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Aliases for ZUP1 Gene

Aliases for ZUP1 Gene

  • Zinc Finger Containing Ubiquitin Peptidase 1 2 3
  • Zinc Finger With UFM1 Specific Peptidase Domain 2 5
  • C6orf113 3 4
  • ZUFSP 3 5
  • Zinc Finger With UFM1-Specific Peptidase Domain Protein 3
  • Zinc Finger Containing Ubiquitin Peptidase 2
  • Chromosome 6 Open Reading Frame 113 2

External Ids for ZUP1 Gene

Previous HGNC Symbols for ZUP1 Gene

  • C6orf113

Summaries for ZUP1 Gene

Entrez Gene Summary for ZUP1 Gene

  • This gene encodes a protein containing zinc finger motifs and a cysteine peptidase domain. The encoded protein functions as a K63-specific de-ubiquitinating enzyme that specifically cleaves long K63-linked polyubiquitin chains in the middle of a chain (i.e. "endo cleavage) rather than by removing the terminal ubiquitin from a chain. This enzyme is thought to be involved in the regulation of DNA repair by cleaving K63-linked ubiquitin chains at repair foci. This protein is related to proteases for the ubiquitin-like modifiers Ufm1 (ubiquitin fold modifier 1) and Atg8/Gabarapl2, but does not have any activity on these modifiers. [provided by RefSeq, Mar 2018]

GeneCards Summary for ZUP1 Gene

ZUP1 (Zinc Finger Containing Ubiquitin Peptidase 1) is a Protein Coding gene.

Additional gene information for ZUP1 Gene

No data available for CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for ZUP1 Gene

Genomics for ZUP1 Gene

GeneHancer (GH) Regulatory Elements for ZUP1 Gene

Promoters and enhancers for ZUP1 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH06J116665 Promoter/Enhancer 2.3 EPDnew FANTOM5 Ensembl ENCODE 663.2 +1.3 1308 3.8 HDGF PKNOX1 ARNT ZFP64 ARID4B SIN3A DMAP1 ZNF2 YY1 POLR2B ZUP1 CALHM5 KPNA5 RWDD1 DSE GC06P116597
GH06J117481 Promoter/Enhancer 2.5 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 11.6 -814.0 -814020 3.5 CLOCK FOXA2 MLX ZFP64 ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 DCBLD1 ZUP1 RPL29P4 RNU6-253P PIR41328 ENSG00000282218
GH06J116679 Promoter/Enhancer 2.3 EPDnew FANTOM5 Ensembl ENCODE 10.8 -12.8 -12776 3.2 HDGF PKNOX1 MLX ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 POLR2B KPNA5 GC06M116680 DSE TPI1P3 ZUP1 RWDD1 CALHM6 TSPYL1 TSPYL4 FAM162B
GH06J116098 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE 10.4 +568.2 568160 4.7 HDGF PKNOX1 ZFP64 ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 POLR2B NT5DC1 FRK KPNA5 COL10A1 ZUP1 TSPYL4 GC06M116078
GH06J116276 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 10.1 +389.6 389625 5.6 HDGF FOXA2 SMAD1 ARID4B SIN3A FEZF1 DMAP1 ZNF2 ZBTB7B YY1 TSPYL1 PIR59102 DSE CALHM6 TSPYL4 CALHM4 TRAPPC3L KRT18P22 CBX3P9 ENSG00000244158
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around ZUP1 on UCSC Golden Path with GeneCards custom track

Genomic Locations for ZUP1 Gene

Genomic Locations for ZUP1 Gene
33,193 bases
Minus strand
33,193 bases
Minus strand

Genomic View for ZUP1 Gene

Genes around ZUP1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ZUP1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ZUP1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ZUP1 Gene

Proteins for ZUP1 Gene

  • Protein details for ZUP1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Zinc finger with UFM1-specific peptidase domain protein
    Protein Accession:
    Secondary Accessions:
    • Q5TD92
    • Q6PJH7
    • Q96NV6

    Protein attributes for ZUP1 Gene

    578 amino acids
    Molecular mass:
    65959 Da
    Quaternary structure:
    No Data Available
    • Sequence=CAI20499.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for ZUP1 Gene

    Alternative splice isoforms for ZUP1 Gene


neXtProt entry for ZUP1 Gene

Post-translational modifications for ZUP1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for ZUP1 Gene

No data available for DME Specific Peptides for ZUP1 Gene

Domains & Families for ZUP1 Gene

Gene Families for ZUP1 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for ZUP1 Gene

Suggested Antigen Peptide Sequences for ZUP1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with ZUP1: view

No data available for UniProtKB/Swiss-Prot for ZUP1 Gene

Function for ZUP1 Gene

Phenotypes From GWAS Catalog for ZUP1 Gene

Gene Ontology (GO) - Molecular Function for ZUP1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding IEA --
GO:0005515 protein binding IPI 25416956
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with ZUP1: view
genes like me logo Genes that share phenotypes with ZUP1: view

Animal Model Products

miRNA for ZUP1 Gene

miRTarBase miRNAs that target ZUP1

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for ZUP1 Gene

Localization for ZUP1 Gene

Subcellular locations from

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 ZUP1 gene
Compartment Confidence
nucleus 4
cytosol 2

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (2)
  • Nucleoplasm (2)
See all subcellular structures

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for ZUP1 Gene

Pathways & Interactions for ZUP1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for ZUP1 Gene


No data available for Pathways by source and SIGNOR curated interactions for ZUP1 Gene

Drugs & Compounds for ZUP1 Gene

No Compound Related Data Available

Transcripts for ZUP1 Gene

Alternative Splicing Database (ASD) splice patterns (SP) for ZUP1 Gene

No ASD Table

Relevant External Links for ZUP1 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for ZUP1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

NURSA nuclear receptor signaling pathways regulating expression of ZUP1 Gene:


Evidence on tissue expression from TISSUES for ZUP1 Gene

  • Liver(4.6)
  • Heart(4.2)
  • Intestine(4.1)
  • Nervous system(2.5)
genes like me logo Genes that share expression patterns with ZUP1: view

No data available for mRNA expression in normal human tissues , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for ZUP1 Gene

Orthologs for ZUP1 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for ZUP1 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia ZUFSP 34 33
  • 99.6 (n)
(Canis familiaris)
Mammalia ZUFSP 34 33
  • 90.24 (n)
(Bos Taurus)
Mammalia ZUFSP 34 33
  • 90.08 (n)
(Mus musculus)
Mammalia Zufsp 34 33
  • 86.56 (n)
Zup1 16
(Rattus norvegicus)
Mammalia Zufsp 33
  • 83.59 (n)
(Ornithorhynchus anatinus)
Mammalia ZUFSP 34
  • 70 (a)
(Monodelphis domestica)
Mammalia ZUFSP 34
  • 66 (a)
(Gallus gallus)
Aves ZUFSP 34 33
  • 71.78 (n)
(Anolis carolinensis)
Reptilia ZUFSP 34
  • 71 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia zufsp 33
  • 60.81 (n)
Str.3949 33
African clawed frog
(Xenopus laevis)
Amphibia Xl.19781 33
(Danio rerio)
Actinopterygii zufsp 34 33
  • 54.83 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP009608 33
  • 44.23 (n)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes mug105 33
  • 46.97 (n)
Species where no ortholog for ZUP1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fruit fly (Drosophila melanogaster)
  • 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 (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for ZUP1 Gene

Gene Tree for ZUP1 (if available)
Gene Tree for ZUP1 (if available)
Evolutionary constrained regions (ECRs) for ZUP1: view image

Paralogs for ZUP1 Gene

No data available for Paralogs for ZUP1 Gene

Variants for ZUP1 Gene

Sequence variations from dbSNP and Humsavar for ZUP1 Gene

SNP ID Clin Chr 06 pos Variation AA Info Type
rs1000004685 -- 116,636,011(-) T/C genic_downstream_transcript_variant, intron_variant
rs1000006489 -- 116,638,972(-) C/A genic_downstream_transcript_variant, intron_variant
rs1000106954 -- 116,643,467(-) A/C genic_downstream_transcript_variant, intron_variant
rs1000138104 -- 116,643,318(-) A/T genic_downstream_transcript_variant, intron_variant
rs1000202045 -- 116,657,930(-) A/G intron_variant

Structural Variations from Database of Genomic Variants (DGV) for ZUP1 Gene

Variant ID Type Subtype PubMed ID
nsv523972 CNV gain 19592680
nsv5448 CNV insertion 18451855
nsv830783 CNV gain 17160897

Variation tolerance for ZUP1 Gene

Residual Variation Intolerance Score: 41% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 7.94; 83.91% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for ZUP1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ZUP1 Gene

Disorders for ZUP1 Gene

Additional Disease Information for ZUP1

No disorders were found for ZUP1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for ZUP1 Gene

Publications for ZUP1 Gene

  1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58
  3. The DNA sequence and analysis of human chromosome 6. (PMID: 14574404) Mungall AJ … Beck S (Nature 2003) 3 4 58
  4. A family of unconventional deubiquitinases with modular chain specificity determinants. (PMID: 29476094) Hermanns T … Hofmann K (Nature communications 2018) 3 58
  5. Discovery and Characterization of ZUFSP/ZUP1, a Distinct Deubiquitinase Class Important for Genome Stability. (PMID: 29576527) Kwasna D … Kulathu Y (Molecular cell 2018) 3 58

Products for ZUP1 Gene

Sources for ZUP1 Gene

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