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P62840

- UB2D2_XENLA

UniProt

P62840 - UB2D2_XENLA

Protein

Ubiquitin-conjugating enzyme E2 D2

Gene

ube2d2

Organism
Xenopus laevis (African clawed frog)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli
  1. Functioni

    Catalyzes the covalent attachment of ubiquitin to other proteins. Mediates the selective degradation of short-lived and abnormal proteins. Functions in the E6/E6-AP-induced ubiquitination of p53/TP53 By similarity.PROSITE-ProRule annotation

    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

    GO - Biological processi

    1. protein ubiquitination Source: UniProtKB-UniPathway

    Keywords - Molecular functioni

    Ligase

    Keywords - Biological processi

    Ubl conjugation pathway

    Keywords - Ligandi

    ATP-binding, Nucleotide-binding

    Enzyme and pathway databases

    UniPathwayiUPA00143.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Ubiquitin-conjugating enzyme E2 D2 (EC:6.3.2.19)
    Alternative name(s):
    Ubiquitin carrier protein 4
    Short name:
    xUBC4
    Ubiquitin carrier protein D2
    Ubiquitin-protein ligase D2
    Gene namesi
    Name:ube2d2
    Synonyms:ubc4, ube2d3.1
    OrganismiXenopus laevis (African clawed frog)
    Taxonomic identifieri8355 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiAmphibiaBatrachiaAnuraPipoideaPipidaeXenopodinaeXenopusXenopus

    Organism-specific databases

    XenbaseiXB-GENE-972284. ube2d3.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 147147Ubiquitin-conjugating enzyme E2 D2PRO_0000082465Add
    BLAST

    Proteomic databases

    PRIDEiP62840.

    Interactioni

    Subunit structurei

    Interacts with SCF (SKP1-CUL1-F-box protein) E3 ubiquitin ligase complex.By similarity

    Protein-protein interaction databases

    BioGridi100827. 2 interactions.

    Structurei

    Secondary structure

    1
    147
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Helixi2 – 1514
    Beta strandi21 – 288
    Beta strandi32 – 376
    Beta strandi50 – 556
    Turni58 – 625
    Beta strandi66 – 716
    Turni87 – 926
    Helixi99 – 11113
    Helixi121 – 1299
    Helixi131 – 14515

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    3EB6X-ray3.40B1-147[»]
    ProteinModelPortaliP62840.
    SMRiP62840. Positions 1-147.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiP62840.

    Family & Domainsi

    Sequence similaritiesi

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

    Phylogenomic databases

    HOVERGENiHBG063308.
    KOiK06689.

    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.

    P62840-1 [UniParc]FASTAAdd to Basket

    « Hide

    MALKRIHKEL NDLARDPPAQ CSAGPVGDDM FHWQATIMGP NDSPYQGGVF    50
    FLTIHFPTDY PFKPPKVAFT TRIYHPNINS NGSICLDILR SQWSPALTIS 100
    KVLLSICSLL CDPNPDDPLV PEIARIYKTD REKYNRIARE WTQKYAM 147
    Length:147
    Mass (Da):16,735
    Last modified:August 16, 2004 - v1
    Checksum:iC942BE7853CBC355
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AB105546 mRNA. Translation: BAD06215.1.
    BC084359 mRNA. Translation: AAH84359.1.
    RefSeqiNP_001084434.1. NM_001090965.1.
    UniGeneiXl.45490.

    Genome annotation databases

    GeneIDi403384.
    KEGGixla:403384.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AB105546 mRNA. Translation: BAD06215.1 .
    BC084359 mRNA. Translation: AAH84359.1 .
    RefSeqi NP_001084434.1. NM_001090965.1.
    UniGenei Xl.45490.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    3EB6 X-ray 3.40 B 1-147 [» ]
    ProteinModelPortali P62840.
    SMRi P62840. Positions 1-147.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 100827. 2 interactions.

    Proteomic databases

    PRIDEi P62840.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    GeneIDi 403384.
    KEGGi xla:403384.

    Organism-specific databases

    CTDi 7323.
    Xenbasei XB-GENE-972284. ube2d3.

    Phylogenomic databases

    HOVERGENi HBG063308.
    KOi K06689.

    Enzyme and pathway databases

    UniPathwayi UPA00143 .

    Miscellaneous databases

    EvolutionaryTracei P62840.

    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 of cDNAs encoding Xenopus ubiquitin-conjugating enzyme(E2) and their expression in various Xenopus tissues."
      Karasawa A., Matushita H., Yagura T.
      Submitted (MAR-2003) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [MRNA].
      Tissue: Oocyte.
    2. NIH - Xenopus Gene Collection (XGC) project
      Submitted (OCT-2004) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
      Tissue: Eye.
    3. "A ubiquitin-conjugating enzyme, ube2d3.2, regulates xMLK2 and pronephros formation in Xenopus."
      Jean S., Moss T.
      Differentiation 76:431-441(2008) [PubMed] [Europe PMC] [Abstract]
      Cited for: NOMENCLATURE.

    Entry informationi

    Entry nameiUB2D2_XENLA
    AccessioniPrimary (citable) accession number: P62840
    Secondary accession number(s): P51669, Q5XGS3
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: August 16, 2004
    Last sequence update: August 16, 2004
    Last modified: October 1, 2014
    This is version 67 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    3D-structure

    Documents

    1. PATHWAY comments
      Index of metabolic and biosynthesis pathways
    2. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    3. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3