COPS2 COP9 signalosome subunit 2 [Homo sapiens (human)] - Gene

Summary

Official Symbol: COPS2provided by HGNC
Official Full Name: COP9 signalosome subunit 2provided by HGNC
Primary source: HGNC:HGNC:30747
See related: Ensembl:ENSG00000166200 MIM:604508; AllianceGenome:HGNC:30747
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: CSN2; SGN2; ALIEN; TRIP15
Summary: Predicted to enable transcription corepressor activity. Involved in protein deneddylation and protein phosphorylation. Located in cytoplasm. Part of COP9 signalosome. [provided by Alliance of Genome Resources, Apr 2022]
Expression: Ubiquitous expression in bone marrow (RPKM 22.3), thyroid (RPKM 19.6) and 25 other tissues See more
Orthologs: mouse all
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Location:: 15q21.1

Exon count:: 13

Annotation release	Status	Assembly	Chr	Location
RS_2023_10	current	GRCh38.p14 (GCF_000001405.40)	15	NC_000015.10 (49122727..49155599, complement)
RS_2023_10	current	T2T-CHM13v2.0 (GCF_009914755.1)	15	NC_060939.1 (46930938..46963811, complement)
105.20220307	previous assembly	GRCh37.p13 (GCF_000001405.25)	15	NC_000015.9 (49414924..49447796, complement)

Chromosome 15 - NC_000015.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help

See details

Project title: 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

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Data indicate that DET1- and DDB1-associated protein 1 (DDA1)-mediated tumor progression is associated with the activation of the NF-kappa B (NFkappaB)/COP9 signalosome 2(CSN2)/glycogen synthase kinase3beta (GSK3beta) pathway.
Title: DDA1 promotes stage IIB-IIC colon cancer progression by activating NFκB/CSN2/GSK-3β signaling.
AIBP promotes apoA-1 binding to ABCA1 on the cell membrane of macrophages and prevents ABCA1 protein from CSN2-mediated degradation so as to prevent foam cell formation
Title: Apolipoprotein A-1 binding protein promotes macrophage cholesterol efflux by facilitating apolipoprotein A-1 binding to ABCA1 and preventing ABCA1 degradation.
CSN2 knockdown cells underwent non-apoptotic cell death.
Title: Analysis of the role of COP9 Signalosome (CSN) subunits in K562; the first link between CSN and autophagy.
p300 binds to Alien alpha by pull down (View interaction) Alien alpha physically interacts with CBP by two hybrid
Title: The corepressor activity of Alien is controlled by CREB-binding protein/p300.
A subunit of the COP9 signalosome interacted physically with the anaphase-promoting complex and showed a genetic instability of cells.
Title: Regulation of the anaphase-promoting complex by the COP9 signalosome.
CSN2 gene was identified in the genome-wide loss-of-function genetic screen as putative tumor suppressor located at 15q21.2.
Title: Cellular senescence bypass screen identifies new putative tumor suppressor genes.
Alien seems to modulate nucleosome assembly activity. This suggests that Alien is acting on chromatin not only through recruitment of histone-modifying activities, but also through enhancing nucleosome assembly.
Title: The coregulator Alien.
the interaction between Alien and the tumor suppressors p33ING1 and p33ING2 reveals a novel cellular protein network
Title: The tumor suppressors p33ING1 and p33ING2 interact with alien in vivo and enhance alien-mediated gene silencing.
Alien inhibits E2F1 gene expression and cell proliferation.
Title: Alien inhibits E2F1 gene expression and cell proliferation.
Alien and Sin3A reside together in vivo with the vitamin D3 receptor on the human 24-hydroxylase (CYP24) promoter containing vitamin D3 response elements by chromatin immunoprecipitation
Title: The highly conserved region of the co-repressor Sin3A functionally interacts with the co-repressor Alien.

Submit: New GeneRIF Correction See all GeneRIFs (13)

Phenotypes

Go to the top of the page Help

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

Review eQTL and phenotype association data in this region using PheGenI

Variation

Go to the top of the page Help

See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

HIV-1 interactions

Go to the top of the page Help

Protein interactions

Protein	Gene	Interaction	Pubs
Vpr	vpr	HIV-1 Vpr is identified to have a physical interaction with COP9 constitutive photomorphogenic homolog subunit 2 (COPS2; CSN2) in human HEK293 and/or Jurkat cell lines by using affinity tagging and purification mass spectrometry analyses	PubMed

Go to the HIV-1, Human Interaction Database

Interactions

Go to the top of the page Help

Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

Go to the top of the page Help

Markers

TRIP15_3929 (e-PCR)
- UniSTS:462601

RH48647 (e-PCR)
- UniSTS:27922

WI-15995 (e-PCR)
- UniSTS:50247

Bdac5a05 (e-PCR)
- UniSTS:53883

D15S856 (e-PCR)
- UniSTS:153536

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables transcription corepressor activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in inner cell mass cell proliferation	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of transcription by RNA polymerase II	ISS Inferred from Sequence or Structural Similarity more info
involved_in neuron differentiation	IEA Inferred from Electronic Annotation more info
involved_in protein deneddylation	IBA Inferred from Biological aspect of Ancestor more info
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 protein phosphorylation	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of protein neddylation	NAS Non-traceable Author Statement more info	PubMed
involved_in signal transduction	NAS Non-traceable Author Statement more info	PubMed
involved_in skeletal muscle cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in transcription by RNA polymerase II	TAS Traceable Author Statement more info	PubMed
involved_in trophectodermal cell proliferation	IEA Inferred from Electronic Annotation more info

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	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

General protein information

Go to the top of the page Help

Preferred Names: COP9 signalosome complex subunit 2

Names: COP9 constitutive photomorphogenic homolog subunit 2; JAB1-containing signalosome subunit 2; TR-interacting protein 15; TRIP-15; alien homolog; signalosome subunit 2; thyroid receptor-interacting protein 15

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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.

mRNA and Protein(s)

NM_001143887.2 → NP_001137359.1 COP9 signalosome complex subunit 2 isoform 2

See identical proteins and their annotated locations for NP_001137359.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) represents the longer transcript and encodes the longer isoform (2).

Source sequence(s)

AB209799, AC013452, BM667648, BX648602, CN281648, DB059510

Consensus CDS

CCDS45257.1

UniProtKB/TrEMBL

Q59EL2

Related

ENSP00000299259.6, ENST00000299259.10

Conserved Domains (2) summary

COG5159
Location:40 → 441

RPN6; 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

pfam01399
Location:316 → 420

PCI; PCI domain
NM_004236.4 → NP_004227.1 COP9 signalosome complex subunit 2 isoform 1

See identical proteins and their annotated locations for NP_004227.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) has an exon with an alternative splice acceptor site in the 5' coding region, compared to variant 2, which results in a shorter protein (isoform 1), compared to isoform 2.

Source sequence(s)

AC013452, BC012629, BM667648, BX648602, CN281648, CN287009, DB059510

Consensus CDS

CCDS32235.1

UniProtKB/Swiss-Prot

O88950, P61201, Q15647, Q6FGP4, Q9BY54, Q9R249, Q9UNI2, Q9UNQ5

UniProtKB/TrEMBL

B2R6N0, Q53HJ0

Related

ENSP00000373553.5, ENST00000388901.10

Conserved Domains (2) summary

COG5159
Location:40 → 434

RPN6; 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

pfam01399
Location:309 → 413

PCI; PCI domain