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Aliases for COPS6 Gene

Aliases for COPS6 Gene

  • COP9 Signalosome Subunit 6 2 3 5
  • JAB1-Containing Signalosome Subunit 6 3 4
  • Vpr-Interacting Protein 3 4
  • CSN6 3 4
  • SGN6 3 4
  • HVIP 3 4
  • COP9 Constitutive Photomorphogenic Homolog Subunit 6 (Arabidopsis) 2
  • COP9 Constitutive Photomorphogenic Homolog Subunit 6 3
  • COP9 Subunit 6 (MOV34 Homolog, 34 KD) 2
  • COP9 Signalosome Complex Subunit 6 3
  • Signalosome Subunit 6 4
  • MOV34 Homolog, 34 KD 3
  • H_NH0506M12.12 3
  • MOV34 Homolog 4
  • MOV34-34KD 3

External Ids for COPS6 Gene

Previous GeneCards Identifiers for COPS6 Gene

  • GC07P098221
  • GC07P099284
  • GC07P099298
  • GC07P099297
  • GC07P099331
  • GC07P099524
  • GC07P099686
  • GC07P094322

Summaries for COPS6 Gene

Entrez Gene Summary for COPS6 Gene

  • The protein encoded by this gene is one of the eight subunits of COP9 signalosome, a highly conserved protein complex that functions as an important regulator in multiple signaling pathways. The structure and function of COP9 signalosome is similar to that of the 19S regulatory particle of 26S proteasome. COP9 signalosome has been shown to interact with SCF-type E3 ubiquitin ligases and act as a positive regulator of E3 ubiquitin ligases. This protein belongs to translation initiation factor 3 (eIF3) superfamily. It is involved in the regulation of cell cycle and likely to be a cellular cofactor for HIV-1 accessory gene product Vpr. [provided by RefSeq, Jul 2008]

GeneCards Summary for COPS6 Gene

COPS6 (COP9 Signalosome Subunit 6) is a Protein Coding gene. Diseases associated with COPS6 include Hiv-1. Among its related pathways are Vesicle-mediated transport and Transcription-Coupled Nucleotide Excision Repair (TC-NER). An important paralog of this gene is EIF3F.

UniProtKB/Swiss-Prot for COPS6 Gene

  • 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, 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. Has some glucocorticoid receptor-responsive activity. Stabilizes RFWD2/COP1 through reducing RFWD2 auto-ubiquitination and decelerating RFWD2 turnover rate, hence regulates the ubiquitination of RFWD2 targets.

Gene Wiki entry for COPS6 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for COPS6 Gene

Genomics for COPS6 Gene

Regulatory Elements for COPS6 Gene

Enhancers for COPS6 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
GH07F100061 0.4 ENCODE 11.9 -27.1 -27126 0.8 BCOR PKNOX1 CBX3 ARNT TAL1 POLR2A GATA2 NCOR1 NR2F6 ZNF600 COPS6 MIR106B MIR25 MIR93 MCM7 ZKSCAN1 TRIM4 GC07M100077 PIR44616 PIR43713
GH07F100019 0.6 ENCODE 11.9 -69.3 -69302 1.3 HDGF PKNOX1 ARNT CREB3L1 ZFP64 ARID4B SIN3A DMAP1 ZNF2 YY1 MBLAC1 LOC100131859 MIR6875 EPHB4 PCOLCE COPS6 ZSCAN21 PVRIG CNPY4 ZKSCAN5
GH07F100263 0.4 ENCODE 11.8 +176.0 176041 2.2 PKNOX1 INSM2 KLF17 FEZF1 ZNF2 ZNF121 GLIS2 ZNF366 SCRT2 KLF7 PILRA PVRIG LOC100131859 COPS6 STAG3 GPC2 GAL3ST4 C7orf43 MIR4658 LAMTOR4
GH07F099994 0.4 Ensembl 11.8 -94.5 -94471 0.6 CTCF ATF1 SAP130 MAX ZNF384 ZNF2 RAD21 ZNF324 ZNF664 ZNF143 LOC100131859 ZSCAN21 COPS6 TRIM4 GJC3 ENSG00000237640 CNPY4 MBLAC1 ZKSCAN5 FAM200A
GH07F099839 0.6 ENCODE 11.7 -248.3 -248309 2.4 HDGF PKNOX1 MLX ARNT CREB3L1 ARID4B SIN3A DMAP1 YY1 ZNF766 ZSCAN25 LOC100419643 SMURF1 PCOLCE LOC100131859 TRRAP EPHB4 AP4M1 MBLAC1 PPP1R35
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around COPS6 on UCSC Golden Path with GeneCards custom track

Promoters for COPS6 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001562291 46 1201 HDGF PKNOX1 ARNT CREB3L1 ZFP64 ARID4B SIN3A DMAP1 YY1 ZNF207

Genomic Location for COPS6 Gene

Chromosome:
7
Start:
100,088,954 bp from pter
End:
100,092,200 bp from pter
Size:
3,247 bases
Orientation:
Plus strand

Genomic View for COPS6 Gene

Genes around COPS6 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
COPS6 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for COPS6 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for COPS6 Gene

Proteins for COPS6 Gene

  • Protein details for COPS6 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q7L5N1-CSN6_HUMAN
    Recommended name:
    COP9 signalosome complex subunit 6
    Protein Accession:
    Q7L5N1
    Secondary Accessions:
    • A4D2A3
    • O15387

    Protein attributes for COPS6 Gene

    Size:
    327 amino acids
    Molecular mass:
    36163 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:18850735, PubMed:26456823). In the complex, it probably interacts directly with COPS2, COPS4, COPS5, COPS7 (COPS7A or COPS7B) and COPS9 isoform 1 (PubMed:11337588, PubMed:26456823). Interacts with the translation initiation factor EIF3S6 (PubMed:12220626). Interacts weakly with RBX1 (PubMed:11337588). Directly interacts with RFWD2 and 14-3-3 protein sigma/SFN (PubMed:21625211).
    • (Microbial infection) Interacts with the HIV-1 protein Vpr.
    SequenceCaution:
    • Sequence=AAD03469.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for COPS6 Gene

neXtProt entry for COPS6 Gene

Post-translational modifications for COPS6 Gene

  • Ubiquitination at Lys 75, Lys 102, Lys 117, Lys 153, Lys 229, Lys 236, Lys 243, and Lys 308
  • Modification sites at PhosphoSitePlus

Other Protein References for COPS6 Gene

No data available for DME Specific Peptides for COPS6 Gene

Domains & Families for COPS6 Gene

Gene Families for COPS6 Gene

Protein Domains for COPS6 Gene

Suggested Antigen Peptide Sequences for COPS6 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q7L5N1

UniProtKB/Swiss-Prot:

CSN6_HUMAN :
  • Contains 1 MPN (JAB/Mov34) domain.
  • Belongs to the peptidase M67A family. CSN6 subfamily.
Domain:
  • Contains 1 MPN (JAB/Mov34) domain.
Family:
  • Belongs to the peptidase M67A family. CSN6 subfamily.
genes like me logo Genes that share domains with COPS6: view

Function for COPS6 Gene

Molecular function for COPS6 Gene

UniProtKB/Swiss-Prot Function:
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, 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. Has some glucocorticoid receptor-responsive activity. Stabilizes RFWD2/COP1 through reducing RFWD2 auto-ubiquitination and decelerating RFWD2 turnover rate, hence regulates the ubiquitination of RFWD2 targets.

Gene Ontology (GO) - Molecular Function for COPS6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 16169070
genes like me logo Genes that share ontologies with COPS6: view
genes like me logo Genes that share phenotypes with COPS6: view

Animal Model Products

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for COPS6

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for COPS6 Gene

Localization for COPS6 Gene

Subcellular locations from UniProtKB/Swiss-Prot for COPS6 Gene

Nucleus. Cytoplasm. Note=The interaction with HIV-1 Vpr protein possibly leads its translocation to a perinuclear region.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for COPS6 Gene COMPARTMENTS Subcellular localization image for COPS6 gene
Compartment Confidence
extracellular 5
nucleus 5
cytoskeleton 3
cytosol 1
lysosome 1
mitochondrion 1
plasma membrane 1
vacuole 1

Gene Ontology (GO) - Cellular Components for COPS6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005654 nucleoplasm IDA,TAS --
GO:0005737 cytoplasm IEA --
GO:0008180 COP9 signalosome IEA,IDA 18850735
GO:0070062 extracellular exosome IDA 23376485
genes like me logo Genes that share ontologies with COPS6: view

Pathways & Interactions for COPS6 Gene

genes like me logo Genes that share pathways with COPS6: view

SIGNOR curated interactions for COPS6 Gene

Is activated by:

Gene Ontology (GO) - Biological Process for COPS6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000715 nucleotide-excision repair, DNA damage recognition TAS --
GO:0006283 transcription-coupled nucleotide-excision repair TAS --
GO:0010388 cullin deneddylation IDA 19141280
GO:0016032 viral process IEA --
genes like me logo Genes that share ontologies with COPS6: view

Transcripts for COPS6 Gene

Unigene Clusters for COPS6 Gene

COP9 signalosome subunit 6:
Representative Sequences:

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for COPS6

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for COPS6 Gene

ExUns: 1a · 1b ^ 2 ^ 3a · 3b ^ 4a · 4b · 4c ^ 5a · 5b ^ 6 ^ 7a · 7b ^ 8a · 8b ^ 9a · 9b ^ 10
SP1: - - -
SP2: - - -
SP3: - - - -
SP4: - - - - - - -
SP5: - -
SP6: - - - - -
SP7: -
SP8:
SP9:

Relevant External Links for COPS6 Gene

GeneLoc Exon Structure for
COPS6
ECgene alternative splicing isoforms for
COPS6

Expression for COPS6 Gene

mRNA expression in normal human tissues for COPS6 Gene

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for COPS6 Gene



Protein tissue co-expression partners for COPS6 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of COPS6 Gene:

COPS6

SOURCE GeneReport for Unigene cluster for COPS6 Gene:

Hs.15591

mRNA Expression by UniProt/SwissProt for COPS6 Gene:

Q7L5N1-CSN6_HUMAN
Tissue specificity: Widely expressed.
genes like me logo Genes that share expression patterns with COPS6: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and Protein differential expression in normal tissues for COPS6 Gene

Orthologs for COPS6 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for COPS6 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia COPS6 34 35
  • 99.29 (n)
oppossum
(Monodelphis domestica)
Mammalia -- 35
  • 96 (a)
OneToMany
-- 35
  • 96 (a)
OneToMany
cow
(Bos Taurus)
Mammalia COPS6 34 35
  • 93.6 (n)
mouse
(Mus musculus)
Mammalia Cops6 34 16 35
  • 93.44 (n)
rat
(Rattus norvegicus)
Mammalia Cops6 34
  • 92.72 (n)
dog
(Canis familiaris)
Mammalia COPS6 34 35
  • 92.68 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia -- 35
  • 23 (a)
ManyToMany
lizard
(Anolis carolinensis)
Reptilia -- 35
  • 98 (a)
OneToMany
-- 35
  • 74 (a)
OneToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia cops6 34
  • 79.57 (n)
Str.1495 34
African clawed frog
(Xenopus laevis)
Amphibia Xl.24180 34
zebrafish
(Danio rerio)
Actinopterygii cops6 34
  • 81.26 (n)
COPS6 35
  • 66 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta CSN6 34 35
  • 63.51 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP008156 34
  • 62.92 (n)
worm
(Caenorhabditis elegans)
Secernentea csn-6 34 35
  • 48.24 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes RPN8 35
  • 20 (a)
OneToMany
thale cress
(Arabidopsis thaliana)
eudicotyledons CSN6A 34
  • 51.59 (n)
rice
(Oryza sativa)
Liliopsida Os08g0500000 34
  • 52.53 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.2251 35
  • 59 (a)
OneToOne
bread mold
(Neurospora crassa)
Ascomycetes NCU07019 34
  • 50.43 (n)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.8166 34
Species where no ortholog for COPS6 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)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • chicken (Gallus gallus)
  • 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)

Evolution for COPS6 Gene

ENSEMBL:
Gene Tree for COPS6 (if available)
TreeFam:
Gene Tree for COPS6 (if available)

Paralogs for COPS6 Gene

Paralogs for COPS6 Gene

genes like me logo Genes that share paralogs with COPS6: view

Variants for COPS6 Gene

Sequence variations from dbSNP and Humsavar for COPS6 Gene

SNP ID Clin Chr 07 pos Sequence Context AA Info Type
rs193921011 Uncertain significance 100,091,134(+) CAGGC(A/C/T)GTGGA reference, missense
rs10277108 -- 100,090,521(+) GGGCA(A/G)AGAAT intron-variant
rs111371930 -- 100,090,398(+) CTCTA(C/G/T)TTAAA splice-acceptor-variant
rs111776458 -- 100,092,646(+) TGTCT(A/C)TACTG downstream-variant-500B
rs112097083 -- 100,089,287(+) ACCCT(A/C/T)AGTAG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for COPS6 Gene

Variant ID Type Subtype PubMed ID
esv2734888 CNV deletion 23290073
nsv469687 CNV loss 16826518
nsv510966 OTHER complex 20534489
nsv607931 CNV loss 21841781

Variation tolerance for COPS6 Gene

Residual Variation Intolerance Score: 22.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.93; 19.18% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for COPS6 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
COPS6

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for COPS6 Gene

Disorders for COPS6 Gene

MalaCards: The human disease database

(1) MalaCards diseases for COPS6 Gene - From: GeneCards

Disorder Aliases PubMed IDs
hiv-1
  • aids, slow progression to
- elite association - COSMIC cancer census association via MalaCards
Search COPS6 in MalaCards View complete list of genes associated with diseases

Relevant External Links for COPS6

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
COPS6
genes like me logo Genes that share disorders with COPS6: view

No data available for UniProtKB/Swiss-Prot and Genatlas for COPS6 Gene

Publications for COPS6 Gene

  1. Association of the mammalian proto-oncoprotein Int-6 with the three protein complexes eIF3, COP9 signalosome and 26S proteasome. (PMID: 12220626) Hoareau Alves K. … Jalinot P. (FEBS Lett. 2002) 3 4 22 64
  2. Carboxyl terminus of hVIP/mov34 is critical for HIV-1-Vpr interaction and glucocorticoid-mediated signaling. (PMID: 12237292) Ramanathan M.P. … Weiner D.B. (J. Biol. Chem. 2002) 3 4 22 64
  3. HIV-1 Vpr interacts with a human 34-kDa mov34 homologue, a cellular factor linked to the G2/M phase transition of the mammalian cell cycle. (PMID: 9520381) Mahalingam S. … Weiner D.B. (Proc. Natl. Acad. Sci. U.S.A. 1998) 3 4 22 64
  4. A novel protein complex involved in signal transduction possessing similarities to 26S proteasome subunits. (PMID: 9535219) Seeger M. … Dubiel W. (FASEB J. 1998) 3 4 22 64
  5. CSNAP Is a Stoichiometric Subunit of the COP9 Signalosome. (PMID: 26456823) Rozen S. … Sharon M. (Cell Rep 2015) 3 4 64

Products for COPS6 Gene

Sources for COPS6 Gene

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