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UBB ubiquitin B [ Homo sapiens (human) ]

Gene ID: 7314, updated on 7-Jun-2020

Summary

Official Symbol
UBBprovided by HGNC
Official Full Name
ubiquitin Bprovided by HGNC
Primary source
HGNC:HGNC:12463
See related
Ensembl:ENSG00000170315 MIM:191339
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
HEL-S-50
Summary
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]
Expression
Ubiquitous expression in liver (RPKM 498.1), testis (RPKM 495.1) and 25 other tissues See more
Orthologs

Genomic context

See UBB in Genome Data Viewer
Location:
17p11.2
Exon count:
5
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 17 NC_000017.11 (16380793..16382745)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (16284367..16286059)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene phosphatidylinositol glycan anchor biosynthesis class L Neighboring gene Sharpr-MPRA regulatory region 12459 Neighboring gene centromere protein V Neighboring gene CRISPRi-validated cis-regulatory element chr17.878 Neighboring gene ferritin light chain pseudogene 12

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp160, precursor env HIV-1 gp160 interacts with UBB PubMed
Rev rev HIV-1 Rev is modified by polyubiquitination at Lys-33 and Lys-115; Lys-33 is the most efficient residue for branching of ubiquitin chains PubMed
Tat tat HIV-1 Tat is ubiquitinated on Lys71 by Hdm2 in conjunction with ubiquitin-activating enzyme E1 and ubiquitin-conjugating enzyme E2D 1 (UbcH5) PubMed
Vif vif HIV-1 Vif-induced G2 accumulation requires a Cul5-based E3 ligase, but is independent of APOBEC3D/E, F, and G expression. Overexpression of ubiquitin(K48R) abolishes Vif-induced G2 accumulation PubMed
Vpr vpr A di-Ub(K48)-hHR23A-Vpr ternary complex is formed with Lys-48-linked di-ubiquitin binding to the UBA1 domain in the Vpr-hHR23A complex PubMed
vpr The C-terminal domain or the R90 residue of HIV-1 Vpr are important for Vpr-mediated IL-12 degradation via ubiquitin-dependent pathway PubMed
capsid gag Monoubiquitinated forms of the HIV-1 matrix (MA), capsid (CA), and nucleocapsid (NC) proteins are detected in mature virus particles PubMed
matrix gag Monoubiquitinated forms of the HIV-1 matrix (MA), capsid (CA), and nucleocapsid (NC) proteins are detected in mature virus particles PubMed
nucleocapsid gag Monoubiquitinated forms of the HIV-1 matrix (MA), capsid (CA), and nucleocapsid (NC) proteins are detected in mature virus particles PubMed
p1 gag HIV-1 p1 is mono- or di-ubiquitinated at levels comparable to those of the other HIV-2 Gag domains MA, CA, NC, and p6; cumulative replacement of all lysine residues in NC and p1 or in NC and p6 results in an accumulation of late budding structures PubMed
p6 gag HIV-1 Gag PTAP mutant impairs the entry of Gag into the ESCRT pathway and leads to increased ubiquitination of Gag PubMed
gag Ubiquitination of HIV-1 p6-Gag may be important for proper virus release from cells PubMed
gag The L domain (P(T/S)APP; amino acids 7-11) of HIV-1 p6-Gag interacts with a ubiquitin ligase complex resulting in the monoubiquitination of p6 PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC8385, FLJ25987

Gene Ontology Provided by GOA

Function Evidence Code Pubs
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein tag IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
ubiquitin protein ligase binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Process Evidence Code Pubs
DNA damage response, detection of DNA damage TAS
Traceable Author Statement
more info
 
I-kappaB kinase/NF-kappaB signaling TAS
Traceable Author Statement
more info
 
JNK cascade TAS
Traceable Author Statement
more info
 
MyD88-dependent toll-like receptor signaling pathway TAS
Traceable Author Statement
more info
 
MyD88-independent toll-like receptor signaling pathway TAS
Traceable Author Statement
more info
 
TRIF-dependent toll-like receptor signaling pathway TAS
Traceable Author Statement
more info
 
Wnt signaling pathway TAS
Traceable Author Statement
more info
 
activation of MAPK activity TAS
Traceable Author Statement
more info
 
anaphase-promoting complex-dependent catabolic process TAS
Traceable Author Statement
more info
 
cellular protein metabolic process TAS
Traceable Author Statement
more info
 
cytokine-mediated signaling pathway TAS
Traceable Author Statement
more info
 
endosomal transport TAS
Traceable Author Statement
more info
 
energy homeostasis IEA
Inferred from Electronic Annotation
more info
 
error-free translesion synthesis TAS
Traceable Author Statement
more info
 
error-prone translesion synthesis TAS
Traceable Author Statement
more info
 
fat pad development IEA
Inferred from Electronic Annotation
more info
 
female gonad development IEA
Inferred from Electronic Annotation
more info
 
female meiosis I IEA
Inferred from Electronic Annotation
more info
 
global genome nucleotide-excision repair TAS
Traceable Author Statement
more info
 
hypothalamus gonadotrophin-releasing hormone neuron development IEA
Inferred from Electronic Annotation
more info
 
interleukin-1-mediated signaling pathway TAS
Traceable Author Statement
more info
 
interstrand cross-link repair TAS
Traceable Author Statement
more info
 
intracellular transport of virus TAS
Traceable Author Statement
more info
 
male meiosis I IEA
Inferred from Electronic Annotation
more info
 
membrane organization TAS
Traceable Author Statement
more info
 
mitochondrion transport along microtubule IDA
Inferred from Direct Assay
more info
PubMed 
modification-dependent protein catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
negative regulation of apoptotic process TAS
Traceable Author Statement
more info
 
negative regulation of transcription by RNA polymerase II TAS
Traceable Author Statement
more info
 
negative regulation of transforming growth factor beta receptor signaling pathway TAS
Traceable Author Statement
more info
 
neuron projection morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
nucleotide-binding oligomerization domain containing signaling pathway TAS
Traceable Author Statement
more info
 
nucleotide-excision repair, DNA damage recognition TAS
Traceable Author Statement
more info
 
nucleotide-excision repair, DNA duplex unwinding TAS
Traceable Author Statement
more info
 
nucleotide-excision repair, DNA gap filling TAS
Traceable Author Statement
more info
 
nucleotide-excision repair, DNA incision TAS
Traceable Author Statement
more info
 
nucleotide-excision repair, DNA incision, 5'-to lesion TAS
Traceable Author Statement
more info
 
nucleotide-excision repair, preincision complex assembly TAS
Traceable Author Statement
more info
 
positive regulation of NF-kappaB transcription factor activity TAS
Traceable Author Statement
more info
 
positive regulation of apoptotic process TAS
Traceable Author Statement
more info
 
positive regulation of intrinsic apoptotic signaling pathway by p53 class mediator IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of protein monoubiquitination IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of protein ubiquitination IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of transcription by RNA polymerase II TAS
Traceable Author Statement
more info
 
protein deubiquitination TAS
Traceable Author Statement
more info
 
protein polyubiquitination TAS
Traceable Author Statement
more info
 
protein targeting to peroxisome TAS
Traceable Author Statement
more info
 
protein ubiquitination IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein ubiquitination TAS
Traceable Author Statement
more info
 
regulation of mRNA stability TAS
Traceable Author Statement
more info
 
regulation of mitochondrial membrane potential IDA
Inferred from Direct Assay
more info
PubMed 
regulation of neuron death IDA
Inferred from Direct Assay
more info
PubMed 
regulation of proteasomal protein catabolic process IDA
Inferred from Direct Assay
more info
PubMed 
regulation of transcription from RNA polymerase II promoter in response to hypoxia TAS
Traceable Author Statement
more info
 
seminiferous tubule development IEA
Inferred from Electronic Annotation
more info
 
stress-activated MAPK cascade TAS
Traceable Author Statement
more info
 
transcription-coupled nucleotide-excision repair TAS
Traceable Author Statement
more info
 
transforming growth factor beta receptor signaling pathway TAS
Traceable Author Statement
more info
 
translesion synthesis TAS
Traceable Author Statement
more info
 
transmembrane transport TAS
Traceable Author Statement
more info
 
viral life cycle TAS
Traceable Author Statement
more info
 
virion assembly TAS
Traceable Author Statement
more info
 
Component Evidence Code Pubs
cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytosol TAS
Traceable Author Statement
more info
 
endocytic vesicle membrane TAS
Traceable Author Statement
more info
 
endoplasmic reticulum membrane TAS
Traceable Author Statement
more info
 
endosome membrane TAS
Traceable Author Statement
more info
 
extracellular exosome HDA PubMed 
extracellular space HDA PubMed 
host cell IEA
Inferred from Electronic Annotation
more info
 
mitochondrial outer membrane TAS
Traceable Author Statement
more info
 
mitochondrion IDA
Inferred from Direct Assay
more info
PubMed 
neuron projection IDA
Inferred from Direct Assay
more info
PubMed 
neuronal cell body IDA
Inferred from Direct Assay
more info
PubMed 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus HDA PubMed 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
plasma membrane TAS
Traceable Author Statement
more info
 
vesicle HDA PubMed 

General protein information

Preferred Names
polyubiquitin-B
Names
epididymis secretory protein Li 50
polyubiquitin B

NCBI Reference Sequences (RefSeq)

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.

Genomic

  1. NG_023320.1 RefSeqGene

    Range
    5039..6688
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001281716.1NP_001268645.1  polyubiquitin-B precursor

    See identical proteins and their annotated locations for NP_001268645.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1, 2, 3, 4, 5, and 6 encode the same protein.
    Source sequence(s)
    BM662083, BT020104, HY014043
    Consensus CDS
    CCDS11177.1
    UniProtKB/Swiss-Prot
    P0CG47
    UniProtKB/TrEMBL
    Q5U5U6
    Related
    ENSP00000463156.1, ENST00000577640.1
    Conserved Domains (1) summary
    cd01803
    Location:77152
    Ubiquitin; Ubiquitin
  2. NM_001281717.1NP_001268646.1  polyubiquitin-B precursor

    See identical proteins and their annotated locations for NP_001268646.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. Variants 1, 2, 3, 4, 5, and 6 encode the same protein.
    Source sequence(s)
    AC093484, BM662083, BT020104, DB480830
    Consensus CDS
    CCDS11177.1
    UniProtKB/Swiss-Prot
    P0CG47
    UniProtKB/TrEMBL
    Q5U5U6
    Related
    ENSP00000478771.1, ENST00000614404.1
    Conserved Domains (1) summary
    cd01803
    Location:77152
    Ubiquitin; Ubiquitin
  3. NM_001281718.1NP_001268647.1  polyubiquitin-B precursor

    See identical proteins and their annotated locations for NP_001268647.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR compared to variant 1. Variants 1, 2, 3, 4, 5, and 6 encode the same protein.
    Source sequence(s)
    BG718912, BM662083, BT020104, BU596366
    Consensus CDS
    CCDS11177.1
    UniProtKB/Swiss-Prot
    P0CG47
    UniProtKB/TrEMBL
    Q5U5U6
    Related
    ENSP00000379178.1, ENST00000395837.1
    Conserved Domains (1) summary
    cd01803
    Location:77152
    Ubiquitin; Ubiquitin
  4. NM_001281719.1NP_001268648.1  polyubiquitin-B precursor

    See identical proteins and their annotated locations for NP_001268648.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR compared to variant 1. Variants 1, 2, 3, 4, 5, and 6 encode the same protein.
    Source sequence(s)
    BG548604, BM554254, BM662083
    Consensus CDS
    CCDS11177.1
    UniProtKB/Swiss-Prot
    P0CG47
    UniProtKB/TrEMBL
    Q5U5U6
    Related
    ENSP00000379180.1, ENST00000395839.5
    Conserved Domains (1) summary
    cd01803
    Location:77152
    Ubiquitin; Ubiquitin
  5. NM_001281720.1NP_001268649.1  polyubiquitin-B precursor

    See identical proteins and their annotated locations for NP_001268649.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) differs in the 5' UTR compared to variant 1. Variants 1, 2, 3, 4, 5, and 6 encode the same protein.
    Source sequence(s)
    BM662083, BT020104, BU661443
    Consensus CDS
    CCDS11177.1
    UniProtKB/Swiss-Prot
    P0CG47
    UniProtKB/TrEMBL
    Q5U5U6
    Conserved Domains (1) summary
    cd01803
    Location:77152
    Ubiquitin; Ubiquitin
  6. NM_018955.4NP_061828.1  polyubiquitin-B precursor

    See identical proteins and their annotated locations for NP_061828.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript. Variants 1, 2, 3, 4, 5, and 6 encode the same protein.
    Source sequence(s)
    BC038999, BP307496
    Consensus CDS
    CCDS11177.1
    UniProtKB/Swiss-Prot
    P0CG47
    UniProtKB/TrEMBL
    Q5U5U6
    Related
    ENSP00000304697.3, ENST00000302182.8
    Conserved Domains (1) summary
    cd01803
    Location:77152
    Ubiquitin; Ubiquitin

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000017.11 Reference GRCh38.p13 Primary Assembly

    Range
    16380793..16382745
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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