U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

USP13 ubiquitin specific peptidase 13 [ Homo sapiens (human) ]

Gene ID: 8975, updated on 8-Nov-2022

Summary

Official Symbol
USP13provided by HGNC
Official Full Name
ubiquitin specific peptidase 13provided by HGNC
Primary source
HGNC:HGNC:12611
See related
Ensembl:ENSG00000058056 MIM:603591; AllianceGenome:HGNC:12611
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
ISOT3; IsoT-3
Summary
Enables several functions, including BAT3 complex binding activity; chaperone binding activity; and cysteine-type peptidase activity. Involved in several processes, including maintenance of unfolded protein involved in ERAD pathway; regulation of cellular catabolic process; and regulation of transcription, DNA-templated. Acts upstream of or within protein deubiquitination and protein stabilization. Predicted to be located in nucleoplasm. Predicted to be active in cytosol and nucleus. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in heart (RPKM 16.6), adrenal (RPKM 7.5) and 21 other tissues See more
Orthologs
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

See USP13 in Genome Data Viewer
Location:
3q26.33
Exon count:
22
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (179653040..179789401)
110 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (182456880..182592926)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (179370828..179507189)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA U13 Neighboring gene NADH:ubiquinone oxidoreductase subunit B5 Neighboring gene H3 histone pseudogene 13 Neighboring gene uncharacterized LOC124909464 Neighboring gene peroxisomal biogenesis factor 5 like Neighboring gene PEX5L antisense RNA 2

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?

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables BAT3 complex binding IDA
Inferred from Direct Assay
more info
PubMed 
enables K48-linked deubiquitinase activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
enables chaperone binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables cysteine-type deubiquitinase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables cysteine-type deubiquitinase activity IDA
Inferred from Direct Assay
more info
PubMed 
enables cysteine-type deubiquitinase activity TAS
Traceable Author Statement
more info
 
enables cysteine-type endopeptidase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables cysteine-type endopeptidase activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
enables proteasome binding IDA
Inferred from Direct Assay
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables ubiquitin binding IDA
Inferred from Direct Assay
more info
PubMed 
enables ubiquitin protein ligase binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables ubiquitin-like protein ligase binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
involved_in autophagy IEA
Inferred from Electronic Annotation
more info
 
involved_in cell population proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in maintenance of unfolded protein involved in ERAD pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in melanocyte differentiation TAS
Traceable Author Statement
more info
PubMed 
involved_in positive regulation of ERAD pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within protein K29-linked deubiquitination IDA
Inferred from Direct Assay
more info
PubMed 
involved_in protein K48-linked deubiquitination IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within protein K6-linked deubiquitination IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within protein K63-linked deubiquitination IDA
Inferred from Direct Assay
more info
PubMed 
involved_in protein K63-linked deubiquitination IDA
Inferred from Direct Assay
more info
PubMed 
involved_in protein deubiquitination IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in protein deubiquitination TAS
Traceable Author Statement
more info
 
acts_upstream_of_or_within protein stabilization IDA
Inferred from Direct Assay
more info
PubMed 
involved_in protein stabilization IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within protein stabilization IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of DNA-templated transcription IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of autophagy IDA
Inferred from Direct Assay
more info
PubMed 
involved_in ubiquitin-dependent protein catabolic process IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
is_active_in cytosol IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in cytosol TAS
Traceable Author Statement
more info
 
located_in nucleoplasm TAS
Traceable Author Statement
more info
 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
ubiquitin carboxyl-terminal hydrolase 13
Names
deubiquitinating enzyme 13
ubiquitin specific peptidase 13 (isopeptidase T-3)
ubiquitin specific protease 13 (isopeptidase T-3)
ubiquitin thioesterase 13
ubiquitin thiolesterase 13
ubiquitin-specific-processing protease 13
NP_003931.2
XP_011511571.1
XP_016862914.1
XP_016862915.1
XP_016862916.1
XP_047305110.1

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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_003940.3NP_003931.2  ubiquitin carboxyl-terminal hydrolase 13

    See identical proteins and their annotated locations for NP_003931.2

    Status: VALIDATED

    Source sequence(s)
    AC007687, AC125604, BC016146
    Consensus CDS
    CCDS3235.1
    UniProtKB/Swiss-Prot
    Q92995, Q96B25
    UniProtKB/TrEMBL
    A0A0A6YZ17
    Related
    ENSP00000263966.3, ENST00000263966.8
    Conserved Domains (5) summary
    COG5207
    Location:30861
    UBP14; Uncharacterized Zn-finger protein, UBP-type [General function prediction only]
    cd02658
    Location:337859
    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 ...
    cd14384
    Location:652700
    UBA1_UBP13; UBA1 domain found in ubiquitin carboxyl-terminal hydrolase 13 (UBP13)
    cd14386
    Location:728769
    UBA2_UBP5; UBA2 domain found in ubiquitin carboxyl-terminal hydrolase 5 (UBP5)
    pfam02148
    Location:211284
    zf-UBP; Zn-finger in ubiquitin-hydrolases and other protein

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 110 details...Open this link in a new tab

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000003.12 Reference GRCh38.p14 Primary Assembly

    Range
    179653040..179789401
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011513269.2XP_011511571.1  ubiquitin carboxyl-terminal hydrolase 13 isoform X1

    See identical proteins and their annotated locations for XP_011511571.1

    Conserved Domains (5) summary
    COG5207
    Location:30852
    UBP14; Uncharacterized Zn-finger protein, UBP-type [General function prediction only]
    cd02658
    Location:337850
    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 ...
    cd14384
    Location:643691
    UBA1_UBP13; UBA1 domain found in ubiquitin carboxyl-terminal hydrolase 13 (UBP13)
    cd14386
    Location:719760
    UBA2_UBP5; UBA2 domain found in ubiquitin carboxyl-terminal hydrolase 5 (UBP5)
    pfam02148
    Location:211284
    zf-UBP; Zn-finger in ubiquitin-hydrolases and other protein
  2. XM_017007426.2XP_016862915.1  ubiquitin carboxyl-terminal hydrolase 13 isoform X3

  3. XM_047449154.1XP_047305110.1  ubiquitin carboxyl-terminal hydrolase 13 isoform X4

  4. XM_017007425.2XP_016862914.1  ubiquitin carboxyl-terminal hydrolase 13 isoform X2

    Related
    ENSP00000417146.1, ENST00000496897.5
  5. XM_017007427.2XP_016862916.1  ubiquitin carboxyl-terminal hydrolase 13 isoform X5

    Related
    ENST00000679972.1

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    182456880..182592926
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)