Human Gene COPS7A (uc001qqh.3) Description and Page Index
  Description: Homo sapiens COP9 signalosome subunit 7A (COPS7A), transcript variant 4, mRNA.
RefSeq Summary (NM_016319): This gene encodes a component of the COP9 signalosome, an evolutionarily conserved multi-subunit protease that regulates the activity of the ubiquitin conjugation pathway. Alternatively spliced transcript variants that encode the same protein have been described. [provided by RefSeq, Mar 2014].
Transcript (Including UTRs)
   Position: hg19 chr12:6,833,180-6,841,041 Size: 7,862 Total Exon Count: 8 Strand: +
Coding Region
   Position: hg19 chr12:6,833,823-6,840,205 Size: 6,383 Coding Exon Count: 7 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr12:6,833,180-6,841,041)mRNA (may differ from genome)Protein (275 aa)
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Wikipedia

-  Comments and Description Text from UniProtKB
  ID: CSN7A_HUMAN
DESCRIPTION: RecName: Full=COP9 signalosome complex subunit 7a; Short=SGN7a; Short=Signalosome subunit 7a; AltName: Full=Dermal papilla-derived protein 10; AltName: Full=JAB1-containing signalosome subunit 7a;
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, JUN, I-kappa-B-alpha/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.
SUBUNIT: Component of the CSN complex, composed of COPS1/GPS1, COPS2, COPS3, COPS4, COPS5, COP6, COPS7 (COPS7A or COPS7B) and COPS8. In the complex, it probably interacts directly with COPS1, COPS2, COPS4, COPS5, COPS6 and COPS8. Interacts with PMF1. Interacts with the translation initiation factor EIF3S6. Interacts with CK2 and PKD. Interacts directly with ID3.
SUBCELLULAR LOCATION: Cytoplasm. Nucleus.
TISSUE SPECIFICITY: Widely expressed. Expressed at high level in brain, heart and skeletal muscle.
PTM: Phosphorylated by CK2 and PKD kinases. Phosphorylated upon DNA damage, probably by ATM or ATR.
SIMILARITY: Belongs to the CSN7/EIF3M family. CSN7 subfamily.
SIMILARITY: Contains 1 PCI domain.

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 42.68 RPKM in Brain - Frontal Cortex (BA9)
Total median expression: 1255.35 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -72.50182-0.398 Picture PostScript Text
3' UTR -276.30836-0.331 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR000717 - PCI_dom

Pfam Domains:
PF01399 - PCI domain

ModBase Predicted Comparative 3D Structure on Q9UBW8
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding

Biological Process:
GO:0000338 protein deneddylation
GO:0000715 nucleotide-excision repair, DNA damage recognition
GO:0006283 transcription-coupled nucleotide-excision repair
GO:0043687 post-translational protein modification

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0008180 COP9 signalosome


-  Descriptions from all associated GenBank mRNAs
  AK128792 - Homo sapiens cDNA FLJ45475 fis, clone BRSTN2017151, weakly similar to COP9 signalosome complex subunit 7a.
BC093015 - Homo sapiens COP9 constitutive photomorphogenic homolog subunit 7A (Arabidopsis), mRNA (cDNA clone MGC:110877 IMAGE:30344094), complete cds.
AK021721 - Homo sapiens cDNA FLJ11659 fis, clone HEMBA1004604, highly similar to COP9 signalosome complex subunit 7a.
AF210052 - Homo sapiens COP9 complex subunit 7a mRNA, complete cds.
JD108497 - Sequence 89521 from Patent EP1572962.
AK001318 - Homo sapiens cDNA FLJ10456 fis, clone NT2RP1001395.
AK022488 - Homo sapiens cDNA FLJ12426 fis, clone MAMMA1003113, highly similar to Mus musculus COP9 complex subunit 7a (COPS7a) mRNA.
BC011789 - Homo sapiens COP9 constitutive photomorphogenic homolog subunit 7A (Arabidopsis), mRNA (cDNA clone MGC:19475 IMAGE:4025790), complete cds.
AB033603 - Homo sapiens COPS7a mRNA for cop9 complex subunit 7a, complete cds.
AK292621 - Homo sapiens cDNA FLJ78300 complete cds, highly similar to Homo sapiens COP9 constitutive photomorphogenic homolog subunit 7A (Arabidopsis) (COPS7A), mRNA.
JD254848 - Sequence 235872 from Patent EP1572962.
JD456511 - Sequence 437535 from Patent EP1572962.
JD121120 - Sequence 102144 from Patent EP1572962.
AB463540 - Synthetic construct DNA, clone: pF1KB5251, Homo sapiens COPS7A gene for COP9 constitutive photomorphogenic homolog subunit 7A, without stop codon, in Flexi system.
DQ892894 - Synthetic construct clone IMAGE:100005524; FLH190720.01X; RZPDo839D0476D COP9 constitutive photomorphogenic homolog subunit 7A (Arabidopsis) (COPS7A) gene, encodes complete protein.
DQ896141 - Synthetic construct Homo sapiens clone IMAGE:100010601; FLH190716.01L; RZPDo839D0466D COP9 constitutive photomorphogenic homolog subunit 7A (Arabidopsis) (COPS7A) gene, encodes complete protein.
KJ898788 - Synthetic construct Homo sapiens clone ccsbBroadEn_08182 COPS7A gene, encodes complete protein.
AB014764 - Homo sapiens mRNA for DERP10 (dermal papilla derived protein 10), complete cds.
AF193844 - Homo sapiens COP9 complex subunit 7a mRNA, complete cds.
JD544519 - Sequence 525543 from Patent EP1572962.
JD493683 - Sequence 474707 from Patent EP1572962.
JD153788 - Sequence 134812 from Patent EP1572962.
JD055942 - Sequence 36966 from Patent EP1572962.
JD321855 - Sequence 302879 from Patent EP1572962.
JD500200 - Sequence 481224 from Patent EP1572962.
JD378387 - Sequence 359411 from Patent EP1572962.
JD385987 - Sequence 367011 from Patent EP1572962.
JD447902 - Sequence 428926 from Patent EP1572962.
JD172835 - Sequence 153859 from Patent EP1572962.
JD365998 - Sequence 347022 from Patent EP1572962.
JD526933 - Sequence 507957 from Patent EP1572962.
JD151581 - Sequence 132605 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q9UBW8 (Reactome details) participates in the following event(s):

R-HSA-8863721 NEDD8-STON binds TOR1 hexamer and COP9 complex
R-HSA-5691006 XPC:RAD23:CETN2 and UV-DDB bind distorted dsDNA site
R-HSA-6781833 ERCC8 (CSA) binds stalled RNA Pol II
R-HSA-8956040 COP9 signalosome deneddylates cytosolic CRL E3 ubiquitin ligase complexes
R-HSA-8956045 COP9 signalosome deneddylates nuclear CRL4 E3 ubiquitin ligase complex
R-HSA-8856825 Cargo recognition for clathrin-mediated endocytosis
R-HSA-5696394 DNA Damage Recognition in GG-NER
R-HSA-6781823 Formation of TC-NER Pre-Incision Complex
R-HSA-8856828 Clathrin-mediated endocytosis
R-HSA-8951664 Neddylation
R-HSA-5696399 Global Genome Nucleotide Excision Repair (GG-NER)
R-HSA-6781827 Transcription-Coupled Nucleotide Excision Repair (TC-NER)
R-HSA-199991 Membrane Trafficking
R-HSA-597592 Post-translational protein modification
R-HSA-5696398 Nucleotide Excision Repair
R-HSA-5653656 Vesicle-mediated transport
R-HSA-392499 Metabolism of proteins
R-HSA-73894 DNA Repair

-  Other Names for This Gene
  Alternate Gene Symbols: A8K9A6, CSN7A, CSN7A_HUMAN, DERP10, NM_016319, NP_057403, Q9NVX3, Q9UBW8, Q9UJW4
UCSC ID: uc001qqh.3
RefSeq Accession: NM_016319
Protein: Q9UBW8 (aka CSN7A_HUMAN)
CCDS: CCDS8558.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_016319.2
exon count: 8CDS single in 3' UTR: no RNA size: 1862
ORF size: 828CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1856.00frame shift in genome: no % Coverage: 99.14
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
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-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.