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COPS4 COP9 signalosome subunit 4 [ Homo sapiens (human) ]

Gene ID: 51138, updated on 5-Jul-2020

Summary

Official Symbol
COPS4provided by HGNC
Official Full Name
COP9 signalosome subunit 4provided by HGNC
Primary source
HGNC:HGNC:16702
See related
Ensembl:ENSG00000138663 MIM:616008
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
CSN4; SGN4
Summary
This gene encodes one of eight subunits composing 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. Two transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Apr 2012]
Expression
Ubiquitous expression in testis (RPKM 26.4), brain (RPKM 21.8) and 25 other tissues See more
Orthologs

Genomic context

See COPS4 in Genome Data Viewer
Location:
4q21.22
Exon count:
11
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 4 NC_000004.12 (83035183..83075818)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (83956239..83996971)

Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene THAP9 antisense RNA 1 Neighboring gene THAP domain containing 9 Neighboring gene lin-54 DREAM MuvB core complex component Neighboring gene RNA, U6 small nuclear 615, pseudogene Neighboring gene Sharpr-MPRA regulatory region 7954 Neighboring gene placenta associated 8 Neighboring gene Sharpr-MPRA regulatory region 10366

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Vpr vpr HIV-1 Vpr is identified to have a physical interaction with COP9 constitutive photomorphogenic homolog subunit 4 (COPS4; CSN4) 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

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC10899, MGC15160

Gene Ontology Provided by GOA

Function Evidence Code Pubs
contributes_to NEDD8-specific protease activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
NEDD8-specific protease activity TAS
Traceable Author Statement
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
nucleotide-excision repair, DNA damage recognition TAS
Traceable Author Statement
more info
 
post-translational protein modification TAS
Traceable Author Statement
more info
 
protein deneddylation IDA
Inferred from Direct Assay
more info
PubMed 
protein deneddylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
transcription-coupled nucleotide-excision repair TAS
Traceable Author Statement
more info
 
Component Evidence Code Pubs
COP9 signalosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
COP9 signalosome IDA
Inferred from Direct Assay
more info
PubMed 
cell junction IDA
Inferred from Direct Assay
more info
 
cytosol IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytosol TAS
Traceable Author Statement
more info
 
nuclear speck IDA
Inferred from Direct Assay
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus HDA PubMed 
synaptic vesicle IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
COP9 signalosome complex subunit 4
Names
COP9 constitutive photomorphogenic homolog subunit 4
COP9 constitutive photomorphogenic-like protein subunit 4
JAB1-containing signalosome subunit 4
signalosome subunit 4
testis tissue sperm-binding protein Li 42a

NCBI Reference Sequences (RefSeq)

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)

  1. NM_001258006.2NP_001244935.1  COP9 signalosome complex subunit 4 isoform 2

    See identical proteins and their annotated locations for NP_001244935.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an alternate coding exon compared to variant 1, that causes a frameshift. The resulting isoform (2) has a shorter and distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AK094238, BC009292
    Consensus CDS
    CCDS58909.1
    UniProtKB/Swiss-Prot
    Q9BT78
    Related
    ENSP00000425976.1, ENST00000509093.5
    Conserved Domains (1) summary
    COG5071
    Location:71337
    RPN5; 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]
  2. NM_001330727.2NP_001317656.1  COP9 signalosome complex subunit 4 isoform 3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) includes an alternate penultimate exon, compared to variant 1, resulting in a novel 3' coding region and longer 3' UTR. The resulting isoform (3) has a longer and distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AK001148, BC004302, BC009292, KU178634
    Consensus CDS
    CCDS82935.1
    UniProtKB/Swiss-Prot
    Q9BT78
    UniProtKB/TrEMBL
    B3KM48, D6RAX7
    Related
    ENSP00000424655.1, ENST00000511653.1
    Conserved Domains (2) summary
    COG5071
    Location:71374
    RPN5; 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]
    pfam01399
    Location:264362
    PCI; PCI domain
  3. NM_016129.3NP_057213.2  COP9 signalosome complex subunit 4 isoform 1

    See identical proteins and their annotated locations for NP_057213.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes isoform (1).
    Source sequence(s)
    AK001148, BC004302, BC009292
    Consensus CDS
    CCDS3600.1
    UniProtKB/Swiss-Prot
    Q9BT78
    UniProtKB/TrEMBL
    A0A0S2Z5H7, B3KM48
    Related
    ENSP00000264389.2, ENST00000264389.7
    Conserved Domains (2) summary
    COG5071
    Location:71377
    RPN5; 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]
    pfam01399
    Location:264362
    PCI; PCI domain

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000004.12 Reference GRCh38.p13 Primary Assembly

    Range
    83035183..83075818
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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