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P62840

- UB2D2_XENLA

UniProt

P62840 - UB2D2_XENLA

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Protein

Ubiquitin-conjugating enzyme E2 D2

Gene
ube2d2, ubc4, ube2d3.1
Organism
Xenopus laevis (African clawed frog)
Status
Reviewed - Annotation score: 3 out of 5 - Experimental evidence at protein leveli

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.

Catalytic activityi

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

Pathwayi

Sites

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

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
Complete GO annotation...

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.

Miscellaneous databases

EvolutionaryTraceiP62840.

Family & Domainsi

Sequence similaritiesi

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

« Hide 'large scale' publications
  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: September 3, 2014
This is version 66 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

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