UBB ubiquitin B [Homo sapiens (human)] - Gene

Summary

Official Symbol: UBBprovided by HGNC
Official Full Name: ubiquitin Bprovided by HGNC
Primary source: HGNC:HGNC:12463
See related: Ensembl:ENSG00000170315 MIM:191339; AllianceGenome:HGNC:12463
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: mouse all
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Genomic context

Location:: 17p11.2

Exon count:: 5

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	17	NC_000017.11 (16380779..16382745)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	17	NC_060941.1 (16283097..16285063)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	17	NC_000017.10 (16284093..16286059)

Chromosome 17 - NC_000017.11 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Downregulation of UBB potentiates SP1/VEGFA-dependent angiogenesis in clear cell renal cell carcinoma.
Title: Downregulation of UBB potentiates SP1/VEGFA-dependent angiogenesis in clear cell renal cell carcinoma.
UBB(+1) reduces amyloid-beta cytotoxicity by activation of autophagy in yeast.
Title: UBB(+1) reduces amyloid-β cytotoxicity by activation of autophagy in yeast.
Bioinformatics analysis of mRNA and miRNA microarray to identify the key miRNA-mRNA pairs in cisplatin-resistant ovarian cancer.
Title: Bioinformatics analysis of mRNA and miRNA microarray to identify the key miRNA-mRNA pairs in cisplatin-resistant ovarian cancer.
High Expression of UBB, RAC1, and ITGB1 Predicts Worse Prognosis among Nonsmoking Patients with Lung Adenocarcinoma through Bioinformatics Analysis.
Title: High Expression of UBB, RAC1, and ITGB1 Predicts Worse Prognosis among Nonsmoking Patients with Lung Adenocarcinoma through Bioinformatics Analysis.
The Ubiquitin Gene Expression Pattern and Sensitivity to UBB and UBC Knockdown Differentiate Primary 23132/87 and Metastatic MKN45 Gastric Cancer Cells.
Title: The Ubiquitin Gene Expression Pattern and Sensitivity to UBB and UBC Knockdown Differentiate Primary 23132/87 and Metastatic MKN45 Gastric Cancer Cells.
Simultaneous Disruption of Both Polyubiquitin Genes Affects Proteasome Function and Decreases Cellular Proliferation.
Title: Simultaneous Disruption of Both Polyubiquitin Genes Affects Proteasome Function and Decreases Cellular Proliferation.
The Molecular Misreading of APP and UBB Induces a Humoral Immune Response in Alzheimer's Disease Patients with Diagnostic Ability.
Title: The Molecular Misreading of APP and UBB Induces a Humoral Immune Response in Alzheimer's Disease Patients with Diagnostic Ability.
this study shows that molecular mimicry of human ubiquitin by Bacteroides fragilis ubiquitin could be a trigger for autoimmune disease.
Title: Antigenic mimicry of ubiquitin by the gut bacterium Bacteroides fragilis: a potential link with autoimmune disease.
Recurrent ubiquitin B silencing in gynecological cancers establishes dependence on ubiquitin C.
Title: Recurrent ubiquitin B silencing in gynecological cancers establishes dependence on ubiquitin C.
This study demonstrated that the Deposition of mutant ubiquitin in parkinsonism-dementia complex of Guam.
Title: Deposition of mutant ubiquitin in parkinsonism-dementia complex of Guam.

Submit: New GeneRIF Correction See all GeneRIFs (33)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

HIV-1 interactions

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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

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

GDB:180946 (e-PCR)
- UniSTS:155138

AA555564 (e-PCR)
- UniSTS:206909

D2S1561E (e-PCR)
- UniSTS:150646

39082591 (e-PCR)
- UniSTS:498050

STS-X04803 (e-PCR)
- UniSTS:77967

D17S1503E (e-PCR)
- UniSTS:151708

RH66787 (e-PCR)
- UniSTS:85439

RH1659 (e-PCR)
- UniSTS:62659

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein tag activity	IBA Inferred from Biological aspect of Ancestor more info
enables ubiquitin protein ligase binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in energy homeostasis	IEA Inferred from Electronic Annotation more info
involved_in fat pad development	IEA Inferred from Electronic Annotation more info
involved_in female gonad development	IEA Inferred from Electronic Annotation more info
involved_in female meiosis I	IEA Inferred from Electronic Annotation more info
involved_in hypothalamus gonadotrophin-releasing hormone neuron development	IEA Inferred from Electronic Annotation more info
involved_in male meiosis I	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within mitochondrion transport along microtubule	IDA Inferred from Direct Assay more info	PubMed
involved_in modification-dependent protein catabolic process	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within neuron projection morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within positive regulation of intrinsic apoptotic signaling pathway by p53 class mediator	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of protein monoubiquitination	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of protein ubiquitination	IDA Inferred from Direct Assay more info	PubMed
involved_in protein ubiquitination	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of mitochondrial membrane potential	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within regulation of neuron apoptotic process	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within regulation of proteasomal protein catabolic process	IDA Inferred from Direct Assay more info	PubMed
involved_in seminiferous tubule development	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytosol	TAS Traceable Author Statement more info
located_in endocytic vesicle membrane	TAS Traceable Author Statement more info
located_in endoplasmic reticulum membrane	TAS Traceable Author Statement more info
located_in endosome membrane	TAS Traceable Author Statement more info
located_in extracellular exosome	HDA more info	PubMed
located_in extracellular space	HDA more info	PubMed
located_in mitochondrial outer membrane	TAS Traceable Author Statement more info
located_in mitochondrion	IDA Inferred from Direct Assay more info	PubMed
located_in neuron projection	IDA Inferred from Direct Assay more info	PubMed
located_in neuronal cell body	IDA Inferred from Direct Assay more info	PubMed
located_in nucleoplasm	TAS Traceable Author Statement more info
located_in nucleus	HDA more info	PubMed
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	TAS Traceable Author Statement more info
located_in vesicle	HDA more info	PubMed

General protein information

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Preferred Names: polyubiquitin-B

Names: epididymis secretory protein Li 50; polyubiquitin B

NCBI Reference Sequences (RefSeq)

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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

NG_023320.1 RefSeqGene

Range

5039..6688

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001281716.2 → NP_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)

AC093484, BM662083, BT020104, HY014043

Consensus CDS

CCDS11177.1

UniProtKB/Swiss-Prot

P0CG47

UniProtKB/TrEMBL

Q5U5U6, Q9UFQ0

Related

ENSP00000463156.1, ENST00000577640.1

Conserved Domains (1) summary

cd01803
Location:77 → 152

Ubl_ubiquitin; ubiquitin-like (Ubl) domain found in ubiquitin
NM_001281717.1 → NP_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, Q9UFQ0

Related

ENSP00000478771.1, ENST00000614404.1

Conserved Domains (1) summary

cd01803
Location:77 → 152

Ubl_ubiquitin; ubiquitin-like (Ubl) domain found in ubiquitin
NM_001281718.1 → NP_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, Q9UFQ0

Related

ENSP00000379178.1, ENST00000395837.1

Conserved Domains (1) summary

cd01803
Location:77 → 152

Ubl_ubiquitin; ubiquitin-like (Ubl) domain found in ubiquitin
NM_001281719.1 → NP_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, Q9UFQ0

Related

ENSP00000379180.1, ENST00000395839.5

Conserved Domains (1) summary

cd01803
Location:77 → 152

Ubl_ubiquitin; ubiquitin-like (Ubl) domain found in ubiquitin
NM_001281720.2 → NP_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)

AC093484, BM662083, BT020104, BU661443

Consensus CDS

CCDS11177.1

UniProtKB/Swiss-Prot

P0CG47

UniProtKB/TrEMBL

Q5U5U6, Q9UFQ0

Conserved Domains (1) summary

cd01803
Location:77 → 152

Ubl_ubiquitin; ubiquitin-like (Ubl) domain found in ubiquitin
NM_018955.4 → NP_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, Q9UFQ0

Related

ENSP00000304697.3, ENST00000302182.8

Conserved Domains (1) summary

cd01803
Location:77 → 152

Ubl_ubiquitin; ubiquitin-like (Ubl) domain found in ubiquitin