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A5PKP9

- UB2D4_XENLA

UniProt

A5PKP9 - UB2D4_XENLA

Protein

Ubiquitin-conjugating enzyme E2 D4

Gene

ube2d4

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

    Catalyzes the covalent attachment of ubiquitin to other proteins. Regulates pronephros development, possibly by promoting ubiquitination and thus inactivation or degradation of map3k10/mlk2.1 PublicationPROSITE-ProRule annotation

    Catalytic activityi

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

    Pathwayi

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Active sitei85 – 851Glycyl thioester intermediate

    GO - Molecular functioni

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

    GO - Biological processi

    1. pronephric nephron tubule development Source: UniProtKB
    2. protein ubiquitination Source: UniProtKB

    Keywords - Molecular functioni

    Developmental protein, 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 D4By similarity (EC:6.3.2.19)
    Alternative name(s):
    Ubiquitin carrier protein D4By similarity
    Ubiquitin-protein ligase D4By similarity
    Gene namesi
    Name:ube2d4
    Synonyms:ube2d3.21 Publication
    OrganismiXenopus laevis (African clawed frog)
    Taxonomic identifieri8355 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiAmphibiaBatrachiaAnuraPipoideaPipidaeXenopodinaeXenopusXenopus

    Organism-specific databases

    XenbaseiXB-GENE-962538. ube2d4.

    Pathology & Biotechi

    Mutagenesis

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Mutagenesisi85 – 851C → A: Catalytically inactive. No effect on pronephros development. 1 Publication

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 147147Ubiquitin-conjugating enzyme E2 D4PRO_0000397918Add
    BLAST

    Expressioni

    Tissue specificityi

    At embryonic stages 28 to 35, expressed in the somites, eye primordia, otic vesicle and branchial arches. By stage 35, also weakly expressed in the pronephros.1 Publication

    Developmental stagei

    Expressed maternally. Present at near constant levels throughout early development.1 Publication

    Interactioni

    Subunit structurei

    Interacts with map3k10/mlk2.1 Publication

    Structurei

    3D structure databases

    ProteinModelPortaliA5PKP9.
    SMRiA5PKP9. Positions 1-147.
    ModBaseiSearch...
    MobiDBiSearch...

    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.

    A5PKP9-1 [UniParc]FASTAAdd to Basket

    « Hide

    MALKRIQKEL MDLQRDPPAQ CSAGPVGEDL FHWQATIMGP NDSPFQGGVF    50
    FLTIHFPTDY PFKPPKVAFT TKIYHPNINS NGSICLDILR SQWSPALTVS 100
    KVLLSICSLL CDPNPDDPLV PEIAHTYKAD REKYNRLARE WTQKYAM 147
    Length:147
    Mass (Da):16,677
    Last modified:July 10, 2007 - v1
    Checksum:i3832EF718DF47EC2
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    EU124673 mRNA. Translation: ABV25624.1.
    BC142569 mRNA. Translation: AAI42570.1.
    RefSeqiNP_001093355.1. NM_001099885.1.
    UniGeneiXl.13069.

    Genome annotation databases

    GeneIDi100101299.
    KEGGixla:100101299.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    EU124673 mRNA. Translation: ABV25624.1 .
    BC142569 mRNA. Translation: AAI42570.1 .
    RefSeqi NP_001093355.1. NM_001099885.1.
    UniGenei Xl.13069.

    3D structure databases

    ProteinModelPortali A5PKP9.
    SMRi A5PKP9. Positions 1-147.
    ModBasei Search...
    MobiDBi Search...

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    GeneIDi 100101299.
    KEGGi xla:100101299.

    Organism-specific databases

    CTDi 51619.
    Xenbasei XB-GENE-962538. ube2d4.

    Phylogenomic databases

    HOVERGENi HBG063308.
    KOi K06689.

    Enzyme and pathway databases

    UniPathwayi UPA00143 .

    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. "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: NUCLEOTIDE SEQUENCE [MRNA], FUNCTION, INTERACTION WITH MAP3K10, TISSUE SPECIFICITY, DEVELOPMENTAL STAGE, MUTAGENESIS OF CYS-85.
    2. NIH - Xenopus Gene Collection (XGC) project
      Submitted (JUN-2007) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
      Tissue: NeurulaImported.

    Entry informationi

    Entry nameiUB2D4_XENLA
    AccessioniPrimary (citable) accession number: A5PKP9
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: October 5, 2010
    Last sequence update: July 10, 2007
    Last modified: October 1, 2014
    This is version 42 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata Protein Annotation Program

    Miscellaneousi

    Documents

    1. PATHWAY comments
      Index of metabolic and biosynthesis pathways
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3