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Aliases for UBR3 Gene

Aliases for UBR3 Gene

  • Ubiquitin Protein Ligase E3 Component N-Recognin 3 (Putative) 2 3 5
  • Zinc Finger Protein 650 2 3 4
  • RING-Type E3 Ubiquitin Transferase UBR3 3 4
  • Ubiquitin-Protein Ligase E3-Alpha-III 3 4
  • Ubiquitin-Protein Ligase E3-Alpha-3 3 4
  • N-Recognin-3 3 4
  • ZNF650 3 4
  • E3 Ubiquitin-Protein Ligase UBR3 3
  • EC 2.3.2.27 4
  • KIAA2024 4

External Ids for UBR3 Gene

Previous HGNC Symbols for UBR3 Gene

  • ZNF650

Previous GeneCards Identifiers for UBR3 Gene

  • GC02P170494
  • GC02P170392
  • GC02P170683
  • GC02P162572

Summaries for UBR3 Gene

GeneCards Summary for UBR3 Gene

UBR3 (Ubiquitin Protein Ligase E3 Component N-Recognin 3 (Putative)) is a Protein Coding gene. GO annotations related to this gene include ligase activity and ubiquitin-protein transferase activity. An important paralog of this gene is UBR2.

UniProtKB/Swiss-Prot for UBR3 Gene

  • E3 ubiquitin-protein ligase which is a component of the N-end rule pathway. Does not bind to proteins bearing specific N-terminal residues that are destabilizing according to the N-end rule, leading to their ubiquitination and subsequent degradation.

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for UBR3 Gene

Genomics for UBR3 Gene

Regulatory Elements for UBR3 Gene

Enhancers for UBR3 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH02G169798 1.1 ENCODE 12 -28.0 -28044 2.8 HDGF CREB3L1 ARID4B SIN3A DMAP1 YY1 ZNF143 ZNF207 KLF13 SP3 METTL5 UBR3 SSB PHOSPHO2 GC02P169805
GH02G169528 1.1 ENCODE dbSUPER 10.5 -299.0 -299043 0.2 HDAC1 CTCF SAP130 ARNT WRNIP1 ARID4B ZNF2 RAD21 CHAMP1 ZKSCAN1 SSB CYB5AP2 UBR3 METTL5 FASTKD1 GC02M169527
GH02G169709 1 ENCODE 10.7 -115.9 -115910 4.1 ATF1 ZNF766 GATA2 ELK1 FOS KLF13 CAVIN1 ZNF592 MEF2D CREB3 PHOSPHO2 SSB CCDC173 CYB5AP2 METTL5 UBR3 KLHL23 GC02P169728
GH02G169826 1.5 FANTOM5 ENCODE 7 +0.7 665 2.6 HNRNPUL1 HDGF PKNOX1 CREB3L1 ARNT ARID4B SIN3A DMAP1 YY1 ZNF143 UBR3 METTL5 FASTKD1 MYO3B PPIG PHOSPHO2 CCDC173 GC02P169866
GH02G169925 0.9 ENCODE 11.6 +98.8 98806 0.7 HDAC1 HDGF PKNOX1 CBX3 ARNT CHAMP1 TCF12 ZNF121 GATA2 ZBTB11 METTL5 UBR3 GC02P169970 GC02P169866
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around UBR3 on UCSC Golden Path with GeneCards custom track

Promoters for UBR3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000126028 542 2001 HNRNPUL1 HDGF PKNOX1 CREB3L1 ARNT ARID4B SIN3A DMAP1 YY1 ZNF143

Genomic Location for UBR3 Gene

Chromosome:
2
Start:
169,827,458 bp from pter
End:
170,084,131 bp from pter
Size:
256,674 bases
Orientation:
Plus strand

Genomic View for UBR3 Gene

Genes around UBR3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
UBR3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for UBR3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for UBR3 Gene

Proteins for UBR3 Gene

  • Protein details for UBR3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q6ZT12-UBR3_HUMAN
    Recommended name:
    E3 ubiquitin-protein ligase UBR3
    Protein Accession:
    Q6ZT12
    Secondary Accessions:
    • B4DZR7
    • Q2KHN5
    • Q6ZR55
    • Q6ZSC2
    • Q8IVE7
    • Q8ND96

    Protein attributes for UBR3 Gene

    Size:
    1888 amino acids
    Molecular mass:
    212433 Da
    Quaternary structure:
    • Interacts with UBE2A and UBE2B.
    SequenceCaution:
    • Sequence=BAC23120.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=BAC86783.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=BAC87032.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=BAG64179.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=CAD38857.1; Type=Erroneous termination; Positions=1525; Note=Translated as Gln.; Evidence={ECO:0000305};

    Alternative splice isoforms for UBR3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for UBR3 Gene

Post-translational modifications for UBR3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for UBR3 Gene

Domains & Families for UBR3 Gene

Protein Domains for UBR3 Gene

Suggested Antigen Peptide Sequences for UBR3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q6ZT12

UniProtKB/Swiss-Prot:

UBR3_HUMAN :
  • Belongs to the UBR1 family.
Family:
  • Belongs to the UBR1 family.
genes like me logo Genes that share domains with UBR3: view

Function for UBR3 Gene

Molecular function for UBR3 Gene

UniProtKB/Swiss-Prot CatalyticActivity:
S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine + [acceptor protein]-L-lysine = [E2 ubiquitin-conjugating enzyme]-L-cysteine + N(6)-ubiquitinyl-[acceptor protein]-L-lysine.
UniProtKB/Swiss-Prot Function:
E3 ubiquitin-protein ligase which is a component of the N-end rule pathway. Does not bind to proteins bearing specific N-terminal residues that are destabilizing according to the N-end rule, leading to their ubiquitination and subsequent degradation.

Enzyme Numbers (IUBMB) for UBR3 Gene

Gene Ontology (GO) - Molecular Function for UBR3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004842 ubiquitin-protein transferase activity ISS,IEA --
GO:0008270 zinc ion binding IEA --
GO:0016740 transferase activity IEA --
GO:0046872 metal ion binding IEA --
GO:0061630 ubiquitin protein ligase activity IBA,IEA --
genes like me logo Genes that share ontologies with UBR3: view
genes like me logo Genes that share phenotypes with UBR3: view

Animal Models for UBR3 Gene

MGI Knock Outs for UBR3:

Animal Model Products

CRISPR Products

Inhibitory RNA Products

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for UBR3 Gene

Localization for UBR3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for UBR3 Gene

Membrane; Multi-pass membrane protein.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for UBR3 gene
Compartment Confidence
plasma membrane 3
nucleus 2
endoplasmic reticulum 1
cytosol 1

Gene Ontology (GO) - Cellular Components for UBR3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000151 ubiquitin ligase complex IBA --
GO:0005737 cytoplasm IBA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with UBR3: view

Pathways & Interactions for UBR3 Gene

No Data Available

UniProtKB/Swiss-Prot Q6ZT12-UBR3_HUMAN

  • Pathway: Protein modification; protein ubiquitination.

Gene Ontology (GO) - Biological Process for UBR3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001701 in utero embryonic development IEA --
GO:0001967 suckling behavior ISS,IEA --
GO:0006511 ubiquitin-dependent protein catabolic process ISS,IEA --
GO:0007608 sensory perception of smell IEA,ISS --
GO:0009790 embryo development ISS,IEA --
genes like me logo Genes that share ontologies with UBR3: view

No data available for Pathways by source and SIGNOR curated interactions for UBR3 Gene

Drugs & Compounds for UBR3 Gene

No Compound Related Data Available

Transcripts for UBR3 Gene

Unigene Clusters for UBR3 Gene

Ubiquitin protein ligase E3 component n-recognin 3 (putative):
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for UBR3 Gene

ExUns: 1 ^ 2 ^ 3a · 3b ^ 4 ^ 5a · 5b · 5c ^ 6a · 6b · 6c · 6d ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15a · 15b ^ 16a · 16b ^ 17 ^ 18 ^
SP1: - - - -
SP2: - - -
SP3:
SP4:
SP5: -
SP6: -

ExUns: 19 ^ 20 ^ 21 ^ 22 ^ 23 ^ 24a · 24b · 24c
SP1:
SP2:
SP3:
SP4:
SP5:
SP6:

Relevant External Links for UBR3 Gene

GeneLoc Exon Structure for
UBR3
ECgene alternative splicing isoforms for
UBR3

Expression for UBR3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for UBR3 Gene

mRNA differential expression in normal tissues according to GTEx for UBR3 Gene

This gene is overexpressed in Muscle - Skeletal (x7.4).

Protein differential expression in normal tissues from HIPED for UBR3 Gene

This gene is overexpressed in Heart (26.6) and Esophagus (9.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for UBR3 Gene



Protein tissue co-expression partners for UBR3 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of UBR3 Gene:

UBR3

SOURCE GeneReport for Unigene cluster for UBR3 Gene:

Hs.379548

Evidence on tissue expression from TISSUES for UBR3 Gene

  • Nervous system(4.7)
  • Muscle(2.1)
genes like me logo Genes that share expression patterns with UBR3: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for UBR3 Gene

Orthologs for UBR3 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for UBR3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia UBR3 34
  • 99.42 (n)
oppossum
(Monodelphis domestica)
Mammalia -- 35
  • 95 (a)
OneToMany
-- 35
  • 89 (a)
OneToMany
dog
(Canis familiaris)
Mammalia UBR3 34 35
  • 94.82 (n)
cow
(Bos Taurus)
Mammalia UBR3 34 35
  • 94.1 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia -- 35
  • 90 (a)
OneToMany
-- 35
  • 87 (a)
OneToMany
mouse
(Mus musculus)
Mammalia Ubr3 34 16 35
  • 89.55 (n)
rat
(Rattus norvegicus)
Mammalia Ubr3 34
  • 89.23 (n)
chicken
(Gallus gallus)
Aves UBR3 35
  • 87 (a)
OneToOne
ZNF650 34
  • 82.22 (n)
lizard
(Anolis carolinensis)
Reptilia -- 35
  • 83 (a)
OneToMany
-- 35
  • 81 (a)
OneToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia ubr3 34
  • 76.16 (n)
zebrafish
(Danio rerio)
Actinopterygii CABZ01051288.2 35
  • 74 (a)
OneToMany
ubr3 34 35
  • 69.4 (n)
wufb72f06 34
fruit fly
(Drosophila melanogaster)
Insecta CG42593 34 35
  • 48.24 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP000384 34
  • 44.28 (n)
worm
(Caenorhabditis elegans)
Secernentea F10G7.10 35
  • 18 (a)
OneToOne
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes UBR1 35
  • 14 (a)
ManyToMany
UBR2 35
  • 13 (a)
ManyToMany
sea squirt
(Ciona savignyi)
Ascidiacea CSA.3643 35
  • 34 (a)
OneToOne
Species where no ortholog for UBR3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for UBR3 Gene

ENSEMBL:
Gene Tree for UBR3 (if available)
TreeFam:
Gene Tree for UBR3 (if available)

Paralogs for UBR3 Gene

Paralogs for UBR3 Gene

(1) SIMAP similar genes for UBR3 Gene using alignment to 5 proteins:

genes like me logo Genes that share paralogs with UBR3: view

Variants for UBR3 Gene

Sequence variations from dbSNP and Humsavar for UBR3 Gene

SNP ID Clin Chr 02 pos Sequence Context AA Info Type
rs1000008179 -- 169,956,388(+) CTCCC(A/G)TGCCA intron-variant
rs1000009121 -- 170,003,172(+) TCCTC(A/G)CTCAT intron-variant
rs1000012813 -- 169,860,784(+) AGGAG(A/G)ATTGA intron-variant
rs1000036661 -- 170,028,215(+) ATTAC(-/A)GCTCC intron-variant
rs1000042077 -- 169,973,907(+) AAGGG(A/T)TGTTG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for UBR3 Gene

Variant ID Type Subtype PubMed ID
dgv255e215 CNV deletion 23714750
esv2457130 CNV deletion 19546169
esv2657393 CNV deletion 23128226
esv2672983 CNV deletion 23128226
esv3445050 CNV insertion 20981092
esv3560516 CNV deletion 23714750
esv3584166 CNV loss 25503493
esv3584167 CNV loss 25503493
esv3593331 CNV loss 21293372
esv3593332 CNV loss 21293372
esv3593333 CNV loss 21293372
nsv1006657 CNV gain 25217958
nsv1011368 CNV loss 25217958
nsv10201 CNV loss 18304495
nsv1072991 CNV deletion 25765185
nsv1072992 CNV deletion 25765185
nsv1123409 CNV deletion 24896259
nsv1131525 CNV deletion 24896259
nsv473635 CNV novel sequence insertion 20440878
nsv583607 CNV gain 21841781
nsv583608 CNV gain 21841781
nsv961528 CNV duplication 23825009

Variation tolerance for UBR3 Gene

Gene Damage Index Score: 5.10; 69.09% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for UBR3 Gene

Human Gene Mutation Database (HGMD)
UBR3
SNPedia medical, phenotypic, and genealogical associations of SNPs for
UBR3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for UBR3 Gene

Disorders for UBR3 Gene

Relevant External Links for UBR3

Genetic Association Database (GAD)
UBR3
Human Genome Epidemiology (HuGE) Navigator
UBR3
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
UBR3

No disorders were found for UBR3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for UBR3 Gene

Publications for UBR3 Gene

  1. Confirmation of genomewide association signals in Chinese Han population reveals risk loci for ischemic stroke. (PMID: 19910543) Ding H. … Wang D.W. (Stroke 2010) 3 46 64
  2. Biochemical and genetic studies of UBR3, a ubiquitin ligase with a function in olfactory and other sensory systems. (PMID: 17462990) Tasaki T. … Kwon Y.T. (J. Biol. Chem. 2007) 2 3 64
  3. Generation and annotation of the DNA sequences of human chromosomes 2 and 4. (PMID: 15815621) Hillier L.W. … Wilson R.K. (Nature 2005) 3 4 64
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  5. KCMF1 (potassium channel modulatory factor 1) Links RAD6 to UBR4 (ubiquitin N-recognin domain-containing E3 ligase 4) and lysosome-mediated degradation. (PMID: 25582440) Hong J.H. … Raught B. (Mol. Cell Proteomics 2015) 3 64

Products for UBR3 Gene

Sources for UBR3 Gene

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