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COP1 COP1 E3 ubiquitin ligase [ Homo sapiens (human) ]

Gene ID: 64326, updated on 5-Apr-2020

Summary

Official Symbol
COP1provided by HGNC
Official Full Name
COP1 E3 ubiquitin ligaseprovided by HGNC
Primary source
HGNC:HGNC:17440
See related
Ensembl:ENSG00000143207 MIM:608067
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
FAP78; RFWD2; CFAP78; RNF200
Expression
Ubiquitous expression in testis (RPKM 5.8), colon (RPKM 4.2) and 25 other tissues See more
Orthologs

Genomic context

See COP1 in Genome Data Viewer
Location:
1q25.1-q25.2
Exon count:
23
Annotation release Status Assembly Chr Location
109.20200228 current GRCh38.p13 (GCF_000001405.39) 1 NC_000001.11 (175944826..176209087, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (175913967..176176386, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene long intergenic non-protein coding RNA 2803 Neighboring gene long intergenic non-protein coding RNA 1657 Neighboring gene ribosomal protein S29 pseudogene 5 Neighboring gene microRNA 1843 Neighboring gene small Cajal body-specific RNA 3 Neighboring gene RNA, U2 small nuclear 12, pseudogene Neighboring gene ribosomal protein L13 pseudogene 7

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?

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ10416, RP11-318C24.3

Gene Ontology Provided by GOA

Function Evidence Code Pubs
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
ubiquitin protein ligase activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
ubiquitin-protein transferase activity TAS
Traceable Author Statement
more info
 
Component Evidence Code Pubs
Cul4A-RING E3 ubiquitin ligase complex IDA
Inferred from Direct Assay
more info
PubMed 
Golgi membrane IEA
Inferred from Electronic Annotation
more info
 
cytosol TAS
Traceable Author Statement
more info
 
nuclear speck IEA
Inferred from Electronic Annotation
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
E3 ubiquitin-protein ligase COP1
Names
E3 ubiquitin-protein ligase RFWD2
RING finger protein 200
RING-type E3 ubiquitin transferase RFWD2
constitutive photomorphogenesis protein 1 homolog
constitutive photomorphogenic protein 1
putative ubiquitin ligase COP1
ring finger and WD repeat domain 2, E3 ubiquitin protein ligase
NP_001001740.1
NP_001273573.1
NP_071902.2
XP_005245504.1
XP_005245505.1
XP_006711550.1
XP_011508183.1
XP_016857548.1
XP_016857549.1
XP_016857550.1
XP_016857551.1
XP_016857552.1
XP_016857553.1
XP_016857554.1
XP_016857555.1
XP_016857556.1
XP_016857558.1
XP_016857559.1
XP_016857560.1
XP_016857561.1
XP_016857562.1
XP_016857563.1
XP_016857564.1
XP_016857565.1
XP_016857566.1
XP_016857567.1
XP_016857568.1
XP_016857569.1

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_001001740.3NP_001001740.1  E3 ubiquitin-protein ligase COP1 isoform b

    See identical proteins and their annotated locations for NP_001001740.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice site and lacks an in-frame exon in the central coding region, compared to variant 1. The encoded isoform (b, also known as delta24) is shorter, compared to isoform a.
    Source sequence(s)
    AF527539, AY509921, BG717002, CA450176
    Consensus CDS
    CCDS44279.1
    UniProtKB/Swiss-Prot
    Q8NHY2
    Related
    ENSP00000310943.8, ENST00000308769.12
    Conserved Domains (3) summary
    sd00039
    Location:449486
    7WD40; WD40 repeat [structural motif]
    cd16504
    Location:132177
    RING-HC_COP1; RING finger, HC subclass, found in constitutive photomorphogenesis protein 1 (COP1) and similar proteins
    cl25539
    Location:236707
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
  2. NM_001286644.1NP_001273573.1  E3 ubiquitin-protein ligase COP1 isoform c precursor

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in its 5' UTR and initiates translation at an alternate start codon, compared to variant 1. The encoded isoform (c) has a shorter and distinct N-terminus, compared to isoform a.
    Source sequence(s)
    AF527539, BC039723, BG717002, CA450176
    UniProtKB/Swiss-Prot
    Q8NHY2
    Conserved Domains (2) summary
    cd00200
    Location:181487
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    sd00039
    Location:185228
    7WD40; WD40 repeat [structural motif]
  3. NM_022457.7NP_071902.2  E3 ubiquitin-protein ligase COP1 isoform a

    See identical proteins and their annotated locations for NP_071902.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (a).
    Source sequence(s)
    AL359265, BC094728, BG717002
    Consensus CDS
    CCDS30944.1
    UniProtKB/Swiss-Prot
    Q8NHY2
    Related
    ENSP00000356641.3, ENST00000367669.8
    Conserved Domains (3) summary
    sd00039
    Location:473510
    7WD40; WD40 repeat [structural motif]
    cd16504
    Location:132177
    RING-HC_COP1; RING finger, HC subclass, found in constitutive photomorphogenesis protein 1 (COP1) and similar proteins
    cl25539
    Location:240731
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

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_000001.11 Reference GRCh38.p13 Primary Assembly

    Range
    175944826..176209087 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005245447.3XP_005245504.1  E3 ubiquitin-protein ligase COP1 isoform X11

    See identical proteins and their annotated locations for XP_005245504.1

    Conserved Domains (3) summary
    cd00200
    Location:417723
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    pfam00097
    Location:136173
    zf-C3HC4; Zinc finger, C3HC4 type (RING finger)
    sd00039
    Location:469506
    7WD40; WD40 repeat [structural motif]
  2. XM_006711487.3XP_006711550.1  E3 ubiquitin-protein ligase COP1 isoform X13

    See identical proteins and their annotated locations for XP_006711550.1

    UniProtKB/TrEMBL
    X5DNY7
    Conserved Domains (4) summary
    cd00200
    Location:398704
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    pfam00097
    Location:136173
    zf-C3HC4; Zinc finger, C3HC4 type (RING finger)
    pfam13094
    Location:227276
    CENP-Q; CENP-Q, a CENPA-CAD centromere complex subunit
    sd00039
    Location:450487
    7WD40; WD40 repeat [structural motif]
  3. XM_005245448.3XP_005245505.1  E3 ubiquitin-protein ligase COP1 isoform X12

    See identical proteins and their annotated locations for XP_005245505.1

    UniProtKB/TrEMBL
    X5D7N8
    Conserved Domains (3) summary
    cd00200
    Location:401707
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    pfam00097
    Location:136173
    zf-C3HC4; Zinc finger, C3HC4 type (RING finger)
    sd00039
    Location:453490
    7WD40; WD40 repeat [structural motif]
  4. XM_011509881.2XP_011508183.1  E3 ubiquitin-protein ligase COP1 isoform X7

    Conserved Domains (3) summary
    cd00200
    Location:439745
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    pfam00097
    Location:136173
    zf-C3HC4; Zinc finger, C3HC4 type (RING finger)
    sd00039
    Location:491528
    7WD40; WD40 repeat [structural motif]
  5. XM_017002076.1XP_016857565.1  E3 ubiquitin-protein ligase COP1 isoform X21

    Related
    ENSP00000356638.1, ENST00000367666.5
  6. XM_017002069.2XP_016857558.1  E3 ubiquitin-protein ligase COP1 isoform X14

  7. XM_017002074.1XP_016857563.1  E3 ubiquitin-protein ligase COP1 isoform X19

  8. XM_017002073.1XP_016857562.1  E3 ubiquitin-protein ligase COP1 isoform X18

  9. XM_017002079.1XP_016857568.1  E3 ubiquitin-protein ligase COP1 isoform X23

  10. XM_017002072.1XP_016857561.1  E3 ubiquitin-protein ligase COP1 isoform X17

  11. XM_017002078.1XP_016857567.1  E3 ubiquitin-protein ligase COP1 isoform X23

  12. XM_017002071.1XP_016857560.1  E3 ubiquitin-protein ligase COP1 isoform X16

  13. XM_017002080.2XP_016857569.1  E3 ubiquitin-protein ligase COP1 isoform X23

  14. XM_017002077.2XP_016857566.1  E3 ubiquitin-protein ligase COP1 isoform X22

  15. XM_017002064.2XP_016857553.1  E3 ubiquitin-protein ligase COP1 isoform X6

  16. XM_017002075.1XP_016857564.1  E3 ubiquitin-protein ligase COP1 isoform X20

  17. XM_017002067.2XP_016857556.1  E3 ubiquitin-protein ligase COP1 isoform X10

  18. XM_017002060.2XP_016857549.1  E3 ubiquitin-protein ligase COP1 isoform X2

  19. XM_017002066.2XP_016857555.1  E3 ubiquitin-protein ligase COP1 isoform X9

  20. XM_017002062.2XP_016857551.1  E3 ubiquitin-protein ligase COP1 isoform X4

  21. XM_017002070.1XP_016857559.1  E3 ubiquitin-protein ligase COP1 isoform X15

  22. XM_017002063.2XP_016857552.1  E3 ubiquitin-protein ligase COP1 isoform X5

  23. XM_017002065.2XP_016857554.1  E3 ubiquitin-protein ligase COP1 isoform X8

  24. XM_017002059.2XP_016857548.1  E3 ubiquitin-protein ligase COP1 isoform X1

  25. XM_017002061.2XP_016857550.1  E3 ubiquitin-protein ligase COP1 isoform X3

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