Free for academic non-profit institutions. Other users need a Commercial license

Aliases for UBB Gene

Aliases for UBB Gene

  • Ubiquitin B 2 3
  • Polyubiquitin B 2 3
  • Polyubiquitin-B 3

External Ids for UBB Gene

Summaries for UBB Gene

Entrez Gene Summary for UBB Gene

  • This gene encodes ubiquitin, one of the most conserved proteins known. Ubiquitin has a major role in targeting cellular proteins for degradation by the 26S proteosome. It is also involved in the maintenance of chromatin structure, the regulation of gene expression, and the stress response. Ubiquitin is synthesized as a precursor protein consisting of either polyubiquitin chains or a single ubiquitin moiety fused to an unrelated protein. This gene consists of three direct repeats of the ubiquitin coding sequence with no spacer sequence. Consequently, the protein is expressed as a polyubiquitin precursor with a final amino acid after the last repeat. An aberrant form of this protein has been detected in patients with Alzheimer's disease and Down syndrome. Pseudogenes of this gene are located on chromosomes 1, 2, 13, and 17. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Aug 2013]

GeneCards Summary for UBB Gene

UBB (Ubiquitin B) is a Protein Coding gene. Diseases associated with UBB include cleft palate, isolated and mulibrey nanism. Among its related pathways are PI-3K cascade and Signaling by FGFR. An important paralog of this gene is UBA52.

UniProtKB/Swiss-Prot for UBB Gene

  • Ubiquitin: Exists either covalently attached to another protein, or free (unanchored). When covalently bound, it is conjugated to target proteins via an isopeptide bond either as a monomer (monoubiquitin), a polymer linked via different Lys residues of the ubiquitin (polyubiquitin chains) or a linear polymer linked via the initiator Met of the ubiquitin (linear polyubiquitin chains). Polyubiquitin chains, when attached to a target protein, have different functions depending on the Lys residue of the ubiquitin that is linked: Lys-6-linked may be involved in DNA repair; Lys-11-linked is involved in ERAD (endoplasmic reticulum-associated degradation) and in cell-cycle regulation; Lys-29-linked is involved in lysosomal degradation; Lys-33-linked is involved in kinase modification; Lys-48-linked is involved in protein degradation via the proteasome; Lys-63-linked is involved in endocytosis, DNA-damage responses as well as in signaling processes leading to activation of the transcription factor NF-kappa-B. Linear polymer chains formed via attachment by the initiator Met lead to cell signaling. Ubiquitin is usually conjugated to Lys residues of target proteins, however, in rare cases, conjugation to Cys or Ser residues has been observed. When polyubiquitin is free (unanchored-polyubiquitin), it also has distinct roles, such as in activation of protein kinases, and in signaling.

Gene Wiki entry for UBB Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for UBB Gene

Genomics for UBB Gene

Genomic Location for UBB Gene

Start:
16,380,793 bp from pter
End:
16,382,745 bp from pter
Size:
1,953 bases
Orientation:
Plus strand

Genomic View for UBB Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for UBB Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for UBB Gene

Regulatory Elements for UBB Gene

Proteins for UBB Gene

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

    Protein Symbol:
    P0CG47-UBB_HUMAN
    Recommended name:
    Polyubiquitin-B
    Protein Accession:
    P0CG47
    Secondary Accessions:
    • P02248
    • P02249
    • P02250
    • P62988
    • Q29120
    • Q6LBL4
    • Q6LDU5
    • Q8WYN8
    • Q91887
    • Q91888
    • Q9BWD6
    • Q9BX98
    • Q9UEF2
    • Q9UEG1
    • Q9UEK8
    • Q9UPK7

    Protein attributes for UBB Gene

    Size:
    229 amino acids
    Molecular mass:
    25762 Da
    Quaternary structure:
    No Data Available
    Miscellaneous:
    • For a better understanding, features related to ubiquitin are only indicated for the first chain
    • The mRNA encoding variant UBB(+1) is produced by an unknown mechanism involving the deletion of a GT dinucleotide in the close proximity of a GAGAG motif (PubMed:9422699). This variant mRNA is found in normal brain, but the encoded protein accumulates only in brain neurofibrillary tangles and neuritic plaques in Alzheimer disease and other tauopathies, as well as polyglutaminopathies (PubMed:14597671). UBB(+1) variant cannot be used for polyubiquitination, is not effectively degraded by the proteasome when ubiquitinated and ubiquitinated UBB(+1) is refractory to disassembly by deubiquitinating enzymes (DUBs). In healthy brain, UBB(+1) C-terminus can be cleaved by UCHL3 (PubMed:21762696).
    • Ubiquitin is encoded by 4 different genes. UBA52 and RPS27A genes code for a single copy of ubiquitin fused to the ribosomal proteins L40 and S27a, respectively. UBB and UBC genes code for a polyubiquitin precursor with exact head to tail repeats, the number of repeats differ between species and strains

    Three dimensional structures from OCA and Proteopedia for UBB Gene

neXtProt entry for UBB Gene

Proteomics data for UBB Gene at MOPED

Post-translational modifications for UBB Gene

  • Ubiquitin: Phosphorylated at Ser-65 by PINK1 during mitophagy. Phosphorylated ubiquitin specifically binds and activates parkin (PARK2), triggering mitophagy (PubMed:24660806, PubMed:24751536, PubMed:24784582, PubMed:25527291). Phosphorylation does not affect E1-mediated E2 charging of ubiquitin but affects discharging of E2 enzymes to form polyubiquitin chains. It also affects deubiquitination by deubiquitinase enzymes such as USP30 (PubMed:25527291).
  • Modification sites at PhosphoSitePlus
  • Ubiquitination at Lys6, Lys11, Lys27, Lys29, Lys33, Lys48, and Lys63

No data available for DME Specific Peptides for UBB Gene

Domains for UBB Gene

Protein Domains for UBB Gene

UniProtKB/Swiss-Prot:

UBB_HUMAN
Domain:
  • Contains 3 ubiquitin-like domains.:
    • P0CG47
Family:
  • Belongs to the ubiquitin family.:
    • P0CG47
genes like me logo Genes that share domains with UBB: view

No data available for Gene Families for UBB Gene

Function for UBB Gene

Molecular function for UBB Gene

GENATLAS Biochemistry: poly-ubiquitin,gene B,encoding 3 ubiquitin units
UniProtKB/Swiss-Prot Function: Ubiquitin: Exists either covalently attached to another protein, or free (unanchored). When covalently bound, it is conjugated to target proteins via an isopeptide bond either as a monomer (monoubiquitin), a polymer linked via different Lys residues of the ubiquitin (polyubiquitin chains) or a linear polymer linked via the initiator Met of the ubiquitin (linear polyubiquitin chains). Polyubiquitin chains, when attached to a target protein, have different functions depending on the Lys residue of the ubiquitin that is linked: Lys-6-linked may be involved in DNA repair; Lys-11-linked is involved in ERAD (endoplasmic reticulum-associated degradation) and in cell-cycle regulation; Lys-29-linked is involved in lysosomal degradation; Lys-33-linked is involved in kinase modification; Lys-48-linked is involved in protein degradation via the proteasome; Lys-63-linked is involved in endocytosis, DNA-damage responses as well as in signaling processes leading to activation of the transcription factor NF-kappa-B. Linear polymer chains formed via attachment by the initiator Met lead to cell signaling. Ubiquitin is usually conjugated to Lys residues of target proteins, however, in rare cases, conjugation to Cys or Ser residues has been observed. When polyubiquitin is free (unanchored-polyubiquitin), it also has distinct roles, such as in activation of protein kinases, and in signaling.

Gene Ontology (GO) - Molecular Function for UBB Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 14755250
genes like me logo Genes that share ontologies with UBB: view
genes like me logo Genes that share phenotypes with UBB: view

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targeting and HOMER Transcription for UBB Gene

Localization for UBB Gene

Subcellular locations from UniProtKB/Swiss-Prot for UBB Gene

Ubiquitin: Cytoplasm. Nucleus.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for UBB Gene COMPARTMENTS Subcellular localization image for UBB gene
Compartment Confidence
cytosol 4
endosome 4
nucleus 4
cytoskeleton 2
plasma membrane 2

Gene Ontology (GO) - Cellular Components for UBB Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005654 nucleoplasm TAS --
GO:0005739 mitochondrion IDA 17571083
GO:0005829 cytosol TAS --
GO:0005886 plasma membrane TAS --
GO:0010008 endosome membrane TAS --
genes like me logo Genes that share ontologies with UBB: view

Pathways for UBB Gene

SuperPathways for UBB Gene

Superpath Contained pathways
1 CDK-mediated phosphorylation and removal of Cdc6
.78
.38
2 Loss of Function of SMAD2/3 in Cancer
3 Signaling by NOTCH1 PEST Domain Mutants in Cancer
4 Signaling by FGFR
5 p75 NTR receptor-mediated signalling
genes like me logo Genes that share pathways with UBB: view

Gene Ontology (GO) - Biological Process for UBB Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000082 G1/S transition of mitotic cell cycle TAS --
GO:0000086 G2/M transition of mitotic cell cycle TAS --
GO:0000122 negative regulation of transcription from RNA polymerase II promoter TAS --
GO:0000187 activation of MAPK activity TAS --
GO:0000209 protein polyubiquitination TAS --
genes like me logo Genes that share ontologies with UBB: view

Compounds for UBB Gene

(1) Drugbank Compounds for UBB Gene

Compound Synonyms Cas Number Type Actions PubMed IDs
(4s)-5-Fluoro-L-Leucine
target
genes like me logo Genes that share compounds with UBB: view

Transcripts for UBB Gene

Unigene Clusters for UBB Gene

Ubiquitin B:
Representative Sequences:

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

ExUns: 1 ^ 2a · 2b · 2c ^ 3a · 3b · 3c
SP1: - - -
SP2: -
SP3:

Relevant External Links for UBB Gene

GeneLoc Exon Structure for
UBB
ECgene alternative splicing isoforms for
UBB

Expression for UBB Gene

mRNA expression in normal human tissues for UBB Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

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

This gene is overexpressed in Whole Blood (4.2).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, and MOPED for UBB Gene

SOURCE GeneReport for Unigene cluster for UBB Gene Hs.356190

genes like me logo Genes that share expressions with UBB: view

Orthologs for UBB Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for UBB Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia UBB 36
  • 99.27 (n)
  • 100 (a)
UBB 37
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia UBB 37
  • 75 (a)
OneToOne
dog
(Canis familiaris)
Mammalia UBB 36
  • 94.76 (n)
  • 99.56 (a)
UBB 37
  • 100 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Ubb 16
Ubb 37
  • 75 (a)
OneToMany
oppossum
(Monodelphis domestica)
Mammalia UBB 37
  • 43 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 37
  • 75 (a)
OneToMany
chicken
(Gallus gallus)
Aves UBB 36
  • 88.01 (n)
  • 100 (a)
UBB 37
  • 75 (a)
OneToMany
lizard
(Anolis carolinensis)
Reptilia -- 37
  • 10 (a)
ManyToMany
zebrafish
(Danio rerio)
Actinopterygii UBC 37
  • 50 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta CG11700 37
  • 67 (a)
OneToMany
CG18282 38
  • 97 (a)
Ubi-p63E 38
  • 100 (a)
worm
(Caenorhabditis elegans)
Secernentea ubq-1 37
  • 27 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes RPL40A 37
  • 70 (a)
ManyToMany
RPL40B 37
  • 70 (a)
ManyToMany
thale cress
(Arabidopsis thaliana)
eudicotyledons UBQ11 36
  • 79.53 (n)
  • 96.05 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 37
  • 64 (a)
ManyToMany
Species with no ortholog for UBB:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • 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)
  • rat (Rattus norvegicus)
  • 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)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)

Evolution for UBB Gene

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

Paralogs for UBB Gene

Paralogs for UBB Gene

Pseudogenes.org Pseudogenes for UBB Gene

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

Variants for UBB Gene

Sequence variations from dbSNP and Humsavar for UBB Gene

SNP ID Clin Chr 17 pos Sequence Context AA Info Type MAF
rs14261 -- 16,382,672(+) TAAGT(C/T)TAGAA utr-variant-3-prime
rs14660 -- 16,382,686(+) ACAAG(G/T)TTCNG utr-variant-3-prime
rs1006957 -- 16,378,924(+) AGCAG(G/T)ATCAG upstream-variant-2KB
rs1006958 -- 16,379,140(+) GTTTC(C/T)GGTCC upstream-variant-2KB
rs1060199 -- 16,382,234(+) GATAA(A/G)GAAGG reference, synonymous-codon

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

Variant ID Type Subtype PubMed ID
esv2715702 CNV Deletion 23290073

Relevant External Links for UBB Gene

HapMap Linkage Disequilibrium report
UBB

Disorders for UBB Gene

(1) OMIM Diseases for UBB Gene (191339)

(1) University of Copenhagen DISEASES for UBB Gene

(3) Novoseek inferred disease relationships for UBB Gene

Disease -log(P) Hits PubMed IDs
alzheimers disease 55.9 5
down syndrome 46.8 1
tumors 0 2
genes like me logo Genes that share disorders with UBB: view

No data available for UniProtKB/Swiss-Prot for UBB Gene

Publications for UBB Gene

  1. Localization of the human UbB polyubiquitin gene to chromosome band 17p11.1-17p12. (PMID: 2154095) Webb G.C. … Board P.G. (Am. J. Hum. Genet. 1990) 2 3 23
  2. Frameshift mutants of beta amyloid precursor protein and ubiquitin-B in Alzheimer's and Down patients. (PMID: 9422699) van Leeuwen F.W. … Hol E.M. (Science 1998) 3 4 23
  3. Lineage-specific homogenization of the polyubiquitin gene among human and great apes. (PMID: 14745543) Tachikui H. … Inoue I. (J. Mol. Evol. 2003) 3 4 23
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4
  5. Extensive proteomic screening identifies the obesity-related NYGGF4 protein as a novel LRP1-interactor, showing reduced expression in early Alzheimer's disease. (PMID: 20205790) Kajiwara Y. … Buxbaum J.D. (Mol Neurodegener 2010) 3 23

Products for UBB Gene

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat
  • Pathway & Disease-focused RT² Profiler PCR Arrays
    • Parkinsons Disease in human,mouse,rat
    • Ubiquitin Ligases in human,mouse,rat
  • QIAGEN qRT-PCR Assays for microRNAs that regulate UBB
  • QuantiTect SYBR Green Assays in human,mouse,rat
  • Pre-validated RT² qPCR Primer Assay in human,mouse,rat
  • QuantiFast Probe-based Assays in human,mouse,rat
  • Predesigned siRNA for gene silencing in human,mouse,rat for UBB
  • Block miRNA regulation of UBB using miScript Target Protectors
  • Addgene plasmids for UBB

Sources for UBB Gene

Back to Top

Content