The protein encoded by this gene contains a caspase-associated recruitment domain and may function in apoptosis. It has been identified as a tumor suppressor in lung and gastric cancers, and a polymorphism in the gene may be associated with gastric cancer risk. Alternative splicing of this gene results in multiple transcript variants. [provided by RefSeq, Dec 2015] See more...

Aliases for MINDY3 Gene

Aliases for MINDY3 Gene

  • MINDY Lysine 48 Deubiquitinase 3 2 3 5
  • Caspase Recruitment Domain Containing Pro-Apoptotic Protein 2 3
  • Ubiquitin Carboxyl-Terminal Hydrolase MINDY-3 3 4
  • Family With Sequence Similarity 188 Member A 2 3
  • Dermal Papilla-Derived Protein 5 3 4
  • Deubiquitinating Enzyme MINDY-3 3 4
  • CARD-Containing Protein 2 3
  • MINDY Deubiquitinase 3 2 3
  • C10orf97 3 4
  • FAM188A 3 4
  • DERP5 3 4
  • CARP 3 4
  • Ubiquitin Carboxyl-Terminal Hydrolase FAM188A 3
  • Chromosome 10 Open Reading Frame 97 2
  • Protein FAM188A 3
  • Protein CARP 4
  • EC 3.4.19.12 4
  • MSTP126 3
  • MST126 3
  • My042 3

External Ids for MINDY3 Gene

Previous HGNC Symbols for MINDY3 Gene

  • C10orf97
  • FAM188A

Summaries for MINDY3 Gene

Entrez Gene Summary for MINDY3 Gene

  • The protein encoded by this gene contains a caspase-associated recruitment domain and may function in apoptosis. It has been identified as a tumor suppressor in lung and gastric cancers, and a polymorphism in the gene may be associated with gastric cancer risk. Alternative splicing of this gene results in multiple transcript variants. [provided by RefSeq, Dec 2015]

GeneCards Summary for MINDY3 Gene

MINDY3 (MINDY Lysine 48 Deubiquitinase 3) is a Protein Coding gene. An important paralog of this gene is MINDY4.

UniProtKB/Swiss-Prot Summary for MINDY3 Gene

  • Hydrolase that can remove 'Lys-48'-linked conjugated ubiquitin from proteins.

Additional gene information for MINDY3 Gene

No data available for CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for MINDY3 Gene

Genomics for MINDY3 Gene

GeneHancer (GH) Regulatory Elements for MINDY3 Gene

Promoters and enhancers for MINDY3 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH10J015858 Promoter/Enhancer 2 EPDnew Ensembl ENCODE CraniofacialAtlas 514.4 +0.8 820 3.4 ZBTB40 ZNF217 ZSCAN5C TCF12 POLR2G GTF2E2 PHF8 ZFX ZIC2 POLR2A MINDY3 lnc-PTER-7 RPP38 piR-52294-012
GH10J016816 Promoter/Enhancer 2 EPDnew Ensembl ENCODE CraniofacialAtlas 9.3 -956.8 -956781 3 ZBTB40 ZNF217 NRF1 POLR2G USF1 SP1 GTF2E2 PHF8 SIX5 ZNF639 RSU1 ENSG00000286958 LOC105376435 MINDY3 ENSG00000275001
GH10J015789 Enhancer 1.1 Ensembl ENCODE dbSUPER 10.2 +69.6 69601 3.4 FOS ZNF639 ZIC2 ZNF423 OSR2 WT1 ZNF184 CEBPG OVOL3 ZNF213 MINDY3 lnc-ITGA8-1 piR-37663-010 lnc-RPP38-6
GH10J015635 Enhancer 0.8 Ensembl 12.7 +224.4 224420 0.6 ZSCAN5C ZNF639 ZNF662 ATF2 ZEB1 ZNF148 OSR2 SALL2 BCL11A ZBTB17 HSPA14 RPP38 MINDY3 SUV39H2 RPP38-DT EF444991 lnc-MINDY3-1 ITGA8
GH10J015879 Enhancer 0.9 Ensembl 10.2 -19.3 -19281 2 EP300 CTCF ZSCAN5C ZNF639 ZIC2 ZNF423 RAD21 TRIM22 ATF2 ZNF341 MINDY3 piR-55194-033 RF01210-044
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around MINDY3 on UCSC Golden Path with GeneCards custom track

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for MINDY3

Genomic Locations for MINDY3 Gene

Genomic Locations for MINDY3 Gene
chr10:15,778,169-15,860,520
(GRCh38/hg38)
Size:
82,352 bases
Orientation:
Minus strand
chr10:15,820,169-15,902,519
(GRCh37/hg19)
Size:
82,351 bases
Orientation:
Minus strand

Genomic View for MINDY3 Gene

Genes around MINDY3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
MINDY3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for MINDY3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for MINDY3 Gene

Proteins for MINDY3 Gene

  • Protein details for MINDY3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9H8M7-MINY3_HUMAN
    Recommended name:
    Ubiquitin carboxyl-terminal hydrolase MINDY-3
    Protein Accession:
    Q9H8M7
    Secondary Accessions:
    • Q5SZ68
    • Q5SZ69
    • Q5SZ70
    • Q6IA40
    • Q6P7P0
    • Q7Z2S1
    • Q8WUF1
    • Q9H3I4

    Protein attributes for MINDY3 Gene

    Size:
    445 amino acids
    Molecular mass:
    49725 Da
    Quaternary structure:
    • Interacts with COPS5.
    SequenceCaution:
    • Sequence=AAG43159.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=AAH61585.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence.; Evidence={ECO:0000305}; Sequence=AAQ13660.1; Type=Frameshift; Evidence={ECO:0000305}; Sequence=EAW86233.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

    Alternative splice isoforms for MINDY3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for MINDY3 Gene

Post-translational modifications for MINDY3 Gene

  • Ubiquitination at Lys71
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for MINDY3 Gene

Domains & Families for MINDY3 Gene

Gene Families for MINDY3 Gene

HGNC:
Human Protein Atlas (HPA):
  • Enzymes
  • Predicted intracellular proteins

Protein Domains for MINDY3 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for MINDY3 Gene

GenScript: Design optimal peptide antigens:
  • Protein CARP (F188A_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q9H8M7

UniProtKB/Swiss-Prot:

MINY3_HUMAN :
  • Belongs to the MINDY deubiquitinase family. FAM188 subfamily.
Family:
  • Belongs to the MINDY deubiquitinase family. FAM188 subfamily.
genes like me logo Genes that share domains with MINDY3: view

Function for MINDY3 Gene

Molecular function for MINDY3 Gene

UniProtKB/Swiss-Prot Function:
Hydrolase that can remove 'Lys-48'-linked conjugated ubiquitin from proteins.
UniProtKB/Swiss-Prot CatalyticActivity:
Reaction=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).; EC=3.4.19.12; Evidence=. ;.

Enzyme Numbers (IUBMB) for MINDY3 Gene

Phenotypes From GWAS Catalog for MINDY3 Gene

Gene Ontology (GO) - Molecular Function for MINDY3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 21499297
GO:0008233 peptidase activity IEA --
GO:0008234 cysteine-type peptidase activity IEA --
GO:0016787 hydrolase activity IEA --
GO:0016807 cysteine-type carboxypeptidase activity IDA 27292798
genes like me logo Genes that share ontologies with MINDY3: view
genes like me logo Genes that share phenotypes with MINDY3: view

miRNA for MINDY3 Gene

miRTarBase miRNAs that target MINDY3

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for MINDY3 Gene

Localization for MINDY3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for MINDY3 Gene

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 MINDY3 gene
Compartment Confidence
nucleus 5
plasma membrane 2
cytosol 2
extracellular 1
cytoskeleton 1
endoplasmic reticulum 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nuclear membrane (3)
  • Nucleoplasm (3)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for MINDY3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005654 nucleoplasm IDA --
GO:0031965 nuclear membrane IDA --
genes like me logo Genes that share ontologies with MINDY3: view

Pathways & Interactions for MINDY3 Gene

PathCards logo

SuperPathways for MINDY3 Gene

No Data Available

Gene Ontology (GO) - Biological Process for MINDY3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006508 proteolysis IEA --
GO:0006915 apoptotic process IEA --
GO:0071108 protein K48-linked deubiquitination IEA --
genes like me logo Genes that share ontologies with MINDY3: view

No data available for Pathways by source and SIGNOR curated interactions for MINDY3 Gene

Drugs & Compounds for MINDY3 Gene

No Compound Related Data Available

Transcripts for MINDY3 Gene

mRNA/cDNA for MINDY3 Gene

2 REFSEQ mRNAs :
11 NCBI additional mRNA sequence :
6 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Alternative Splicing Database (ASD) splice patterns (SP) for MINDY3 Gene

No ASD Table

Relevant External Links for MINDY3 Gene

GeneLoc Exon Structure for
MINDY3

Expression for MINDY3 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for MINDY3

mRNA Expression by UniProt/SwissProt for MINDY3 Gene:

Q9H8M7-MINY3_HUMAN
Tissue specificity: Widely expressed with high levels in heart, skeletal muscle, and kidney, and low levels in liver and brain (PubMed:12054670). Also expressed in lung (at protein level) (PubMed:21499297).

Evidence on tissue expression from TISSUES for MINDY3 Gene

  • Nervous system(4.9)
  • Skin(2)

No data available for mRNA expression in normal human tissues , mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for MINDY3 Gene

Orthologs for MINDY3 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for MINDY3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia FAM188A 31 30
  • 99.7 (n)
OneToOne
dog
(Canis familiaris)
Mammalia FAM188A 31 30
  • 95.34 (n)
OneToOne
cow
(Bos Taurus)
Mammalia FAM188A 31 30
  • 94.61 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Fam188a 31 30
  • 92.72 (n)
OneToOne
Mindy3 17
rat
(Rattus norvegicus)
Mammalia Fam188a 30
  • 92.49 (n)
oppossum
(Monodelphis domestica)
Mammalia -- 31
  • 91 (a)
OneToMany
-- 31
  • 83 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia FAM188A 31
  • 88 (a)
OneToOne
chicken
(Gallus gallus)
Aves FAM188A 31 30
  • 82.13 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia FAM188A 31
  • 85 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia fam188a 30
  • 73.48 (n)
zebrafish
(Danio rerio)
Actinopterygii fam188a 31 30
  • 69.74 (n)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta CG7332 31 30
  • 51.83 (n)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP000412 30
  • 48.05 (n)
thale cress
(Arabidopsis thaliana)
eudicotyledons AT1G43690 30
  • 48.57 (n)
rice
(Oryza sativa)
Liliopsida Os04g0421800 30
  • 50.49 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.2416 31
  • 42 (a)
OneToOne
Species where no ortholog for MINDY3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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)
  • 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)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for MINDY3 Gene

ENSEMBL:
Gene Tree for MINDY3 (if available)
TreeFam:
Gene Tree for MINDY3 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for MINDY3: view image

Paralogs for MINDY3 Gene

Paralogs for MINDY3 Gene

genes like me logo Genes that share paralogs with MINDY3: view

Variants for MINDY3 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for MINDY3 Gene

SNP ID Clinical significance and condition Chr 10 pos Variation AA Info Type
711900 Benign: not provided 15,821,734(-) AAAC/A INTRON_VARIANT
780847 Benign: not provided 15,779,079(-) A/G SYNONYMOUS_VARIANT
780848 Benign: not provided 15,789,328(-) G/GA INTRON_VARIANT
786151 Benign: not provided 15,786,653(-) G/A INTRON_VARIANT

Additional dbSNP identifiers (rs#s) for MINDY3 Gene

Structural Variations from Database of Genomic Variants (DGV) for MINDY3 Gene

Variant ID Type Subtype PubMed ID
nsv1036973 CNV loss 25217958
nsv1045879 CNV gain 25217958
nsv831795 CNV gain 17160897

Variation tolerance for MINDY3 Gene

Residual Variation Intolerance Score: 21.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.86; 34.88% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for MINDY3 Gene

Human Gene Mutation Database (HGMD)
MINDY3
SNPedia medical, phenotypic, and genealogical associations of SNPs for
MINDY3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for MINDY3 Gene

Disorders for MINDY3 Gene

Additional Disease Information for MINDY3

No disorders were found for MINDY3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for MINDY3 Gene

Publications for MINDY3 Gene

  1. MINDY-1 Is a Member of an Evolutionarily Conserved and Structurally Distinct New Family of Deubiquitinating Enzymes. (PMID: 27292798) Abdul Rehman SA … Kulathu Y (Molecular cell 2016) 2 3 4 54
  2. CARP is a novel caspase recruitment domain containing pro-apoptotic protein. (PMID: 12054670) Liu B … Hui R (Biochemical and biophysical research communications 2002) 2 3 4 54
  3. C10ORF97 is a novel tumor-suppressor gene of non-small-cell lung cancer and a functional variant of this gene increases the risk of non-small-cell lung cancer. (PMID: 21499297) Shi Y … Hui R (Oncogene 2011) 3 4 54
  4. Genome-wide mapping of modifier chromosomal loci for human hypertrophic cardiomyopathy. (PMID: 17652099) Daw EW … Marian AJ (Human molecular genetics 2007) 2 3 54
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 54

Products for MINDY3 Gene

Sources for MINDY3 Gene