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Aliases for USP11 Gene

Aliases for USP11 Gene

  • Ubiquitin Specific Peptidase 11 2 3 5
  • Deubiquitinating Enzyme 11 3 4
  • Ubiquitin Thioesterase 11 3 4
  • UHX1 3 4
  • Ubiquitin Carboxyl-Terminal Hydrolase, X-Linked 3
  • Ubiquitin-Specific Processing Protease 11 3
  • Ubiquitin-Specific-Processing Protease 11 4
  • Ubiquitin Carboxyl-Terminal Hydrolase 11 3
  • Ubiquitin Specific Protease 11 2
  • Ubiquitin Thiolesterase 11 3
  • EC 3.4.19.12 4
  • EC 3.1.2.15 61

External Ids for USP11 Gene

Previous GeneCards Identifiers for USP11 Gene

  • GC0XP045895
  • GC0XP045352
  • GC0XP045918
  • GC0XP046138
  • GC0XP046848
  • GC0XP046977
  • GC0XP047093
  • GC0XP044802

Summaries for USP11 Gene

Entrez Gene Summary for USP11 Gene

  • Protein ubiquitination controls many intracellular processes, including cell cycle progression, transcriptional activation, and signal transduction. This dynamic process, involving ubiquitin conjugating enzymes and deubiquitinating enzymes, adds and removes ubiquitin. Deubiquitinating enzymes are cysteine proteases that specifically cleave ubiquitin from ubiquitin-conjugated protein substrates. This gene encodes a deubiquitinating enzyme which lies in a gene cluster on chromosome Xp11.23 [provided by RefSeq, Jul 2008]

GeneCards Summary for USP11 Gene

USP11 (Ubiquitin Specific Peptidase 11) is a Protein Coding gene. Among its related pathways are Chaperonin-mediated protein folding and Deubiquitination. GO annotations related to this gene include cysteine-type endopeptidase activity and thiol-dependent ubiquitinyl hydrolase activity. An important paralog of this gene is USP4.

UniProtKB/Swiss-Prot for USP11 Gene

  • Protease that can remove conjugated ubiquitin from target proteins and polyubiquitin chains (PubMed:12084015, PubMed:15314155, PubMed:17897950, PubMed:19874889, PubMed:20233726, PubMed:24724799). Inhibits the degradation of target proteins by the proteasome (PubMed:12084015). Cleaves preferentially Lys-6 and Lys-63-linked ubiquitin chains. Has lower activity with Lys-11 and Lys-33-linked ubiquitin chains, and extremely low activity with Lys-27, Lys-29 and Lys-48-linked ubiquitin chains (in vitro) (PubMed:24724799). Plays a role in the regulation of pathways leading to NF-kappa-B activation (PubMed:17897950, PubMed:19874889). Plays a role in the regulation of DNA repair after double-stranded DNA breaks (PubMed:15314155, PubMed:20233726). Acts as a chromatin regulator via its association with the Polycomb group (PcG) multiprotein PRC1-like complex; may act by deubiquitinating components of the PRC1-like complex (PubMed:20601937).

Gene Wiki entry for USP11 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for USP11 Gene

Genomics for USP11 Gene

Regulatory Elements for USP11 Gene

Enhancers for USP11 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH0XG047216 1.4 ENCODE dbSUPER 17.9 -14.2 -14172 5.0 HDGF PKNOX1 CREB3L1 ARNT AGO1 WRNIP1 SIN3A DMAP1 FEZF1 ZNF2 LOC100113397 INE1 LINC01560 USP11 ZNF81 ZNF674-AS1 ZNF157 ZNF182 SNORA11C LOC100419232
GH0XG047358 1.3 Ensembl ENCODE 17.6 +126.0 125985 1.0 HNRNPUL1 HDGF PKNOX1 ARNT SIN3A ZNF2 YY1 ZNF207 ZNF548 ZNF263 USP11 ZNF81 LOC100113397 INE1 ZNF157 LINC01560 GC0XM047351
GH0XG047523 1.7 FANTOM5 Ensembl ENCODE dbSUPER 12.2 +291.0 291011 1.0 ATF1 CBX3 RB1 ARID4B ZNF2 RAD21 ZNF366 ZNF143 RCOR1 ZNF391 LINC01560 ZNF41 CDK16 USP11 ELK1 CFP SYN1 SPACA5 NUS1P1 ARAF
GH0XG047199 0.8 ENCODE 13.9 -31.7 -31662 2.1 SOX13 CTCF KLF1 TFAP4 SAP130 SIN3A RAD21 ZKSCAN1 RARA NR2F6 RNU6-1189P USP11 INE1 UBA1
GH0XG047489 0.6 ENCODE 16 +257.8 257769 2.0 ZNF34 ZBTB11 ZSCAN5C ZNF426 FOS ZNF394 ZNF781 ZNF558 USP11 WASF4P ZNF81 ZNF41 GC0XP047511
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around USP11 on UCSC Golden Path with GeneCards custom track

Promoters for USP11 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000246393 1110 2400 PKNOX1 SIN3A FEZF1 DMAP1 ZNF2 ZBTB7B YY1 SP3 ZHX2 REST

Genomic Location for USP11 Gene

Chromosome:
X
Start:
47,232,690 bp from pter
End:
47,248,328 bp from pter
Size:
15,639 bases
Orientation:
Plus strand

Genomic View for USP11 Gene

Genes around USP11 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
USP11 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for USP11 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for USP11 Gene

Proteins for USP11 Gene

  • Protein details for USP11 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P51784-UBP11_HUMAN
    Recommended name:
    Ubiquitin carboxyl-terminal hydrolase 11
    Protein Accession:
    P51784
    Secondary Accessions:
    • B2RTX1
    • Q8IUG6
    • Q9BWE1

    Protein attributes for USP11 Gene

    Size:
    963 amino acids
    Molecular mass:
    109817 Da
    Quaternary structure:
    • Monomer (PubMed:24724799). Interacts with RANBP9/RANBPM (PubMed:12084015). Interacts with BRCA2 (PubMed:15314155). Interacts with CHUK/IKKA (PubMed:17897950). Interacts with NFKBIA (PubMed:19874889). Associated component of the Polycomb group (PcG) multiprotein PRC1-like complex (PubMed:20601937).
    • (Microbial infection) Interacts with papilloma virus protein 16E7 (PubMed:18408009).
    SequenceCaution:
    • Sequence=AAC50450.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=AAC50450.1; Type=Frameshift; Positions=65, 117, 134, 146; Evidence={ECO:0000305}; Sequence=BAC20463.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=CAD20056.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for USP11 Gene

neXtProt entry for USP11 Gene

Selected DME Specific Peptides for USP11 Gene

P51784:
  • AAYVLFY
  • RNDSVIVD
  • CIELFTT
  • FLLDGLH
  • RDDIFVYEV
  • GNTCFMN
  • PLLVSVP
  • NPLGMKGE
  • DGLHEDLN
  • NLGNTCF
  • LIIHLKR

Post-translational modifications for USP11 Gene

  • Ubiquitination at Lys107, Lys191, Lys245, isoforms=355, Lys367, isoforms=447, Lys493, Lys531, Lys714, posLast=766766, Lys835, posLast=840840, Lys896, and Lys920
  • Modification sites at PhosphoSitePlus

Other Protein References for USP11 Gene

Domains & Families for USP11 Gene

Gene Families for USP11 Gene

Graphical View of Domain Structure for InterPro Entry

P51784

UniProtKB/Swiss-Prot:

UBP11_HUMAN :
  • Belongs to the peptidase C19 family.
Family:
  • Belongs to the peptidase C19 family.
genes like me logo Genes that share domains with USP11: view

Function for USP11 Gene

Molecular function for USP11 Gene

GENATLAS Biochemistry:
ubiquitin specific protease 11,highly expressed in the retina,deubiquitin enzyme family
UniProtKB/Swiss-Prot CatalyticActivity:
Thiol-dependent hydrolysis of ester, thioester, amide, peptide and isopeptide bonds formed by the C-terminal Gly of ubiquitin (a 76-residue protein attached to proteins as an intracellular targeting signal).
UniProtKB/Swiss-Prot Function:
Protease that can remove conjugated ubiquitin from target proteins and polyubiquitin chains (PubMed:12084015, PubMed:15314155, PubMed:17897950, PubMed:19874889, PubMed:20233726, PubMed:24724799). Inhibits the degradation of target proteins by the proteasome (PubMed:12084015). Cleaves preferentially Lys-6 and Lys-63-linked ubiquitin chains. Has lower activity with Lys-11 and Lys-33-linked ubiquitin chains, and extremely low activity with Lys-27, Lys-29 and Lys-48-linked ubiquitin chains (in vitro) (PubMed:24724799). Plays a role in the regulation of pathways leading to NF-kappa-B activation (PubMed:17897950, PubMed:19874889). Plays a role in the regulation of DNA repair after double-stranded DNA breaks (PubMed:15314155, PubMed:20233726). Acts as a chromatin regulator via its association with the Polycomb group (PcG) multiprotein PRC1-like complex; may act by deubiquitinating components of the PRC1-like complex (PubMed:20601937).

Enzyme Numbers (IUBMB) for USP11 Gene

Gene Ontology (GO) - Molecular Function for USP11 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004197 cysteine-type endopeptidase activity TAS 9827704
GO:0004843 thiol-dependent ubiquitin-specific protease activity IDA,TAS 15314155
GO:0005515 protein binding IPI 15314155
GO:0008233 peptidase activity IEA --
GO:0008234 cysteine-type peptidase activity IEA --
genes like me logo Genes that share ontologies with USP11: view
genes like me logo Genes that share phenotypes with USP11: view

Animal Models for USP11 Gene

MGI Knock Outs for USP11:

Animal Model Products

  • Taconic Biosciences Mouse Models for USP11

CRISPR Products

miRNA for USP11 Gene

miRTarBase miRNAs that target USP11

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for USP11

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for USP11 Gene

Localization for USP11 Gene

Subcellular locations from UniProtKB/Swiss-Prot for USP11 Gene

Nucleus. Cytoplasm. Chromosome. Note=Predominantly nuclear (PubMed:12084015, PubMed:15314155). Associates with chromatin (PubMed:20601937, PubMed:20233726). {ECO:0000269 PubMed:12084015, ECO:0000269 PubMed:15314155, ECO:0000269 PubMed:20233726, ECO:0000269 PubMed:20601937}.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for USP11 gene
Compartment Confidence
nucleus 5
cytosol 5
mitochondrion 2
peroxisome 1

Gene Ontology (GO) - Cellular Components for USP11 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA,IDA 15314155
GO:0005654 nucleoplasm IDA --
GO:0005694 chromosome IEA --
GO:0005737 cytoplasm IEA --
GO:0005829 cytosol TAS --
genes like me logo Genes that share ontologies with USP11: view

Pathways & Interactions for USP11 Gene

genes like me logo Genes that share pathways with USP11: view

Gene Ontology (GO) - Biological Process for USP11 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006508 proteolysis IEA --
GO:0006511 ubiquitin-dependent protein catabolic process IEA --
GO:0016579 protein deubiquitination TAS --
genes like me logo Genes that share ontologies with USP11: view

No data available for SIGNOR curated interactions for USP11 Gene

Drugs & Compounds for USP11 Gene

(1) Drugs for USP11 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Water Approved Pharma 0
genes like me logo Genes that share compounds with USP11: view

Transcripts for USP11 Gene

Unigene Clusters for USP11 Gene

Ubiquitin specific peptidase 11:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for USP11

Alternative Splicing Database (ASD) splice patterns (SP) for USP11 Gene

ExUns: 1a · 1b · 1c · 1d ^ 2a · 2b ^ 3a · 3b · 3c ^ 4 ^ 5 ^ 6 ^ 7 ^ 8a · 8b ^ 9a · 9b · 9c ^ 10a · 10b ^ 11a · 11b ^ 12 ^ 13 ^ 14a · 14b ·
SP1: - - -
SP2: - -
SP3: - -
SP4: - -
SP5: - - -
SP6: - -
SP7:
SP8: -
SP9: - - - - - - - - - - -
SP10:
SP11:

ExUns: 14c ^ 15 ^ 16 ^ 17a · 17b ^ 18 ^ 19 ^ 20 ^ 21 ^ 22
SP1: -
SP2: -
SP3: -
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11:

Relevant External Links for USP11 Gene

GeneLoc Exon Structure for
USP11
ECgene alternative splicing isoforms for
USP11

Expression for USP11 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for USP11 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for USP11 Gene

This gene is overexpressed in Retina (14.8) and Cervix (8.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for USP11 Gene



Protein tissue co-expression partners for USP11 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of USP11 Gene:

USP11

SOURCE GeneReport for Unigene cluster for USP11 Gene:

Hs.171501

Evidence on tissue expression from TISSUES for USP11 Gene

  • Nervous system(5)
  • Eye(4.6)
  • Liver(4.4)
  • Muscle(4.3)
  • Lung(4.1)
  • Pancreas(3.4)
  • Kidney(3.2)
  • Intestine(2.8)
  • Skin(2.8)
  • Spleen(2.6)
genes like me logo Genes that share expression patterns with USP11: view

Primer Products

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for USP11 Gene

Orthologs for USP11 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for USP11 Gene

Organism Taxonomy Gene Similarity Type Details
dog
(Canis familiaris)
Mammalia USP11 34 35
  • 86.13 (n)
cow
(Bos Taurus)
Mammalia USP11 34 35
  • 85.33 (n)
rat
(Rattus norvegicus)
Mammalia Usp11 34
  • 83.93 (n)
mouse
(Mus musculus)
Mammalia Usp11 34 16 35
  • 83.86 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia USP11 35
  • 70 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia USP11 35
  • 69 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia USP11 35
  • 64 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii usp11 34 35
  • 63.3 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG30421 36
  • 37 (a)
worm
(Caenorhabditis elegans)
Secernentea H34C03.2 36 35
  • 54 (a)
F07A11.4 36
  • 33 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes UBP12 35
  • 20 (a)
OneToMany
soybean
(Glycine max)
eudicotyledons Gma.15565 34
rice
(Oryza sativa)
Liliopsida Os.45946 34
sea squirt
(Ciona savignyi)
Ascidiacea CSA.2770 35
  • 37 (a)
OneToMany
Species where no ortholog for USP11 was found in the sources mined by GeneCards:
  • 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)
  • chicken (Gallus gallus)
  • chimpanzee (Pan troglodytes)
  • 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)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)

Evolution for USP11 Gene

ENSEMBL:
Gene Tree for USP11 (if available)
TreeFam:
Gene Tree for USP11 (if available)

Paralogs for USP11 Gene

Paralogs for USP11 Gene

genes like me logo Genes that share paralogs with USP11: view

Variants for USP11 Gene

Sequence variations from dbSNP and Humsavar for USP11 Gene

SNP ID Clin Chr 0X pos Sequence Context AA Info Type
rs1000063232 -- 47,237,794(+) TGTGT(A/G)TGTGT intron-variant
rs1000115141 -- 47,238,129(+) ATTTA(C/T)TATAA intron-variant
rs1000562980 -- 47,236,044(+) CTTTT(A/G)GGATG intron-variant
rs1000617503 -- 47,246,680(+) CAGAC(A/G)TGGCA intron-variant
rs1000733154 -- 47,246,207(+) ATCTT(C/T)GTTAG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for USP11 Gene

Variant ID Type Subtype PubMed ID
esv1746874 CNV deletion 17803354
esv2740137 CNV deletion 23290073
esv2740138 CNV deletion 23290073
esv3239173 CNV deletion 24192839
esv3558852 CNV deletion 23714750
esv988260 CNV deletion 20482838
nsv1139400 CNV deletion 24896259

Variation tolerance for USP11 Gene

Residual Variation Intolerance Score: 2.81% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.87; 18.11% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for USP11 Gene

Human Gene Mutation Database (HGMD)
USP11
SNPedia medical, phenotypic, and genealogical associations of SNPs for
USP11

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for USP11 Gene

Disorders for USP11 Gene

Relevant External Links for USP11

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
USP11

No disorders were found for USP11 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for USP11 Gene

Publications for USP11 Gene

  1. USP11 negatively regulates TNFalpha-induced NF-kappaB activation by targeting on IkappaBalpha. (PMID: 19874889) Sun W. … Yang J. (Cell. Signal. 2010) 3 4 22 64
  2. Structural and functional characterization of the USP11 deubiquitinating enzyme, which interacts with the RanGTP-associated protein RanBPM. (PMID: 12084015) Ideguchi H. … Ishigatsubo Y. (Biochem. J. 2002) 3 4 22 64
  3. Structure and catalytic regulatory function of ubiquitin specific protease 11 N-terminal and ubiquitin-like domains. (PMID: 24724799) Harper S. … Dreveny I. (Biochemistry 2014) 3 4 64
  4. Ubiquitin-specific proteases 7 and 11 modulate Polycomb regulation of the INK4a tumour suppressor. (PMID: 20601937) Maertens G.N. … Peters G. (EMBO J. 2010) 3 4 64
  5. Sensitivity to poly(ADP-ribose) polymerase (PARP) inhibition identifies ubiquitin-specific peptidase 11 (USP11) as a regulator of DNA double-strand break repair. (PMID: 20233726) Wiltshire T.D. … Cortez D. (J. Biol. Chem. 2010) 4 22 64

Products for USP11 Gene

  • Addgene plasmids for USP11

Sources for USP11 Gene

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