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Aliases for MINDY1 Gene

Aliases for MINDY1 Gene

  • MINDY Lysine 48 Deubiquitinase 1 2 3 5
  • Motif Interacting With Ub-Containing Novel DUB 2 3
  • Family With Sequence Similarity 63 Member A 2 3
  • MIU-Containing Novel DUB Family Member 1 2 3
  • Deubiquitinating Enzyme MINDY-1 3 4
  • MINDY Deubiquitinase 1 2 3
  • Protein FAM63A 3 4
  • FAM63A 3 4
  • Ubiquitin Carboxyl-Terminal Hydrolase MINDY-1 3
  • Family With Sequence Similarity 63, Member A 2
  • EC 3.4.19.12 4
  • KIAA1390 4
  • MINDY-1 3

External Ids for MINDY1 Gene

Previous HGNC Symbols for MINDY1 Gene

  • FAM63A

Summaries for MINDY1 Gene

GeneCards Summary for MINDY1 Gene

MINDY1 (MINDY Lysine 48 Deubiquitinase 1) is a Protein Coding gene. An important paralog of this gene is MINDY2.

UniProtKB/Swiss-Prot for MINDY1 Gene

  • Hydrolase that can specifically remove Lys-48-linked conjugated ubiquitin from proteins. Has exodeubiquitinase activity and has a preference for long polyubiquitin chains. May play a regulatory role at the level of protein turnover.

Additional gene information for MINDY1 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for MINDY1 Gene

Genomics for MINDY1 Gene

GeneHancer (GH) Regulatory Elements for MINDY1 Gene

Promoters and enhancers for MINDY1 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
GH01J151004 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 650.7 +0.9 933 5.2 CLOCK ZFP64 YBX1 YY1 ZNF213 E2F8 ZNF143 SP3 ZNF610 GLIS1 PRUNE1 CERS2 MINDY1 SETDB1 PIP5K1A PI4KB PRPF3 ARNT MRPL9 UBE2D3P3
GH01J150925 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 10.6 +82.1 82141 2.5 HDGF PKNOX1 CLOCK SMAD1 MLX ARNT ARID4B NEUROD1 SIN3A DMAP1 SETDB1 PRPF3 HORMAD1 PI4KB CTSK SF3B4 GABPB2 UBE2D3P3 ARNT ZNF687
GH01J151308 Enhancer 1.7 FANTOM5 Ensembl ENCODE dbSUPER 10.9 -303.6 -303558 6.1 PKNOX1 SMAD1 FOXA2 ARNT ARID4B NEUROD1 SIN3A YY1 ZNF766 E2F8 PIP5K1A PRPF3 GABPB2 PI4KB MRPL9 ZNF687 RFX5 LOC100507670 SETDB1 POGZ
GH01J150969 Promoter/Enhancer 2.7 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 5.2 +33.4 33421 10.6 CLOCK MLX ZFP64 DMAP1 YY1 E2F8 ZNF143 SP3 SSRP1 GLIS1 CERS2 ENSG00000231073 PRPF3 SETDB1 ZNF687 HORMAD1 PIP5K1A ARNT GOLPH3L PI4KB
GH01J150484 Enhancer 0.9 Ensembl ENCODE 9.4 +523.5 523495 0.8 GTF2F1 CTCF RAD21 E2F1 FOSL1 CC2D1A NCOR1 BRD9 ARID2 VEZF1 ECM1 ADAMTSL4 LOC100289061 ADAMTSL4-AS1 PRPF3 APH1A C1orf54 CA14 UBE2D3P3 CTSK
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around MINDY1 on UCSC Golden Path with GeneCards custom track

Genomic Locations for MINDY1 Gene

Genomic Locations for MINDY1 Gene
chr1:150,996,086-151,008,378
(GRCh38/hg38)
Size:
12,293 bases
Orientation:
Minus strand
chr1:150,969,025-150,980,854
(GRCh37/hg19)
Size:
11,830 bases
Orientation:
Minus strand

Genomic View for MINDY1 Gene

Genes around MINDY1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
MINDY1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for MINDY1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for MINDY1 Gene

Proteins for MINDY1 Gene

  • Protein details for MINDY1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8N5J2-MINY1_HUMAN
    Recommended name:
    Ubiquitin carboxyl-terminal hydrolase MINDY-1
    Protein Accession:
    Q8N5J2
    Secondary Accessions:
    • B3KWP4
    • B3KWV8
    • B4DXF2
    • B4E1S4
    • D3DV09
    • J3KP53
    • Q5SZF0
    • Q9NUL9
    • Q9P2F7

    Protein attributes for MINDY1 Gene

    Size:
    469 amino acids
    Molecular mass:
    51778 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAA92628.1; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for MINDY1 Gene

    Alternative splice isoforms for MINDY1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for MINDY1 Gene

Post-translational modifications for MINDY1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Antibody Products

  • Abcam antibodies for MINDY1
  • Boster Bio Antibodies for MINDY1

No data available for DME Specific Peptides for MINDY1 Gene

Domains & Families for MINDY1 Gene

Gene Families for MINDY1 Gene

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

Protein Domains for MINDY1 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for MINDY1 Gene

Graphical View of Domain Structure for InterPro Entry

Q8N5J2

UniProtKB/Swiss-Prot:

MINY1_HUMAN :
  • Belongs to the peptidase MINDY family. FAM63 subfamily.
Family:
  • Belongs to the peptidase MINDY family. FAM63 subfamily.
genes like me logo Genes that share domains with MINDY1: view

Function for MINDY1 Gene

Molecular function for MINDY1 Gene

UniProtKB/Swiss-Prot Function:
Hydrolase that can specifically remove Lys-48-linked conjugated ubiquitin from proteins. Has exodeubiquitinase activity and has a preference for long polyubiquitin chains. May play a regulatory role at the level of protein turnover.
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).

Enzyme Numbers (IUBMB) for MINDY1 Gene

Phenotypes From GWAS Catalog for MINDY1 Gene

Gene Ontology (GO) - Molecular Function for MINDY1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004843 thiol-dependent ubiquitin-specific protease activity IEA --
GO:0005515 protein binding IPI 25416956
GO:0008233 peptidase activity IEA --
GO:0008234 cysteine-type peptidase activity IEA --
GO:0016787 hydrolase activity IEA --
genes like me logo Genes that share ontologies with MINDY1: view
genes like me logo Genes that share phenotypes with MINDY1: view

Animal Models for MINDY1 Gene

MGI Knock Outs for MINDY1:
  • Mindy1 Mindy1<tm1b(EUCOMM)Wtsi>
  • Mindy1 Mindy1<tm1a(EUCOMM)Wtsi>

Animal Model Products

Clone Products

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for MINDY1 Gene

Localization for MINDY1 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 MINDY1 gene
Compartment Confidence
extracellular 5
nucleus 2
peroxisome 1
cytosol 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for MINDY1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA --
GO:0005654 nucleoplasm IDA --
GO:0005829 cytosol IBA --
GO:0016604 nuclear body IDA --
GO:0070062 extracellular exosome HDA --
genes like me logo Genes that share ontologies with MINDY1: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for MINDY1 Gene

Pathways & Interactions for MINDY1 Gene

SuperPathways for MINDY1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for MINDY1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006508 proteolysis IEA --
GO:0008150 biological_process ND --
GO:0071108 protein K48-linked deubiquitination IEA --
genes like me logo Genes that share ontologies with MINDY1: view

No data available for Pathways by source and SIGNOR curated interactions for MINDY1 Gene

Drugs & Compounds for MINDY1 Gene

No Compound Related Data Available

Transcripts for MINDY1 Gene

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for MINDY1 Gene

No ASD Table

Relevant External Links for MINDY1 Gene

GeneLoc Exon Structure for
MINDY1
ECgene alternative splicing isoforms for
MINDY1

Expression for MINDY1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

NURSA nuclear receptor signaling pathways regulating expression of MINDY1 Gene:

MINDY1

Evidence on tissue expression from TISSUES for MINDY1 Gene

  • Nervous system(4.8)
  • Liver(4.1)
genes like me logo Genes that share expression patterns with MINDY1: 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 MINDY1 Gene

Orthologs for MINDY1 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for MINDY1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia FAM63A 34 33
  • 99.42 (n)
OneToOne
dog
(Canis familiaris)
Mammalia FAM63A 34 33
  • 87.73 (n)
OneToOne
cow
(Bos Taurus)
Mammalia FAM63A 34 33
  • 85.65 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Fam63a 34 33
  • 84.01 (n)
OneToOne
Mindy1 16
rat
(Rattus norvegicus)
Mammalia Fam63a 33
  • 83.65 (n)
oppossum
(Monodelphis domestica)
Mammalia FAM63A 34
  • 76 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 42 (a)
ManyToMany
chicken
(Gallus gallus)
Aves LOC100857795 33
  • 73.25 (n)
FAM63A 34
  • 65 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia FAM63A 34
  • 47 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia fam63a 33
  • 69.21 (n)
zebrafish
(Danio rerio)
Actinopterygii fam63a 34 33
  • 66.07 (n)
OneToOne
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.877 33
worm
(Caenorhabditis elegans)
Secernentea Y55F3AM.9 34
  • 31 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes -- 34
  • 25 (a)
ManyToMany
-- 34
  • 22 (a)
ManyToMany
-- 36
rice
(Oryza sativa)
Liliopsida Os.20605 33
sea squirt
(Ciona savignyi)
Ascidiacea CSA.1538 34
  • 49 (a)
OneToMany
Species where no ortholog for MINDY1 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)
  • 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)
  • 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)
  • 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)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for MINDY1 Gene

ENSEMBL:
Gene Tree for MINDY1 (if available)
TreeFam:
Gene Tree for MINDY1 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for MINDY1: view image

Paralogs for MINDY1 Gene

Paralogs for MINDY1 Gene

genes like me logo Genes that share paralogs with MINDY1: view

Variants for MINDY1 Gene

Sequence variations from dbSNP and Humsavar for MINDY1 Gene

SNP ID Clin Chr 01 pos Variation AA Info Type
rs1000195456 -- 150,998,226(-) C/T coding_sequence_variant, synonymous_variant
rs1000283227 -- 151,005,157(-) G/C intron_variant
rs1000397284 -- 151,001,521(-) T/C intron_variant
rs1000499435 -- 150,996,792(-) C/T 3_prime_UTR_variant, downstream_transcript_variant, genic_downstream_transcript_variant
rs1001007281 -- 151,003,622(-) C/A/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for MINDY1 Gene

Variant ID Type Subtype PubMed ID
nsv1008496 CNV gain 25217958
nsv522317 CNV loss 19592680
nsv522840 CNV gain 19592680

Variation tolerance for MINDY1 Gene

Residual Variation Intolerance Score: 72.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.68; 57.15% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for MINDY1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
MINDY1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for MINDY1 Gene

Disorders for MINDY1 Gene

No disorders were found for MINDY1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for MINDY1 Gene

Publications for MINDY1 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 58
  2. Prediction of the coding sequences of unidentified human genes. XVI. The complete sequences of 150 new cDNA clones from brain which code for large proteins in vitro. (PMID: 10718198) Nagase T … Ohara O (DNA research : an international journal for rapid publication of reports on genes and genomes 2000) 2 3 4 58
  3. A single MIU motif of MINDY-1 recognizes K48-linked polyubiquitin chains. (PMID: 28082312) Kristariyanto YA … Kulathu Y (EMBO reports 2017) 3 4 58
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  5. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58

Products for MINDY1 Gene

Sources for MINDY1 Gene

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