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USP5 ubiquitin specific peptidase 5 [ Homo sapiens (human) ]

Gene ID: 8078, updated on 9-Dec-2018

Summary

Official Symbol
USP5provided by HGNC
Official Full Name
ubiquitin specific peptidase 5provided by HGNC
Primary source
HGNC:HGNC:12628
See related
Ensembl:ENSG00000111667 MIM:601447
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
ISOT
Summary
Ubiquitin (see MIM 191339)-dependent proteolysis is a complex pathway of protein metabolism implicated in such diverse cellular functions as maintenance of chromatin structure, receptor function, and degradation of abnormal proteins. A late step of the process involves disassembly of the polyubiquitin chains on degraded proteins into ubiquitin monomers. USP5 disassembles branched polyubiquitin chains by a sequential exo mechanism, starting at the proximal end of the chain (Wilkinson et al., 1995 [PubMed 7578059]).[supplied by OMIM, Mar 2010]
Expression
Ubiquitous expression in testis (RPKM 36.2), brain (RPKM 33.4) and 25 other tissues See more
Orthologs

Genomic context

See USP5 in Genome Data Viewer
Location:
12p13.31
Exon count:
20
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 12 NC_000012.12 (6852121..6866632)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (6961285..6975796)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene prolyl 3-hydroxylase 3 Neighboring gene G protein subunit beta 3 Neighboring gene cell division cycle associated 3 Neighboring gene triosephosphate isomerase 1 Neighboring gene uncharacterized LOC105369632 Neighboring gene splA/ryanodine receptor domain and SOCS box containing 2 Neighboring gene ribosomal protein L13 pseudogene 5

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 FunctionsWhat's a GeneRIF?

Pathways from BioSystems

  • Deubiquitination, organism-specific biosystem (from REACTOME)
    Deubiquitination, organism-specific biosystemUbiquitination, the modification of proteins by the covalent attachment of ubiquitin (Ub), is a key regulatory mechanism for many many cellular processes, including protein degradation by the 26S pro...
  • Metabolism of proteins, organism-specific biosystem (from REACTOME)
    Metabolism of proteins, organism-specific biosystemProtein metabolism comprises the pathways of translation, post-translational modification and protein folding.
  • Post-translational protein modification, organism-specific biosystem (from REACTOME)
    Post-translational protein modification, organism-specific biosystemAfter translation, many newly formed proteins undergo further covalent modifications that alter their functional properties and that are essentially irreversible under physiological conditions in the...
  • Protein ubiquitination, organism-specific biosystem (from REACTOME)
    Protein ubiquitination, organism-specific biosystemUbiquitin is a small, 76 amino acid residue protein that is conjugated by E3 ubiquitin ligases to other proteins in order to regulate their function or degradation (enzymatic cascade reviewed in Neut...
  • Synthesis of active ubiquitin: roles of E1 and E2 enzymes, organism-specific biosystem (from REACTOME)
    Synthesis of active ubiquitin: roles of E1 and E2 enzymes, organism-specific biosystemUbiquitin monomers are processed from larger precursors and then activated by formation of a thiol ester bond between ubiquitin and a cysteine residue of an E1 activating enzyme (UBA1 or UBA6, Jin et...
  • Ub-specific processing proteases, organism-specific biosystem (from REACTOME)
    Ub-specific processing proteases, organism-specific biosystemUb-specific processing proteases (USPs) are the largest of the DUB families with more than 50 members in humans. The USP catalytic domain varies considerably in size and consists of six conserved mo...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
cysteine-type endopeptidase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
thiol-dependent ubiquitin-specific protease activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
thiol-dependent ubiquitin-specific protease activity IDA
Inferred from Direct Assay
more info
PubMed 
thiol-dependent ubiquitinyl hydrolase activity TAS
Traceable Author Statement
more info
 
ubiquitin binding IDA
Inferred from Direct Assay
more info
PubMed 
zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
positive regulation of proteasomal ubiquitin-dependent protein catabolic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
protein K48-linked deubiquitination IMP
Inferred from Mutant Phenotype
more info
PubMed 
protein deubiquitination IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein deubiquitination IDA
Inferred from Direct Assay
more info
PubMed 
protein deubiquitination TAS
Traceable Author Statement
more info
 
ubiquitin-dependent protein catabolic process IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
cytosol TAS
Traceable Author Statement
more info
 
lysosome TAS
Traceable Author Statement
more info
PubMed 

General protein information

Preferred Names
ubiquitin carboxyl-terminal hydrolase 5
Names
deubiquitinating enzyme 5
isopeptidase T
testicular tissue protein Li 218
ubiquitin isopeptidase T
ubiquitin specific protease 5 (isopeptidase T)
ubiquitin thioesterase 5
ubiquitin thiolesterase 5
ubiquitin-specific protease-5 (ubiquitin isopeptidase T)
ubiquitin-specific-processing protease 5
NP_001092006.1
NP_003472.2

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.

mRNA and Protein(s)

  1. NM_001098536.1NP_001092006.1  ubiquitin carboxyl-terminal hydrolase 5 isoform 1

    See identical proteins and their annotated locations for NP_001092006.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and it encodes the longer protein (isoform 1).
    Source sequence(s)
    AU099996, BC005139, U47927
    Consensus CDS
    CCDS41743.1
    UniProtKB/Swiss-Prot
    P45974
    UniProtKB/TrEMBL
    A0A140VJZ1
    Related
    ENSP00000229268.8, ENST00000229268.12
    Conserved Domains (4) summary
    cd02658
    Location:327854
    Peptidase_C19B; A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl ...
    cd14383
    Location:655702
    UBA1_UBP5; UBA1 domain found in ubiquitin carboxyl-terminal hydrolase 5 (UBP5)
    cd14386
    Location:723765
    UBA2_UBP5; UBA2 domain found in ubiquitin carboxyl-terminal hydrolase 5 (UBP5)
    pfam02148
    Location:199272
    zf-UBP; Zn-finger in ubiquitin-hydrolases and other protein
  2. NM_003481.2NP_003472.2  ubiquitin carboxyl-terminal hydrolase 5 isoform 2

    See identical proteins and their annotated locations for NP_003472.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 3' coding region, compared to variant 1, resulting in a shorter protein (isoform 2).
    Source sequence(s)
    AI289395, BC004889, CN276110
    Consensus CDS
    CCDS31733.1
    UniProtKB/Swiss-Prot
    P45974
    Related
    ENSP00000373883.5, ENST00000389231.9
    Conserved Domains (4) summary
    cd02658
    Location:327831
    Peptidase_C19B; A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl ...
    cd14383
    Location:632679
    UBA1_UBP5; UBA1 domain found in ubiquitin carboxyl-terminal hydrolase 5 (UBP5)
    cd14386
    Location:700742
    UBA2_UBP5; UBA2 domain found in ubiquitin carboxyl-terminal hydrolase 5 (UBP5)
    pfam02148
    Location:199272
    zf-UBP; Zn-finger in ubiquitin-hydrolases and other protein

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000012.12 Reference GRCh38.p12 Primary Assembly

    Range
    6852121..6866632
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

RNA

  1. XR_931527.3 RNA Sequence

  2. XR_001748873.2 RNA Sequence

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