U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Ube3d ubiquitin protein ligase E3D [ Rattus norvegicus (Norway rat) ]

Gene ID: 315863, updated on 27-Nov-2024

Summary

Go to the top of the page Help
Official Symbol
Ube3dprovided by RGD
Official Full Name
ubiquitin protein ligase E3Dprovided by RGD
Primary source
RGD:1306773
See related
EnsemblRapid:ENSRNOG00000010802 AllianceGenome:RGD:1306773
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
Ube2cbp; RGD1306773
Summary
Predicted to enable cyclin binding activity; ubiquitin conjugating enzyme binding activity; and ubiquitin protein ligase activity. Predicted to be involved in proteasome-mediated ubiquitin-dependent protein catabolic process and protein ubiquitination. Predicted to be located in membrane. Predicted to be part of ubiquitin ligase complex. Predicted to be active in cytosol and nucleus. Orthologous to human UBE3D (ubiquitin protein ligase E3D). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Lung (RPKM 23.7), Kidney (RPKM 21.8) and 9 other tissues See more
Orthologs
human mouse all
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
See Ube3d in Genome Data Viewer
Location:
8q31
Exon count:
12
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 8 NC_086026.1 (96125609..96293122, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 8 NC_051343.1 (87245503..87413104, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (93948689..94120477, complement)

Chromosome 8 - NC_086026.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120094219 Neighboring gene trophoblast glycoprotein Neighboring gene uncharacterized LOC134480084 Neighboring gene stathmin-like Neighboring gene DOP1 leucine zipper like protein A Neighboring gene phosphoglucomutase 3

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

Go to the top of the pageHelp

Related articles in PubMed

  1. A novel UbcH10-binding protein facilitates the ubiquitinylation of cyclin B in vitro. Kobirumaki F, et al. J Biochem, 2005 Feb. PMID 15749827
  2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
  3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

Go to the top of the page Help

Markers

Homology

Clone Names

  • MGC124836

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables cyclin binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables cyclin binding IEA
Inferred from Electronic Annotation
more info
  
enables cyclin binding ISO
Inferred from Sequence Orthology
more info
  
enables ubiquitin conjugating enzyme binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables ubiquitin protein ligase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables ubiquitin protein ligase activity IEA
Inferred from Electronic Annotation
more info
  
enables ubiquitin protein ligase activity ISO
Inferred from Sequence Orthology
more info
  
enables ubiquitin-like protein conjugating enzyme binding IEA
Inferred from Electronic Annotation
more info
  
enables ubiquitin-like protein conjugating enzyme binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in proteasome-mediated ubiquitin-dependent protein catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in protein autoubiquitination IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in protein autoubiquitination IEA
Inferred from Electronic Annotation
more info
  
involved_in protein autoubiquitination ISO
Inferred from Sequence Orthology
more info
  
involved_in protein monoubiquitination IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in protein monoubiquitination IEA
Inferred from Electronic Annotation
more info
  
involved_in protein monoubiquitination ISO
Inferred from Sequence Orthology
more info
  
involved_in protein polyubiquitination IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in protein polyubiquitination IEA
Inferred from Electronic Annotation
more info
  
involved_in protein polyubiquitination ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
is_active_in cytosol IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in cytosol ISO
Inferred from Sequence Orthology
more info
  
located_in membrane IEA
Inferred from Electronic Annotation
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of ubiquitin ligase complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of ubiquitin ligase complex IEA
Inferred from Electronic Annotation
more info
  
part_of ubiquitin ligase complex ISO
Inferred from Sequence Orthology
more info
  

General protein information

Go to the top of the page Help
Preferred Names
E3 ubiquitin-protein ligase E3D
Names
HECT-type E3 ubiquitin transferase E3D
UbcH10 binding protein with a hect-like domain
ubcH10-binding protein with a HECT-like domain
ubiquitin-conjugating enzyme E2C-binding protein
NP_001034699.1
XP_006243541.1
XP_038937459.1
XP_038937460.1
XP_063121630.1

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001039610.2 → NP_001034699.1  E3 ubiquitin-protein ligase E3D isoform 1

    See identical proteins and their annotated locations for NP_001034699.1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000008
    UniProtKB/Swiss-Prot
    Q3T1H6
    UniProtKB/TrEMBL
    A0A0G2JZS6
    Related
    ENSRNOP00000014600.4, ENSRNOT00000014600.7
    Conserved Domains (1) summary
    pfam09814
    Location:13 → 358
    HECT_2; HECT-like Ubiquitin-conjugating enzyme (E2)-binding

  2. NM_001433776.1 → NP_001420705.1  E3 ubiquitin-protein ligase E3D isoform 2

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000008

  3. NM_001433777.1 → NP_001420706.1  E3 ubiquitin-protein ligase E3D isoform 3

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000008

  4. NM_001433778.1 → NP_001420707.1  E3 ubiquitin-protein ligase E3D isoform 4

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000008

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

  1. NC_086026.1 Reference GRCr8

    Range
    96125609..96293122 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063265560.1 → XP_063121630.1  E3 ubiquitin-protein ligase E3D isoform X2

  2. XM_006243479.5 → XP_006243541.1  E3 ubiquitin-protein ligase E3D isoform X1

    UniProtKB/TrEMBL
    A0A0G2JZS6
    Related
    ENSRNOP00000110873.1, ENSRNOT00000134165.1
    Conserved Domains (1) summary
    pfam09814
    Location:13 → 358
    HECT_2; HECT-like Ubiquitin-conjugating enzyme (E2)-binding

  3. XM_039081532.2 → XP_038937460.1  E3 ubiquitin-protein ligase E3D isoform X3

    UniProtKB/TrEMBL
    A6I1U0
    Conserved Domains (1) summary
    cl19900
    Location:73 → 179
    HECT_2; HECT-like Ubiquitin-conjugating enzyme (E2)-binding

  4. XM_039081531.2 → XP_038937459.1  E3 ubiquitin-protein ligase E3D isoform X3

    UniProtKB/TrEMBL
    A6I1U0
    Conserved Domains (1) summary
    cl19900
    Location:73 → 179
    HECT_2; HECT-like Ubiquitin-conjugating enzyme (E2)-binding

RNA

  1. XR_005487834.2 RNA Sequence

  2. XR_005487832.2 RNA Sequence

  3. XR_005487831.2 RNA Sequence

  4. XR_001839187.3 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q3T1H6.1 GenPept UniProtKB/Swiss-Prot:Q3T1H6

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Chemical Information
Molecular Biology Databases
Research Materials
Tools
Miscellaneous