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Aliases for COPB1 Gene

Aliases for COPB1 Gene

  • Coatomer Protein Complex, Subunit Beta 1 2 3
  • COPB 3 4 6
  • Beta-Coat Protein 3 4
  • Beta-COP 3 4
  • Coatomer Protein Complex, Subunit Beta 2
  • Coatomer Subunit Beta 3
  • Beta Coat Protein 3

External Ids for COPB1 Gene

Previous HGNC Symbols for COPB1 Gene

  • COPB

Previous GeneCards Identifiers for COPB1 Gene

  • GC11M014160

Summaries for COPB1 Gene

Entrez Gene Summary for COPB1 Gene

  • This gene encodes a protein subunit of the coatomer complex associated with non-clathrin coated vesicles. The coatomer complex, also known as the coat protein complex 1, forms in the cytoplasm and is recruited to the Golgi by activated guanosine triphosphatases. Once at the Golgi membrane, the coatomer complex may assist in the movement of protein and lipid components back to the endoplasmic reticulum. Alternatively spliced transcript variants have been described. [provided by RefSeq, Jan 2009]

GeneCards Summary for COPB1 Gene

COPB1 (Coatomer Protein Complex, Subunit Beta 1) is a Protein Coding gene. Diseases associated with COPB1 include oculocerebrorenal syndrome. Among its related pathways are COPI Mediated Transport and COPI Mediated Transport. GO annotations related to this gene include structural molecule activity.

UniProtKB/Swiss-Prot for COPB1 Gene

  • The coatomer is a cytosolic protein complex that binds to dilysine motifs and reversibly associates with Golgi non-clathrin-coated vesicles, which further mediate biosynthetic protein transport from the ER, via the Golgi up to the trans Golgi network. Coatomer complex is required for budding from Golgi membranes, and is essential for the retrograde Golgi-to-ER transport of dilysine-tagged proteins. In mammals, the coatomer can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins; the complex also influences the Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. Plays a functional role in facilitating the transport of kappa-type opioid receptor mRNAs into axons and enhances translation of these proteins. Required for limiting lipid storage in lipid droplets. Involved in lipid homeostasis by regulating the presence of perilipin family members PLIN2 and PLIN3 at the lipid droplet surface and promoting the association of adipocyte surface triglyceride lipase (PNPLA2) with the lipid droplet to mediate lipolysis (By similarity). Involved in the Golgi disassembly and reassembly processes during cell cycle. Involved in autophagy by playing a role in early endosome function. Plays a role in organellar compartmentalization of secretory compartments including endoplasmic reticulum (ER)-Golgi intermediate compartment (ERGIC), Golgi, trans-Golgi network (TGN) and recycling endosomes, and in biosynthetic transport of CAV1. Promotes degradation of Nef cellular targets CD4 and MHC class I antigens by facilitating their trafficking to degradative compartments.

Gene Wiki entry for COPB1 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for COPB1 Gene

Genomics for COPB1 Gene

Regulatory Elements for COPB1 Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for COPB1 Gene

Start:
14,443,440 bp from pter
End:
14,500,027 bp from pter
Size:
56,588 bases
Orientation:
Minus strand

Genomic View for COPB1 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for COPB1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for COPB1 Gene

Proteins for COPB1 Gene

  • Protein details for COPB1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P53618-COPB_HUMAN
    Recommended name:
    Coatomer subunit beta
    Protein Accession:
    P53618
    Secondary Accessions:
    • D3DQX0
    • Q6GTT7
    • Q9NTK2
    • Q9UNW7

    Protein attributes for COPB1 Gene

    Size:
    953 amino acids
    Molecular mass:
    107142 Da
    Quaternary structure:
    • Oligomeric complex that consists of at least the alpha, beta, beta, gamma, delta, epsilon and zeta subunits. Interacts (via C-terminus) with HIV-1 Nef; the interaction is direct. Interacts with SCYL1. Interacts with COPG1. Interacts (via trunk domain) with ARF1 (via switch I region); the interaction is direct. Interacts with KCNK2/TREK (via N-terminus); this interaction increases the channel-mediated whole cell currents and promotes plasma membrane expression of KCNK2/TREK. Interacts with anthrax lethal factor (LF); this interaction may facilitate endosomal vesicle membrane translocation of LF and its release from the lumen of endosomal vesicles to external milieu. Interacts with CAPN8 and PRKCE (By similarity). Interacts with ARF1 (myristoylated); this interaction is required for binding of COPB1 to Golgi membranes (By similarity). Interacts with STX17 (By similarity). Interacts with TMEM115.
    Miscellaneous:
    • Brefeldin A induces dissociation from the Golgi of the beta-COP and presumably the other coatomer subunits

neXtProt entry for COPB1 Gene

Proteomics data for COPB1 Gene at MOPED

Post-translational modifications for COPB1 Gene

  • Proteolytically cleaved between Ser-528 and Ser-529 by CAPN8.
  • Ubiquitination at Lys107, Lys128, Lys633, Lys771, Lys786, Lys913, and Lys943
  • Modification sites at PhosphoSitePlus

Other Protein References for COPB1 Gene

No data available for DME Specific Peptides for COPB1 Gene

Domains for COPB1 Gene

Suggested Antigen Peptide Sequences for COPB1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

P53618

UniProtKB/Swiss-Prot:

COPB_HUMAN :
  • P53618
Similarity:
  • Contains 6 HEAT repeats.
genes like me logo Genes that share domains with COPB1: view

No data available for Gene Families for COPB1 Gene

Function for COPB1 Gene

Molecular function for COPB1 Gene

UniProtKB/Swiss-Prot Function: The coatomer is a cytosolic protein complex that binds to dilysine motifs and reversibly associates with Golgi non-clathrin-coated vesicles, which further mediate biosynthetic protein transport from the ER, via the Golgi up to the trans Golgi network. Coatomer complex is required for budding from Golgi membranes, and is essential for the retrograde Golgi-to-ER transport of dilysine-tagged proteins. In mammals, the coatomer can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins; the complex also influences the Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. Plays a functional role in facilitating the transport of kappa-type opioid receptor mRNAs into axons and enhances translation of these proteins. Required for limiting lipid storage in lipid droplets. Involved in lipid homeostasis by regulating the presence of perilipin family members PLIN2 and PLIN3 at the lipid droplet surface and promoting the association of adipocyte surface triglyceride lipase (PNPLA2) with the lipid droplet to mediate lipolysis (By similarity). Involved in the Golgi disassembly and reassembly processes during cell cycle. Involved in autophagy by playing a role in early endosome function. Plays a role in organellar compartmentalization of secretory compartments including endoplasmic reticulum (ER)-Golgi intermediate compartment (ERGIC), Golgi, trans-Golgi network (TGN) and recycling endosomes, and in biosynthetic transport of CAV1. Promotes degradation of Nef cellular targets CD4 and MHC class I antigens by facilitating their trafficking to degradative compartments.

Gene Ontology (GO) - Molecular Function for COPB1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005198 structural molecule activity IEA --
GO:0005488 binding --
GO:0005515 protein binding IPI 10199403
genes like me logo Genes that share ontologies with COPB1: view
genes like me logo Genes that share phenotypes with COPB1: view

Animal Model Products

CRISPR Products

miRNA for COPB1 Gene

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for COPB1

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targeting and HOMER Transcription for COPB1 Gene

Localization for COPB1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for COPB1 Gene

Cytoplasm. Golgi apparatus membrane; Peripheral membrane protein; Cytoplasmic side. Cytoplasmic vesicle, COPI-coated vesicle membrane; Peripheral membrane protein; Cytoplasmic side. Cell membrane. Endoplasmic reticulum-Golgi intermediate compartment. Note=The coatomer is cytoplasmic or polymerized on the cytoplasmic side of the Golgi, as well as on the vesicles/buds originating from it. Proteolytic cleavage by CAPN8 triggers translocation from Golgi to cytoplasm (By similarity). Found in perinuclear vesicular-tubular clusters (VTCs) and in the Golgi region where associated with vesicles, buds and rims of the Golgi stack (By similarity). Occasionally present at the trans-side of Golgi, but mainly present at the cis-Golgi side in transitional areas (TA), on so-called peripheral elements (PE) consisting of tubules and vesicles located between the cup-shaped transitional elements (TE) of the rough endoplasmic reticulum (RER) and the cis-most Golgi cisternae (By similarity). Present in cytoplasm, not associated with visible coats or membranes, with a minor fraction present on small clusters of tubules and vesicles (By similarity). Some association with high-density and low-density microsomes and mitochondria/nuclei fraction (By similarity). Very little found in plasma membrane fraction (By similarity). {ECO:0000250}.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for COPB1 Gene COMPARTMENTS Subcellular localization image for COPB1 gene
Compartment Confidence
golgi apparatus 5
plasma membrane 5
cytosol 4
cytoskeleton 2
endoplasmic reticulum 1
nucleus 1

Gene Ontology (GO) - Cellular Components for COPB1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000139 Golgi membrane TAS 1840503
GO:0005737 cytoplasm IDA --
GO:0005793 endoplasmic reticulum-Golgi intermediate compartment IEA --
GO:0005794 Golgi apparatus IDA --
GO:0005798 Golgi-associated vesicle TAS 1840503
genes like me logo Genes that share ontologies with COPB1: view

Pathways for COPB1 Gene

genes like me logo Genes that share pathways with COPB1: view

Gene Ontology (GO) - Biological Process for COPB1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006886 intracellular protein transport IEA --
GO:0006890 retrograde vesicle-mediated transport, Golgi to ER TAS --
GO:0006891 intra-Golgi vesicle-mediated transport ISS --
GO:0016032 viral process IEA --
GO:0016192 vesicle-mediated transport --
genes like me logo Genes that share ontologies with COPB1: view

Compounds for COPB1 Gene

(1) HMDB Compounds for COPB1 Gene

Compound Synonyms Cas Number PubMed IDs
Guanosine triphosphate
  • 5'-GTP
86-01-1

(3) Novoseek inferred chemical compound relationships for COPB1 Gene

Compound -log(P) Hits PubMed IDs
guanosine 5-o-(3-thiotriphosphate) 50.8 1
gtp 20.4 1
caffeine 20.3 2
genes like me logo Genes that share compounds with COPB1: view

Transcripts for COPB1 Gene

Unigene Clusters for COPB1 Gene

Coatomer protein complex, subunit beta 1:
Representative Sequences:

CRISPR Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for COPB1

Primer Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for COPB1 Gene

ExUns: 1 ^ 2a · 2b · 2c · 2d ^ 3a · 3b ^ 4a · 4b ^ 5a · 5b ^ 6a · 6b · 6c · 6d ^ 7a · 7b · 7c · 7d · 7e ^ 8a · 8b ^ 9a · 9b ^ 10a · 10b ^
SP1: - - -
SP2: - - - - - -
SP3: - - - - -
SP4: - - - - -
SP5: - - -
SP6: - - - - - - - - - - - - - - -
SP7: - - - - - - - - -
SP8: - - -
SP9: - - - - -
SP10: - - - - - -
SP11: - -
SP12:
SP13: - - - -
SP14: - -
SP15:

ExUns: 11 ^ 12 ^ 13 ^ 14 ^ 15a · 15b ^ 16 ^ 17 ^ 18 ^ 19 ^ 20 ^ 21 ^ 22 ^ 23a · 23b ^ 24 ^ 25a · 25b
SP1: - -
SP2: - -
SP3: - -
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11:
SP12:
SP13:
SP14:
SP15:

Relevant External Links for COPB1 Gene

GeneLoc Exon Structure for
COPB1
ECgene alternative splicing isoforms for
COPB1

Expression for COPB1 Gene

mRNA expression in normal human tissues for COPB1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for COPB1 Gene

SOURCE GeneReport for Unigene cluster for COPB1 Gene Hs.339278

genes like me logo Genes that share expressions with COPB1: view

In Situ Assay Products

No data available for mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for COPB1 Gene

Orthologs for COPB1 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for COPB1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia COPB1 35
  • 99.58 (n)
  • 99.79 (a)
COPB1 36
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia COPB1 35
  • 94.33 (n)
  • 99.06 (a)
COPB1 36
  • 99 (a)
OneToOne
dog
(Canis familiaris)
Mammalia COPB1 35
  • 94.79 (n)
  • 99.16 (a)
COPB1 36
  • 99 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Copb1 35
  • 91.5 (n)
  • 99.27 (a)
Copb1 16
Copb1 36
  • 99 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia COPB1 36
  • 98 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia COPB1 36
  • 98 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Copb1 35
  • 91.01 (n)
  • 99.06 (a)
chicken
(Gallus gallus)
Aves COPB1 35
  • 84.05 (n)
  • 97.9 (a)
COPB1 36
  • 98 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia COPB1 36
  • 98 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia copb1 35
  • 76.11 (n)
  • 95.38 (a)
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.10929 35
zebrafish
(Danio rerio)
Actinopterygii -- 35
copb1 35
  • 76.37 (n)
  • 93.59 (a)
copb1 36
  • 94 (a)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP001399 35
  • 61.67 (n)
  • 69.57 (a)
fruit fly
(Drosophila melanogaster)
Insecta betaCop 35
  • 62.06 (n)
  • 69.7 (a)
betaCop 36
  • 67 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea copb-1 36
  • 60 (a)
OneToOne
Y25C1A.5 35
  • 58.32 (n)
  • 62.15 (a)
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_ABL112W 35
  • 51.66 (n)
  • 45.03 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes SEC26 35
  • 52.3 (n)
  • 44.8 (a)
SEC26 36
  • 42 (a)
OneToOne
SEC26 38
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0C15279g 35
  • 52.29 (n)
  • 44.53 (a)
Alicante grape
(Vitis vinifera)
eudicotyledons Vvi.1287 35
soybean
(Glycine max)
eudicotyledons Gma.2341 35
thale cress
(Arabidopsis thaliana)
eudicotyledons AT4G31490 35
  • 55.23 (n)
  • 51.32 (a)
barley
(Hordeum vulgare)
Liliopsida Hv.2355 35
corn
(Zea mays)
Liliopsida Zm.6949 35
rice
(Oryza sativa)
Liliopsida Os.11596 35
Os11g0174000 35
  • 54.1 (n)
  • 50.86 (a)
bread mold
(Neurospora crassa)
Ascomycetes NCU04404 35
  • 52.25 (n)
  • 49.19 (a)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes sec26 35
  • 53.33 (n)
  • 44.54 (a)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.4883 36
  • 72 (a)
OneToOne
Species with no ortholog for COPB1:
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for COPB1 Gene

ENSEMBL:
Gene Tree for COPB1 (if available)
TreeFam:
Gene Tree for COPB1 (if available)

Paralogs for COPB1 Gene

No data available for Paralogs for COPB1 Gene

Variants for COPB1 Gene

Sequence variations from dbSNP and Humsavar for COPB1 Gene

SNP ID Clin Chr 11 pos Sequence Context AA Info Type MAF
rs1031316 -- 14,473,924(-) acaat(A/G)cagtg intron-variant
rs1116739 -- 14,467,636(-) atgtg(C/G)attgc intron-variant
rs1450157 -- 14,499,434(+) CCCAC(C/T)CGCTT intron-variant
rs2034481 -- 14,488,158(+) ATGTA(A/T)GCTCA intron-variant
rs2167159 -- 14,484,284(+) aggac(A/G)tcagt intron-variant

Structural Variations from Database of Genomic Variants (DGV) for COPB1 Gene

Variant ID Type Subtype PubMed ID
esv32960 CNV Loss 17666407

Relevant External Links for COPB1 Gene

HapMap Linkage Disequilibrium report
COPB1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for COPB1 Gene

Disorders for COPB1 Gene

MalaCards: The human disease database

MalaCards: The human disease database. (1) Diseases for COPB1 Gene including...

Search for COPB1 Gene in MalaCards »

(1) University of Copenhagen DISEASES for COPB1 Gene

genes like me logo Genes that share disorders with COPB1: view

No data available for UniProtKB/Swiss-Prot for COPB1 Gene

Publications for COPB1 Gene

  1. Physical interaction of the HIV-1 Nef protein with beta-COP, a component of non-clathrin-coated vesicles essential for membrane traffic. (PMID: 7982906) Benichou S. … Benarous R. (J. Biol. Chem. 1994) 2 3 4
  2. HIV-1 Nef targets MHC-I and CD4 for degradation via a final common beta-COP-dependent pathway in T cells. (PMID: 18725938) Schaefer M.R. … Collins K.L. (PLoS Pathog. 2008) 3 4 23
  3. Identification and characterization of novel isoforms of COP I subunits. (PMID: 11056392) Futatsumori M. … Nakayama K. (J. Biochem. 2000) 3 4
  4. Scyl1, mutated in a recessive form of spinocerebellar neurodegeneration, regulates COPI-mediated retrograde traffic. (PMID: 18556652) Burman J.L. … McPherson P.S. (J. Biol. Chem. 2008) 3 4
  5. The oculocerebrorenal syndrome gene product is a 105-kD protein localized to the Golgi complex. (PMID: 7573041) Olivos-Glander I.M. … Nussbaum R.L. (Am. J. Hum. Genet. 1995) 4 23

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