.1,
            AC018797.4 and BM967209.1.
            
            On Nov 23, 2018 this sequence version replaced NM_181891.2.
            
            Summary: The modification of proteins with ubiquitin is an
            important cellular mechanism for targeting abnormal or short-lived
            proteins for degradation. Ubiquitination involves at least three
            classes of enzymes: ubiquitin-activating enzymes, or E1s,
            ubiquitin-conjugating enzymes, or E2s, and ubiquitin-protein
            ligases, or E3s. This gene encodes a member of the E2
            ubiquitin-conjugating enzyme family. This enzyme functions in the
            ubiquitination of the tumor-suppressor protein p53, which is
            induced by an E3 ubiquitin-protein ligase. [provided by RefSeq, Jan
            2017].
            
            Transcript Variant: This variant (7) has an additional segment in
            the 5' UTR, and encodes the same isoform (1), as compared to
            variant 1.
            
            Sequence Note: This RefSeq record was created from transcript and
            genomic sequence data to make the sequence consistent with the
            reference genome assembly. The genomic coordinates used for the
            transcript record were based on transcript alignments.
            
            Publication Note:  This RefSeq record includes a subset of the
            publications that are available for this gene. Please see the Gene
            record to access additional publications.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR1803611.214298.1,
                                           SRR1803613.270422.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA2142680, SAMEA2153733
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000453744.7/ ENSP00000396901.2
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-304               DA494746.1         242-545
            305-1522            BC003395.1         217-1434
            1523-3509           AC018797.4         91225-93211         c
            3510-3729           BM967209.1         193-412
FEATURES             Location/Qualifiers
     source          1..3729
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="4"
                     /map="4q24"
     gene            1..3729
                     /gene="UBE2D3"
                     /gene_synonym="E2(17)KB3; UBC4/5; UBCH5C"
                     /note="ubiquitin conjugating enzyme E2 D3"
                     /db_xref="GeneID:7323"
                     /db_xref="HGNC:HGNC:12476"
                     /db_xref="MIM:602963"
     exon            1..125
                     /gene="UBE2D3"
                     /gene_synonym="E2(17)KB3; UBC4/5; UBCH5C"
                     /inference="alignment:Splign:2.1.0"
     exon            126..277
                     /gene="UBE2D3"
                     /gene_synonym="E2(17)KB3; UBC4/5; UBCH5C"
                     /inference="alignment:Splign:2.1.0"
     CDS             254..697
                     /gene="UBE2D3"
                     /gene_synonym="E2(17)KB3; UBC4/5; UBCH5C"
                     /EC_number="2.3.2.23"
                     /EC_number="2.3.2.24"
                     /note="isoform 1 is encoded by transcript variant 7;
                     ubiquitin-conjugating enzyme E2D 3 (UBC4/5 homolog,
                     yeast); ubiquitin-conjugating enzyme E2-17 kDa 3;
                     ubiquitin-protein ligase D3; ubiquitin carrier protein D3;
                     ubiquitin-conjugating enzyme E2(17)KB 3; ubiquitin
                     conjugating enzyme E2D 3; E2 ubiquitin-conjugating enzyme
                     D3; (E3-independent) E2 ubiquitin-conjugating enzyme D3;
                     ubiquitin-conjugating enzyme E2D 3 (homologous to yeast
                     UBC4/5)"
                     /codon_start=1
                     /product="ubiquitin-conjugating enzyme E2 D3 isoform 1"
                     /protein_id="NP_871620.1"
                     /db_xref="CCDS:CCDS3660.1"
                     /db_xref="GeneID:7323"
                     /db_xref="HGNC:HGNC:12476"
                     /db_xref="MIM:602963"
                     /translation="MALKRINKELSDLARDPPAQCSAGPVGDDMFHWQATIMGPNDSP
                     YQGGVFFLTIHFPTDYPFKPPKVAFTTRIYHPNINSNGSICLDILRSQWSPALTISKV
                     LLSICSLLCDPNPDDPLVPEIARIYKTDRDKYNRISREWTQKYAM"
     exon            278..341
                     /gene="UBE2D3"
                     /gene_synonym="E2(17)KB3; UBC4/5; UBCH5C"
                     /inference="alignment:Splign:2.1.0"
     exon            342..373
                     /gene="UBE2D3"
                     /gene_synonym="E2(17)KB3; UBC4/5; UBCH5C"
                     /inference="alignment:Splign:2.1.0"
     exon            374..451
                     /gene="UBE2D3"
                     /gene_synonym="E2(17)KB3; UBC4/5; UBCH5C"
                     /inference="alignment:Splign:2.1.0"
     exon            452..557
                     /gene="UBE2D3"
                     /gene_synonym="E2(17)KB3; UBC4/5; UBCH5C"
                     /inference="alignment:Splign:2.1.0"
     exon            558..651
                     /gene="UBE2D3"
                     /gene_synonym="E2(17)KB3; UBC4/5; UBCH5C"
                     /inference="alignment:Splign:2.1.0"
     exon            652..3729
                     /gene="UBE2D3"
                     /gene_synonym="E2(17)KB3; UBC4/5; UBCH5C"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1503..1508
                     /regulatory_class="polyA_signal_sequence"
                     /gene="UBE2D3"
                     /gene_synonym="E2(17)KB3; UBC4/5; UBCH5C"
                     /note="hexamer: AATAAA"
     polyA_site      1522
                     /gene="UBE2D3"
                     /gene_synonym="E2(17)KB3; UBC4/5; UBCH5C"
                     /note="major polyA site"
     regulatory      2115..2120
                     /regulatory_class="polyA_signal_sequence"
                     /gene="UBE2D3"
                     /gene_synonym="E2(17)KB3; UBC4/5; UBCH5C"
                     /note="hexamer: AATAAA"
     polyA_site      2136
                     /gene="UBE2D3"
                     /gene_synonym="E2(17)KB3; UBC4/5; UBCH5C"
                     /note="major polyA site"
     regulatory      3707..3712
                     /regulatory_class="polyA_signal_sequence"
                     /gene="UBE2D3"
                     /gene_synonym="E2(17)KB3; UBC4/5; UBCH5C"
                     /note="hexamer: ATTAAA"
     polyA_site      3729
                     /gene="UBE2D3"
                     /gene_synonym="E2(17)KB3; UBC4/5; UBCH5C"
ORIGIN      
        1 agttccgtca gagcggacat cttgtggctg tgtcgtgcgc gtgagccccg tagggccggg
       61 gaggcaccag ctgccgcgcg gggaggaggc cgaggccgca gcttgaggga ggccccggcc
      121 cctctgcgcc tgtgtctggc agagctggtg tgagacgaga caatcctgcc ccgccgccgg
      181 gataatcaag agttttggcc ggacctttga gcatacaccg agagagtgag gagccagacg
      241 acaagcacac actatggcgc tgaaacggat taataaggaa cttagtgatt tggcccgtga
      301 ccctccagca caatgttctg caggtccagt tggggatgat atgtttcatt ggcaagccac
      361 aattatggga cctaatgaca gcccatatca aggcggtgta ttctttttga caattcattt
      421 tcctacagac taccccttca aaccacctaa ggttgcattt acaacaagaa tttatcatcc
      481 aaatattaac agtaatggca gcatttgtct cgatattcta agatcacagt ggtcgcctgc
      541 tttaacaatt tctaaagttc ttttatccat ttgttcactg ctatgtgatc caaacccaga
      601 tgacccccta gtgccagaga ttgcacggat ctataaaaca gacagagata agtacaacag
      661 aatatctcgg gaatggactc agaagtatgc catgtgatgc taccttaaag tcagaataac
      721 ctgcattata gctggaataa actttaaatt actgttcctt ttttgatttt cttatccggc
      781 tgctccccta tcagacctca tcttttttaa ttttattttt tgtttacctc cctccattca
      841 ttcacatgct catctgagaa gacttaagtt cttccagctt tggacaataa ctgcttttag
      901 aaactgtaaa gtagttacaa gagaacagtt gcccaagact cagaattttt aaaaaaaaaa
      961 atggagcatg tgtattatgt ggccaatgtc ttcactctaa cttggttatg agactaaaac
     1021 cattcctcac tgctctaaca tgctgaagaa atcatctgag ggggagggag atggatgctc
     1081 agttgtcaca tcaaaggata cagcattatt ctagcagcat ccattcttgt ttaagccttc
     1141 cactgttaga gatttgaggt tacatgatat gctttatgct cataactgat gtggctggag
     1201 aattggtatt gaatttatag catcagcaga acagaaaatg tgatgtattt tatgcatgtc
     1261 aataaaggaa tgacctgttc ttgttctaca gagaatggaa attggaagtc aaacaccctt
     1321 tgtattccaa aatagggtct caaacatttt gtaattttca tttaaattgt taggaggctt
     1381 ggagctatta gttaatctat cttccaatac actgtttaat atagcactga ataaatgatg
     1441 caagttgtca atggatgagt gatcaactaa tagctctgct agtaattgat ttatttttct
     1501 tcaataaagt tgcataaacc aatgagttag ctgcctggat taatcagtat gggaaacaat
     1561 cttttgtaaa tgcaaagctg ttttttgtat atactgttgg gatttgcttc attgtttgac
     1621 atcaaatgat gatgtaaagt tcgaaagagt gaatattttg ccatgttcag ttaaagtgca
     1681 cagtctgtta caggttgaca cattgcttga cctgatttat gcagaattaa taagctattt
     1741 ggatagtgta gctttaatgt gctgcacatg atactggcag ccctagagtt catagatgga
     1801 cttttgggac ccagcagttt tgaaatgtgt ttatggagtt taagaaattt attttccagg
     1861 tgcagcccct gtctaactga aatttctctt caccttgtac acttgacagc tgaaaaaaaa
     1921 caacatggga gtaataatgg gtcaaaattt gcaaaataaa gtactgtttt ggtgtgggag
     1981 ttgtcatgag gctgtgttga agtgacttat ctatgtggga tattgagtat ccattgaaat
     2041 ggatttgttc agccatttac attaatgagc atttaaatgc aacagatatc atttcaggtg
     2101 acttaacatg aatgaataaa agtcaatgct attggattgt tttttgtttg acaagtgcta
     2161 tctgtgccac tgatttaact tctgtagtaa caagggcatt accattcttc acctttccta
     2221 attctgatcc catagtttta catttttcct gtttattttg attttgttca ctgctttatt
     2281 tcttaaagtt ctagcacatc tgtgactcct ccacttccac atttttgcac tgcttacact
     2341 tacgtgcaat cttattcctt gtctgcacac acatgtggaa agctagaaat aaatgttaaa
     2401 acttactttt tataaacatt ttaatatgta gtttggacat gatttattga cttaaggttc
     2461 ttctctaaac tggaagtgaa atgcatgcct tctgaagatg ttctggcttt gttaattctg
     2521 taatcatttc attggggaaa aaaccagcta cgcagttttt ccaatgagtg aattttttca
     2581 ttttgtgttt tgcttaaaac ggctccttca gggtagatgt catactgcat aacttttttg
     2641 gattcaaatt atgaatgaga aattagttaa cattctgctc cacaaggtaa gaaaaactgc
     2701 tctttggctc tattttcaaa attacttctg agatgcatat agtctcaaaa taacagcttt
     2761 agtaggcata tcacttcttg aaagccaaac atgagtgtaa gacactttta tgaaacacgg
     2821 tggatcccta actggctttc aaattgacct ttatagcctt agacaaccct taggtattta
     2881 cggagatgac ttctttgatt gtcataacaa ttagtggatg tgtccagttc tctgtatctt
     2941 tgacttgatg ctttatacat catttcattt gttgcttcta agggaataag ccatagaggc
     3001 ttctccaggt ttaaaagaac agtaaagtac ctggaaaacc aacatttttg aatgtatgga
     3061 cactggacat gagatatgta caatgaaatc ttaaaagaat ctaagaattt gccctctttg
     3121 ccccactcca cccagtaatt tgacattact agtgccatgt ataggaccca actgagtatt
     3181 agaatcagtt ttgactatgt ctttgtattt cctaaatctt ttaatgcata aaccgaatta
     3241 gggtccagtt ggcctgttaa tggtaaattt acattttaaa tgactcagtt tgtttttcct
     3301 gggcgagttt gcaatgtgat aatcagattt tttaaaactg attaatttgc tttcttgtgt
     3361 gggtgtactc acattttaaa gtatgaacca cagttaacta gtggtctcag gggtagtgaa
     3421 acactcactt ttttttttgt ttgttttttt ttgtttgttg aaatggctta gttgaagtat
     3481 acttaaggta ctgatcatgc tgtgttagta atttgggcgg ggaggggggt aactcagcca
     3541 tgttttgtgt tggcataaca aaactgttaa tgattgttga ttacactttt aagtgaattt
     3601 gtcttttatg aggaacccag tgcaagtcac taaatattgt ctaatagtga catctgcata
     3661 agacttgtaa tagctgaagt taattgagct taaaggaatt gttaccatta aagtctgtgt
     3721 ttaaagaca
//
