Aliases for COPS2 Gene

Aliases for COPS2 Gene

  • COP9 Signalosome Subunit 2 2 3 5
  • TRIP15 2 3 4
  • CSN2 2 3 4
  • Thyroid Receptor-Interacting Protein 15 3 4
  • JAB1-Containing Signalosome Subunit 2 3 4
  • COP9 Signalosome Complex Subunit 2 3 4
  • TR-Interacting Protein 15 3 4
  • Signalosome Subunit 2 3 4
  • Alien Homolog 3 4
  • TRIP-15 3 4
  • ALIEN 2 3
  • SGN2 3 4
  • COP9 Constitutive Photomorphogenic Homolog Subunit 2 (Arabidopsis) 2
  • COP9 Constitutive Photomorphogenic Homolog Subunit 2 3
  • COPS2 5

External Ids for COPS2 Gene

Previous GeneCards Identifiers for COPS2 Gene

  • GC00U920616
  • GC15M047207
  • GC15M049417
  • GC15M026249

Summaries for COPS2 Gene

GeneCards Summary for COPS2 Gene

COPS2 (COP9 Signalosome Subunit 2) is a Protein Coding gene. Diseases associated with COPS2 include Xeroderma Pigmentosum, Complementation Group E and Persistent Hyperplastic Primary Vitreous. Among its related pathways are Clathrin-mediated endocytosis and Transcription-Coupled Nucleotide Excision Repair (TC-NER). Gene Ontology (GO) annotations related to this gene include obsolete signal transducer activity and transcription corepressor activity. An important paralog of this gene is PSMD11.

UniProtKB/Swiss-Prot Summary for COPS2 Gene

  • Essential component of the COP9 signalosome complex (CSN), a complex involved in various cellular and developmental processes. The CSN complex is an essential regulator of the ubiquitin (Ubl) conjugation pathway by mediating the deneddylation of the cullin subunits of SCF-type E3 ligase complexes, leading to decrease the Ubl ligase activity of SCF-type complexes such as SCF, CSA or DDB2. The complex is also involved in phosphorylation of p53/TP53, c-jun/JUN, IkappaBalpha/NFKBIA, ITPK1 and IRF8/ICSBP, possibly via its association with CK2 and PKD kinases. CSN-dependent phosphorylation of TP53 and JUN promotes and protects degradation by the Ubl system, respectively. Involved in early stage of neuronal differentiation via its interaction with NIF3L1.

Gene Wiki entry for COPS2 Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for COPS2 Gene

Genomics for COPS2 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for COPS2 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
GH15J049154 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE CraniofacialAtlas 614.8 -0.1 -140 4.4 SP1 CREB1 GATAD2A PRDM10 REST ZNF629 TFE3 RFX1 SIX5 SOX13 COPS2 SECISBP2L GALK2 NDUFAF4P1 lnc-SECISBP2L-3 DTWD1 CEP152 DUT FGF7 FAM227B
GH15J048809 Promoter/Enhancer 2 EPDnew Ensembl ENCODE CraniofacialAtlas 11.4 +344.7 344661 2.4 BRCA1 SP1 HNRNPL CREB1 PRDM10 ZNF629 RFX1 SOX13 POLR2A FOS CEP152 ENSG00000259700 lnc-SHC4-1 COPS2 FBN1
GH15J049195 Enhancer 0.4 FANTOM5 12 -40.3 -40265 0.2 FEZF1 PRDM6 GALK2 COPS2 RF00017-1781 RN7SL307P lnc-COPS2-4 RPL15P19 FGF7
GH15J049121 Enhancer 0.3 Ensembl 11.9 +33.3 33261 2.4 RBM22 GALK2 COPS2 SECISBP2L SHC4 FGF7 FAM227B ENSG00000200120 lnc-SECISBP2L-2
GH15J049115 Enhancer 0.2 Ensembl 11.8 +40.8 40760 0.6 GALK2 COPS2 SECISBP2L SHC4 lnc-SECISBP2L-2 ENSG00000200120
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around COPS2 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for COPS2

Top Transcription factor binding sites by QIAGEN in the COPS2 gene promoter:
  • Evi-1
  • FOXJ2
  • FOXJ2 (long isoform)
  • GATA-1
  • SREBP-1a
  • SREBP-1b
  • SREBP-1c
  • SRF
  • SRF (504 AA)
  • STAT1

Genomic Locations for COPS2 Gene

Genomic Locations for COPS2 Gene
chr15:49,106,068-49,155,661
(GRCh38/hg38)
Size:
49,594 bases
Orientation:
Minus strand
chr15:49,398,268-49,447,858
(GRCh37/hg19)
Size:
49,591 bases
Orientation:
Minus strand

Genomic View for COPS2 Gene

Genes around COPS2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
COPS2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for COPS2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for COPS2 Gene

Proteins for COPS2 Gene

  • Protein details for COPS2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P61201-CSN2_HUMAN
    Recommended name:
    COP9 signalosome complex subunit 2
    Protein Accession:
    P61201
    Secondary Accessions:
    • O88950
    • Q15647
    • Q6FGP4
    • Q9BY54
    • Q9R249
    • Q9UNI2
    • Q9UNQ5

    Protein attributes for COPS2 Gene

    Size:
    443 amino acids
    Molecular mass:
    51597 Da
    Quaternary structure:
    • Component of the CSN complex, composed of COPS1/GPS1, COPS2, COPS3, COPS4, COPS5, COPS6, COPS7 (COPS7A or COPS7B), COPS8 and COPS9 isoform 1 (PubMed:11337588, PubMed:18850735, PubMed:26456823). In the complex, it probably interacts directly with COPS1, COPS4, COPS5, COPS6 and COPS7 (COPS7A or COPS7B) (PubMed:11337588, PubMed:18850735). Specifically interacts with the ligand binding domain of the thyroid receptor (TR). Does not require the presence of thyroid hormone for its interaction (By similarity). Interacts with CUL1 and CUL2 (PubMed:11337588). Interacts with IRF8/ICSBP1 and with nuclear receptors NR2F1 and NR0B1 (PubMed:10207062, PubMed:10713076, PubMed:10991940). Interacts with NIF3L1 (By similarity).
    SequenceCaution:
    • Sequence=AAD30269.1; Type=Frameshift; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for COPS2 Gene

    Alternative splice isoforms for COPS2 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for COPS2 Gene

Post-translational modifications for COPS2 Gene

  • Phosphorylated by CK2 and PKD kinases.
  • Glycosylation at Asn333
  • Ubiquitination at Lys331, Lys415, Lys426, and Lys441
  • Modification sites at PhosphoSitePlus
  • Glycosylation from GlyConnect

Other Protein References for COPS2 Gene

No data available for DME Specific Peptides for COPS2 Gene

Domains & Families for COPS2 Gene

Gene Families for COPS2 Gene

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

Protein Domains for COPS2 Gene

Suggested Antigen Peptide Sequences for COPS2 Gene

GenScript: Design optimal peptide antigens:
  • cDNA FLJ52928, highly similar to COP9 signalosome complex subunit 2 (B4DIH5_HUMAN)
  • Thyroid receptor-interacting protein 15 (CSN2_HUMAN)

Graphical View of Domain Structure for InterPro Entry

P61201

UniProtKB/Swiss-Prot:

CSN2_HUMAN :
  • Belongs to the CSN2 family.
Family:
  • Belongs to the CSN2 family.
genes like me logo Genes that share domains with COPS2: view

Function for COPS2 Gene

Molecular function for COPS2 Gene

UniProtKB/Swiss-Prot Function:
Essential component of the COP9 signalosome complex (CSN), a complex involved in various cellular and developmental processes. The CSN complex is an essential regulator of the ubiquitin (Ubl) conjugation pathway by mediating the deneddylation of the cullin subunits of SCF-type E3 ligase complexes, leading to decrease the Ubl ligase activity of SCF-type complexes such as SCF, CSA or DDB2. The complex is also involved in phosphorylation of p53/TP53, c-jun/JUN, IkappaBalpha/NFKBIA, ITPK1 and IRF8/ICSBP, possibly via its association with CK2 and PKD kinases. CSN-dependent phosphorylation of TP53 and JUN promotes and protects degradation by the Ubl system, respectively. Involved in early stage of neuronal differentiation via its interaction with NIF3L1.

Phenotypes From GWAS Catalog for COPS2 Gene

Gene Ontology (GO) - Molecular Function for COPS2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003714 transcription corepressor activity IEA,IBA 21873635
GO:0005515 protein binding IEA,IPI 17438371
genes like me logo Genes that share ontologies with COPS2: view
genes like me logo Genes that share phenotypes with COPS2: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for COPS2

Clone Products

  • Addgene plasmids for COPS2

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for COPS2 Gene

Localization for COPS2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for COPS2 Gene

Cytoplasm. Nucleus.

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 COPS2 gene
Compartment Confidence
nucleus 5
cytosol 4
plasma membrane 1
extracellular 1
cytoskeleton 1
mitochondrion 1
peroxisome 1
endoplasmic reticulum 1
golgi apparatus 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytokinetic bridge (3)
  • Vesicles (3)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for COPS2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005654 nucleoplasm TAS --
GO:0005737 cytoplasm IEA,IDA 9535219
GO:0005829 cytosol TAS --
GO:0008180 COP9 signalosome IEA,IDA 9535219
genes like me logo Genes that share ontologies with COPS2: view

Pathways & Interactions for COPS2 Gene

genes like me logo Genes that share pathways with COPS2: view

Gene Ontology (GO) - Biological Process for COPS2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000122 negative regulation of transcription by RNA polymerase II IEA --
GO:0000338 protein deneddylation IDA 19141280
GO:0000715 nucleotide-excision repair, DNA damage recognition TAS --
GO:0001833 inner cell mass cell proliferation IEA --
GO:0006283 transcription-coupled nucleotide-excision repair TAS --
genes like me logo Genes that share ontologies with COPS2: view

No data available for SIGNOR curated interactions for COPS2 Gene

Drugs & Compounds for COPS2 Gene

(1) Additional Compounds for COPS2 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with COPS2: view

Transcripts for COPS2 Gene

mRNA/cDNA for COPS2 Gene

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

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for COPS2

Clone Products

  • Addgene plasmids for COPS2

Alternative Splicing Database (ASD) splice patterns (SP) for COPS2 Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3 ^ 4a · 4b ^ 5a · 5b ^ 6 ^ 7a · 7b ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13a · 13b
SP1: - - -
SP2: - -
SP3:
SP4:

Relevant External Links for COPS2 Gene

GeneLoc Exon Structure for
COPS2

Expression for COPS2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for COPS2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for COPS2 Gene

This gene is overexpressed in Skin (6.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for COPS2 Gene



Protein tissue co-expression partners for COPS2 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for COPS2

SOURCE GeneReport for Unigene cluster for COPS2 Gene:

Hs.369614

Evidence on tissue expression from TISSUES for COPS2 Gene

  • Nervous system(4.9)
  • Muscle(4.4)
  • Liver(4.3)
  • Thyroid gland(2.3)
  • Skin(2.2)
  • Heart(2.2)
  • Kidney(2.1)
  • Intestine(2)
genes like me logo Genes that share expression patterns with COPS2: view

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 COPS2 Gene

Orthologs for COPS2 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for COPS2 Gene

Organism Taxonomy Gene Similarity Type Details
Cow
(Bos Taurus)
Mammalia COPS2 31
  • 100 (a)
OneToOne
LOC613584 30
  • 97.63 (n)
Oppossum
(Monodelphis domestica)
Mammalia COPS2 31
  • 100 (a)
OneToOne
Dog
(Canis familiaris)
Mammalia COPS2 31
  • 100 (a)
OneToOne
Mouse
(Mus musculus)
Mammalia Cops2 31
  • 100 (a)
OneToOne
Chimpanzee
(Pan troglodytes)
Mammalia COPS2 30 31
  • 99.93 (n)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia COPS2 31
  • 99 (a)
OneToOne
Chicken
(Gallus gallus)
Aves COPS2 31
  • 100 (a)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia COPS2 31
  • 84 (a)
OneToOne
Zebrafish
(Danio rerio)
Actinopterygii cops2 31
  • 99 (a)
OneToOne
Rainbow Trout
(Oncorhynchus mykiss)
Actinopterygii Omy.4917 30
Fruit Fly
(Drosophila melanogaster)
Insecta alien 31
  • 83 (a)
OneToOne
Worm
(Caenorhabditis elegans)
Secernentea csn-2 31
  • 56 (a)
OneToOne
Baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes RPN6 31
  • 19 (a)
OneToMany
Alicante grape
(Vitis vinifera)
eudicotyledons Vvi.1993 30
Soybean
(Glycine max)
eudicotyledons Gma.10229 30
Barley
(Hordeum vulgare)
Liliopsida Hv.750 30
Rice
(Oryza sativa)
Liliopsida Os.25964 30
Wheat
(Triticum aestivum)
Liliopsida Ta.6931 30
Sea Squirt
(Ciona savignyi)
Ascidiacea CSA.2309 31
  • 80 (a)
OneToMany
-- 31
  • 60 (a)
OneToMany
Fission Yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes csn2 30
  • 58.01 (n)
Bread mold
(Neurospora crassa)
Ascomycetes NCU00593 30
  • 55.45 (n)
Sea Vase
(Ciona intestinalis)
Ascidiacea Cin.4854 30
Species where no ortholog for COPS2 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • 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)
  • Rat (Rattus norvegicus)
  • 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)

Evolution for COPS2 Gene

ENSEMBL:
Gene Tree for COPS2 (if available)
TreeFam:
Gene Tree for COPS2 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for COPS2: view image

Paralogs for COPS2 Gene

Paralogs for COPS2 Gene

Pseudogenes.org Pseudogenes for COPS2 Gene

genes like me logo Genes that share paralogs with COPS2: view

Variants for COPS2 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for COPS2 Gene

SNP ID Clinical significance and condition Chr 15 pos Variation AA Info Type
756075 Likely Benign: not provided 49,128,693(-) A/G INTRON_VARIANT
761853 Likely Benign: not provided 49,144,992(-) T/A SYNONYMOUS_VARIANT
788586 Benign: not provided 49,133,803(-) C/T SYNONYMOUS_VARIANT

Additional dbSNP identifiers (rs#s) for COPS2 Gene

Structural Variations from Database of Genomic Variants (DGV) for COPS2 Gene

Variant ID Type Subtype PubMed ID
nsv827332 CNV loss 20364138

Variation tolerance for COPS2 Gene

Residual Variation Intolerance Score: 30.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.09; 2.05% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for COPS2 Gene

Human Gene Mutation Database (HGMD)
COPS2
SNPedia medical, phenotypic, and genealogical associations of SNPs for
COPS2

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for COPS2 Gene

Disorders for COPS2 Gene

MalaCards: The human disease database

(2) MalaCards diseases for COPS2 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
xeroderma pigmentosum, complementation group e
  • xpe
persistent hyperplastic primary vitreous
  • congenital retinal detachment
- elite association - COSMIC cancer census association via MalaCards
Search COPS2 in MalaCards View complete list of genes associated with diseases
genes like me logo Genes that share disorders with COPS2: view

No data available for UniProtKB/Swiss-Prot and Genatlas for COPS2 Gene

Publications for COPS2 Gene

  1. A novel protein complex involved in signal transduction possessing similarities to 26S proteasome subunits. (PMID: 9535219) Seeger M … Dubiel W (FASEB journal : official publication of the Federation of American Societies for Experimental Biology 1998) 2 3 4 23
  2. Protein kinase CK2 and protein kinase D are associated with the COP9 signalosome. (PMID: 12628923) Uhle S … Dubiel W (The EMBO journal 2003) 3 4 23
  3. Interaction of the corepressor Alien with DAX-1 is abrogated by mutations of DAX-1 involved in adrenal hypoplasia congenita. (PMID: 10713076) Altincicek B … Baniahmad A (The Journal of biological chemistry 2000) 3 4 23
  4. Two classes of proteins dependent on either the presence or absence of thyroid hormone for interaction with the thyroid hormone receptor. (PMID: 7776974) Lee JW … Moore DD (Molecular endocrinology (Baltimore, Md.) 1995) 2 3 4
  5. CSNAP Is a Stoichiometric Subunit of the COP9 Signalosome. (PMID: 26456823) Rozen S … Sharon M (Cell reports 2015) 3 4

Products for COPS2 Gene

  • Boster Bio Antibodies for COPS2
  • Boster Bio ELISA Kits for COPS2

Sources for COPS2 Gene