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COPS6 COP9 signalosome subunit 6 [ Homo sapiens (human) ]

Gene ID: 10980, updated on 2-Nov-2024

Summary

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Official Symbol
COPS6provided by HGNC
Official Full Name
COP9 signalosome subunit 6provided by HGNC
Primary source
HGNC:HGNC:21749
See related
Ensembl:ENSG00000168090 MIM:614729; AllianceGenome:HGNC:21749
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
CSN6; MOV34-34KD
Summary
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]
Expression
Ubiquitous expression in esophagus (RPKM 33.2), testis (RPKM 32.7) and 25 other tissues See more
Orthologs
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Genomic context

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See COPS6 in Genome Data Viewer
Location:
7q22.1
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (100088969..100092187)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (101328815..101332033)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (99686592..99689810)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18412 Neighboring gene zinc finger with KRAB and SCAN domains 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:99634953-99635454 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:99635455-99635954 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:99647299-99647918 Neighboring gene zinc finger and SCAN domain containing 21 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26333 Neighboring gene Sharpr-MPRA regulatory region 7718 Neighboring gene zinc finger protein 3 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26334 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:99679591-99680572 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:99684712-99685405 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18414 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr7:99686990-99688189 Neighboring gene Sharpr-MPRA regulatory region 1952 Neighboring gene microRNA 25 Neighboring gene microRNA 93 Neighboring gene minichromosome maintenance complex component 7

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Crystal structure of the human CSN6 MPN domain. Ma XL, et al. Biochem Biophys Res Commun, 2014 Oct 10. PMID 25242525
  2. [Distribution pattern of rigor mortis in various joint regions]. Mittmeyer HJ. Beitr Gerichtl Med, 1975. PMID 1222062
  3. Choice of expression vector alters the localization of a human cellular protein. Ramanathan MP, et al. DNA Cell Biol, 2001 Feb. PMID 11244567
  4. Overexpression of CSN6 promotes the epithelial-mesenchymal transition and predicts poor prognosis in hepatocellular carcinoma. Xu M, et al. Clin Res Hepatol Gastroenterol, 2020 Jun. PMID 31422034
  5. CSN6 Mediates Nucleotide Metabolism to Promote Tumor Development and Chemoresistance in Colorectal Cancer. Zou S, et al. Cancer Res, 2023 Feb 3. PMID 36512632

See all (175) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. CSN6-SPOP-HMGCS1 Axis Promotes Hepatocellular Carcinoma Progression via YAP1 Activation.
    Title: CSN6-SPOP-HMGCS1 Axis Promotes Hepatocellular Carcinoma Progression via YAP1 Activation.
  2. CSN6 Mediates Nucleotide Metabolism to Promote Tumor Development and Chemoresistance in Colorectal Cancer.
    Title: CSN6 Mediates Nucleotide Metabolism to Promote Tumor Development and Chemoresistance in Colorectal Cancer.
  3. CSN6 promotes melanoma proliferation and metastasis by controlling the UBR5-mediated ubiquitination and degradation of CDK9.
    Title: CSN6 promotes melanoma proliferation and metastasis by controlling the UBR5-mediated ubiquitination and degradation of CDK9.
  4. Overexpression of CSN6 promotes the epithelial-mesenchymal transition and predicts poor prognosis in hepatocellular carcinoma.
    Title: Overexpression of CSN6 promotes the epithelial-mesenchymal transition and predicts poor prognosis in hepatocellular carcinoma.
  5. CSN6 promotes the cell migration of breast cancer cells by positively regulating Snail1 stability.
    Title: CSN6 promotes the cell migration of breast cancer cells by positively regulating Snail1 stability.
  6. CUL4A regulates endometrial cancer cell proliferation, invasion and migration by interacting with CSN6.
    Title: CUL4A regulates endometrial cancer cell proliferation, invasion and migration by interacting with CSN6.
  7. CSN6 promotes malignant progression of oral squamous cell carcinoma by down-regulating TIMP-2.
    Title: CSN6 promotes malignant progression of oral squamous cell carcinoma by down-regulating TIMP-2.
  8. CSN6-TRIM21 axis instigates cancer stemness during tumorigenesis.
    Title: CSN6-TRIM21 axis instigates cancer stemness during tumorigenesis.
  9. CSN6 inhibition suppresses pancreatic adenocarcinoma metastasis via destabilizing the c-Fos protein.
    Title: CSN6 inhibition suppresses pancreatic adenocarcinoma metastasis via destabilizing the c-Fos protein.
  10. High CSN6 expression is associated with glioblastoma.
    Title: EGFR-ERK pathway regulates CSN6 to contribute to PD-L1 expression in glioblastoma.
Submit: New GeneRIF Correction See all GeneRIFs (24)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

HIV-1 interactions

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Protein interactions

Protein Gene Interaction Pubs
Vpr vpr HIV-1 Vpr is identified to have a physical interaction with COP9 constitutive photomorphogenic homolog subunit 6 (COPS6) in human HEK293 and/or Jurkat cell lines by using affinity tagging and purification mass spectrometry analyses PubMed
vpr Interaction of HIV-1 Vpr and hVIP/mov34 is associated with the Vpr mediated inhibition of maturation promoting factor (MPF), a protein kinase complex composed of p34cdc2 and cyclin B PubMed
vpr Interaction of HIV-1 Vpr and hVIP/mov34 may be involved in the activation of glucocorticoid receptor by Vpr PubMed
vpr Interaction of HIV-1 Vpr with hVIP/mov34 is associated with the cell cycle arrest function of Vpr, suggesting hVIP/mov34 is a cellular cofactor for Vpr PubMed
vpr The C-terminal portion of HIV-1 Vpr directly binds the C-terminal region of hVIP/mov34 (amino acids 251-341) PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
NOT enables metal-dependent deubiquitinase activity IKR
Inferred from Key Residues
more info
 PubMed 
NOT enables peptidase activity IKR
Inferred from Key Residues
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in protein deneddylation IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in protein neddylation NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in regulation of protein neddylation NAS
Non-traceable Author Statement
more info
 PubMed 
Component Evidence Code Pubs
part_of COP9 signalosome IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of COP9 signalosome IDA
Inferred from Direct Assay
more info
 PubMed 
part_of COP9 signalosome IPI
Inferred from Physical Interaction
more info
 PubMed 
part_of COP9 signalosome ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cytoplasm ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in cytosol TAS
Traceable Author Statement
more info
  
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
  
located_in nucleoplasm TAS
Traceable Author Statement
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleus ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in perinuclear region of cytoplasm IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
COP9 signalosome complex subunit 6
Names
COP9 constitutive photomorphogenic homolog subunit 6
H_NH0506M12.12
JAB1-containing signalosome subunit 6
MOV34 homolog, 34 kD
SGN6
hVIP
vpr-interacting protein

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

  1. NG_046973.1 RefSeqGene

    Range
    5010..8228
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_006833.5 → NP_006824.2  COP9 signalosome complex subunit 6

    See identical proteins and their annotated locations for NP_006824.2

    Status: REVIEWED

    Source sequence(s)
    BC002520, CB990467, CD367717
    Consensus CDS
    CCDS5682.1
    UniProtKB/Swiss-Prot
    A4D2A3, O15387, Q7L5N1
    UniProtKB/TrEMBL
    E7EM64
    Related
    ENSP00000304102.3, ENST00000303904.8
    Conserved Domains (1) summary
    cd08063
    Location:39 → 321
    MPN_CSN6; Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in COP9 signalosome complex subunit 6

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000007.14 Reference GRCh38.p14 Primary Assembly

    Range
    100088969..100092187
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060931.1 Alternate T2T-CHM13v2.0

    Range
    101328815..101332033
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q7L5N1.1 GenPept UniProtKB/Swiss-Prot:Q7L5N1

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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