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Q9Y2X8

- UB2D4_HUMAN

UniProt

Q9Y2X8 - UB2D4_HUMAN

Protein

Ubiquitin-conjugating enzyme E2 D4

Gene

UBE2D4

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
  1. Functioni

    Accepts ubiquitin from the E1 complex and catalyzes its covalent attachment to other proteins. In vitro able to promote polyubiquitination using all 7 ubiquitin Lys residues, but may prefer 'Lys-11' and 'Lys-48'-linked polyubiquitination.1 Publication

    Catalytic activityi

    ATP + ubiquitin + protein lysine = AMP + diphosphate + protein N-ubiquityllysine.PROSITE-ProRule annotation

    Pathwayi

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Active sitei85 – 851Glycyl thioester intermediatePROSITE-ProRule annotation

    GO - Molecular functioni

    1. acid-amino acid ligase activity Source: InterPro
    2. ATP binding Source: UniProtKB-KW
    3. protein binding Source: IntAct
    4. ubiquitin-protein transferase activity Source: UniProtKB

    GO - Biological processi

    1. protein K11-linked ubiquitination Source: UniProtKB
    2. protein K27-linked ubiquitination Source: UniProtKB
    3. protein K29-linked ubiquitination Source: UniProtKB
    4. protein K48-linked ubiquitination Source: UniProtKB
    5. protein K63-linked ubiquitination Source: UniProtKB
    6. protein K6-linked ubiquitination Source: UniProtKB

    Keywords - Molecular functioni

    Ligase

    Keywords - Biological processi

    Ubl conjugation pathway

    Keywords - Ligandi

    ATP-binding, Nucleotide-binding

    Enzyme and pathway databases

    ReactomeiREACT_75842. Antigen processing: Ubiquitination & Proteasome degradation.
    SignaLinkiQ9Y2X8.
    UniPathwayiUPA00143.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Ubiquitin-conjugating enzyme E2 D4 (EC:6.3.2.19)
    Alternative name(s):
    HBUCE1
    Ubiquitin carrier protein D4
    Ubiquitin-protein ligase D4
    Gene namesi
    Name:UBE2D4
    Synonyms:UBCH5D
    OrganismiHomo sapiens (Human)
    Taxonomic identifieri9606 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
    ProteomesiUP000005640: Chromosome 7

    Organism-specific databases

    HGNCiHGNC:21647. UBE2D4.

    Pathology & Biotechi

    Organism-specific databases

    PharmGKBiPA134954568.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 147147Ubiquitin-conjugating enzyme E2 D4PRO_0000270202Add
    BLAST

    Proteomic databases

    MaxQBiQ9Y2X8.
    PaxDbiQ9Y2X8.
    PRIDEiQ9Y2X8.

    PTM databases

    PhosphoSiteiQ9Y2X8.

    Expressioni

    Gene expression databases

    ArrayExpressiQ9Y2X8.
    BgeeiQ9Y2X8.
    CleanExiHS_UBE2D4.
    GenevestigatoriQ9Y2X8.

    Organism-specific databases

    HPAiHPA003920.

    Interactioni

    Binary interactionsi

    WithEntry#Exp.IntActNotes
    DTX2Q86UW93EBI-745527,EBI-740376
    RNF11Q9Y3C54EBI-745527,EBI-396669
    RNF126Q9BV683EBI-745527,EBI-357322
    ZNRF1Q8ND253EBI-745527,EBI-2129250

    Protein-protein interaction databases

    BioGridi119641. 86 interactions.
    IntActiQ9Y2X8. 84 interactions.
    MINTiMINT-1192345.
    STRINGi9606.ENSP00000222402.

    Structurei

    3D structure databases

    ProteinModelPortaliQ9Y2X8.
    SMRiQ9Y2X8. Positions 1-147.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the ubiquitin-conjugating enzyme family.PROSITE-ProRule annotation

    Phylogenomic databases

    eggNOGiCOG5078.
    HOGENOMiHOG000233455.
    HOVERGENiHBG063308.
    InParanoidiQ9Y2X8.
    KOiK06689.
    OMAiTIAREWT.
    PhylomeDBiQ9Y2X8.
    TreeFamiTF101108.

    Family and domain databases

    Gene3Di3.10.110.10. 1 hit.
    InterProiIPR000608. UBQ-conjugat_E2.
    IPR023313. UBQ-conjugating_AS.
    IPR016135. UBQ-conjugating_enzyme/RWD.
    [Graphical view]
    PfamiPF00179. UQ_con. 1 hit.
    [Graphical view]
    SUPFAMiSSF54495. SSF54495. 1 hit.
    PROSITEiPS00183. UBIQUITIN_CONJUGAT_1. 1 hit.
    PS50127. UBIQUITIN_CONJUGAT_2. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Q9Y2X8-1 [UniParc]FASTAAdd to Basket

    « Hide

    MALKRIQKEL TDLQRDPPAQ CSAGPVGDDL FHWQATIMGP NDSPYQGGVF    50
    FLTIHFPTDY PFKPPKVAFT TKIYHPNINS NGSICLDILR SQWSPALTVS 100
    KVLLSICSLL CDPNPDDPLV PEIAHTYKAD REKYNRLARE WTQKYAM 147
    Length:147
    Mass (Da):16,649
    Last modified:November 1, 1999 - v1
    Checksum:i5F91A2C6BC667254
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF125044 mRNA. Translation: AAD31180.1.
    AK001446 mRNA. Translation: BAA91697.1.
    CH236951 Genomic DNA. Translation: EAL24010.1.
    CH471073 Genomic DNA. Translation: EAW94182.1.
    BC004104 mRNA. Translation: AAH04104.1.
    CCDSiCCDS5474.1.
    RefSeqiNP_057067.1. NM_015983.3.
    UniGeneiHs.19196.

    Genome annotation databases

    EnsembliENST00000222402; ENSP00000222402; ENSG00000078967.
    GeneIDi51619.
    KEGGihsa:51619.
    UCSCiuc003tja.2. human.

    Polymorphism databases

    DMDMi74753478.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF125044 mRNA. Translation: AAD31180.1 .
    AK001446 mRNA. Translation: BAA91697.1 .
    CH236951 Genomic DNA. Translation: EAL24010.1 .
    CH471073 Genomic DNA. Translation: EAW94182.1 .
    BC004104 mRNA. Translation: AAH04104.1 .
    CCDSi CCDS5474.1.
    RefSeqi NP_057067.1. NM_015983.3.
    UniGenei Hs.19196.

    3D structure databases

    ProteinModelPortali Q9Y2X8.
    SMRi Q9Y2X8. Positions 1-147.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 119641. 86 interactions.
    IntActi Q9Y2X8. 84 interactions.
    MINTi MINT-1192345.
    STRINGi 9606.ENSP00000222402.

    PTM databases

    PhosphoSitei Q9Y2X8.

    Polymorphism databases

    DMDMi 74753478.

    Proteomic databases

    MaxQBi Q9Y2X8.
    PaxDbi Q9Y2X8.
    PRIDEi Q9Y2X8.

    Protocols and materials databases

    DNASUi 51619.
    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENST00000222402 ; ENSP00000222402 ; ENSG00000078967 .
    GeneIDi 51619.
    KEGGi hsa:51619.
    UCSCi uc003tja.2. human.

    Organism-specific databases

    CTDi 51619.
    GeneCardsi GC07P043966.
    HGNCi HGNC:21647. UBE2D4.
    HPAi HPA003920.
    neXtProti NX_Q9Y2X8.
    PharmGKBi PA134954568.
    GenAtlasi Search...

    Phylogenomic databases

    eggNOGi COG5078.
    HOGENOMi HOG000233455.
    HOVERGENi HBG063308.
    InParanoidi Q9Y2X8.
    KOi K06689.
    OMAi TIAREWT.
    PhylomeDBi Q9Y2X8.
    TreeFami TF101108.

    Enzyme and pathway databases

    UniPathwayi UPA00143 .
    Reactomei REACT_75842. Antigen processing: Ubiquitination & Proteasome degradation.
    SignaLinki Q9Y2X8.

    Miscellaneous databases

    GenomeRNAii 51619.
    NextBioi 55531.
    PROi Q9Y2X8.

    Gene expression databases

    ArrayExpressi Q9Y2X8.
    Bgeei Q9Y2X8.
    CleanExi HS_UBE2D4.
    Genevestigatori Q9Y2X8.

    Family and domain databases

    Gene3Di 3.10.110.10. 1 hit.
    InterProi IPR000608. UBQ-conjugat_E2.
    IPR023313. UBQ-conjugating_AS.
    IPR016135. UBQ-conjugating_enzyme/RWD.
    [Graphical view ]
    Pfami PF00179. UQ_con. 1 hit.
    [Graphical view ]
    SUPFAMi SSF54495. SSF54495. 1 hit.
    PROSITEi PS00183. UBIQUITIN_CONJUGAT_1. 1 hit.
    PS50127. UBIQUITIN_CONJUGAT_2. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Molecular cloning and screening of two ubiquitin conjugation enzymes."
      Li G., Jin J., Hu S., Li W., Yuan J., Qiang B.
      Submitted (JAN-1999) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [MRNA].
      Tissue: Brain.
    2. "Complete sequencing and characterization of 21,243 full-length human cDNAs."
      Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S.
      , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
      Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    3. "Human chromosome 7: DNA sequence and biology."
      Scherer S.W., Cheung J., MacDonald J.R., Osborne L.R., Nakabayashi K., Herbrick J.-A., Carson A.R., Parker-Katiraee L., Skaug J., Khaja R., Zhang J., Hudek A.K., Li M., Haddad M., Duggan G.E., Fernandez B.A., Kanematsu E., Gentles S.
      , Christopoulos C.C., Choufani S., Kwasnicka D., Zheng X.H., Lai Z., Nusskern D.R., Zhang Q., Gu Z., Lu F., Zeesman S., Nowaczyk M.J., Teshima I., Chitayat D., Shuman C., Weksberg R., Zackai E.H., Grebe T.A., Cox S.R., Kirkpatrick S.J., Rahman N., Friedman J.M., Heng H.H.Q., Pelicci P.G., Lo-Coco F., Belloni E., Shaffer L.G., Pober B., Morton C.C., Gusella J.F., Bruns G.A.P., Korf B.R., Quade B.J., Ligon A.H., Ferguson H., Higgins A.W., Leach N.T., Herrick S.R., Lemyre E., Farra C.G., Kim H.-G., Summers A.M., Gripp K.W., Roberts W., Szatmari P., Winsor E.J.T., Grzeschik K.-H., Teebi A., Minassian B.A., Kere J., Armengol L., Pujana M.A., Estivill X., Wilson M.D., Koop B.F., Tosi S., Moore G.E., Boright A.P., Zlotorynski E., Kerem B., Kroisel P.M., Petek E., Oscier D.G., Mould S.J., Doehner H., Doehner K., Rommens J.M., Vincent J.B., Venter J.C., Li P.W., Mural R.J., Adams M.D., Tsui L.-C.
      Science 300:767-772(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    4. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    5. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
      The MGC Project Team
      Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
      Tissue: Ovary.
    6. "The E2 ubiquitin-conjugating enzymes direct polyubiquitination to preferred lysines."
      David Y., Ziv T., Admon A., Navon A.
      J. Biol. Chem. 285:8595-8604(2010) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION.

    Entry informationi

    Entry nameiUB2D4_HUMAN
    AccessioniPrimary (citable) accession number: Q9Y2X8
    Secondary accession number(s): A4D1V0
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: January 9, 2007
    Last sequence update: November 1, 1999
    Last modified: October 1, 2014
    This is version 113 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata Protein Annotation Program
    DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. Human chromosome 7
      Human chromosome 7: entries, gene names and cross-references to MIM
    2. PATHWAY comments
      Index of metabolic and biosynthesis pathways
    3. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3