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Aliases for COPB1 Gene

Aliases for COPB1 Gene

  • Coatomer Protein Complex Subunit Beta 1 2 3 5
  • Coatomer Protein Complex, Subunit Beta 1 2 3
  • Beta-Coat Protein 3 4
  • Beta-Cop 3 4
  • COPB 3 4
  • Coatomer Protein Complex, Subunit Beta 2
  • 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. Among its related pathways are Golgi-to-ER retrograde transport and Cholesterol and Sphingolipids transport / Transport from Golgi and ER to the apical membrane (normal and CF). GO annotations related to this gene include binding and 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

Enhancers for COPB1 Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around COPB1 on UCSC Golden Path with GeneCards custom track

Promoters for COPB1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around COPB1 on UCSC Golden Path with GeneCards custom track

Genomic Location for COPB1 Gene

Chromosome:
11
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

Genes around COPB1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
COPB1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
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 Lys 107, Lys 128, Lys 633, Lys 771, Lys 913, and Lys 943
  • Modification sites at PhosphoSitePlus

Other Protein References for COPB1 Gene

No data available for DME Specific Peptides for COPB1 Gene

Domains & Families 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 :
  • Contains 6 HEAT repeats.
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 --
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

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets 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 (By similarity). 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 (PubMed:20362547). {ECO:0000250 UniProtKB:P23514, ECO:0000269 PubMed:20362547}.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for COPB1 Gene COMPARTMENTS Subcellular localization image for COPB1 gene
Compartment Confidence
cytosol 5
golgi apparatus 5
plasma membrane 3
cytoskeleton 2
endoplasmic reticulum 1
nucleus 1

Gene Ontology (GO) - Cellular Components for COPB1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005798 Golgi-associated vesicle TAS 1840503
GO:0005829 cytosol TAS --
GO:0005886 plasma membrane IEA --
GO:0016020 membrane IDA 19946888
GO:0030117 membrane coat IEA --
genes like me logo Genes that share ontologies with COPB1: view

Pathways & Interactions 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:0016032 viral process IEA --
GO:0048205 COPI coating of Golgi vesicle TAS --
genes like me logo Genes that share ontologies with COPB1: view

No data available for SIGNOR curated interactions for COPB1 Gene

Drugs & Compounds for COPB1 Gene

(2) Drugs for COPB1 Gene - From: HMDB and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Guanosine triphosphate Experimental Pharma 0

(2) Additional Compounds for COPB1 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
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:

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

Protein differential expression in normal tissues from HIPED for COPB1 Gene

This gene is overexpressed in Salivary gland (9.1) and Lymph node (6.8).

Integrated Proteomics: protein expression in normal tissues and cell lines 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 expression patterns with COPB1: view

Protein tissue co-expression partners for COPB1 Gene

- Elite partner

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , 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
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
chimpanzee
(Pan troglodytes)
Mammalia COPB1 35
  • 99.58 (n)
  • 99.79 (a)
COPB1 36
  • 100 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Copb1 35
  • 91.01 (n)
  • 99.06 (a)
oppossum
(Monodelphis domestica)
Mammalia COPB1 36
  • 98 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia COPB1 36
  • 98 (a)
OneToOne
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)
zebrafish
(Danio rerio)
Actinopterygii -- 35
copb1 35
  • 76.37 (n)
  • 93.59 (a)
copb1 36
  • 94 (a)
OneToOne
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.10929 35
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 Y25C1A.5 35
  • 58.32 (n)
  • 62.15 (a)
copb-1 36
  • 60 (a)
OneToOne
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_ABL112W 35
  • 51.66 (n)
  • 45.03 (a)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0C15279g 35
  • 52.29 (n)
  • 44.53 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes SEC26 35
  • 52.3 (n)
  • 44.8 (a)
SEC26 36
  • 42 (a)
OneToOne
SEC26 38
thale cress
(Arabidopsis thaliana)
eudicotyledons AT4G31490 35
  • 55.23 (n)
  • 51.32 (a)
soybean
(Glycine max)
eudicotyledons Gma.2341 35
Alicante grape
(Vitis vinifera)
eudicotyledons Vvi.1287 35
barley
(Hordeum vulgare)
Liliopsida Hv.2355 35
rice
(Oryza sativa)
Liliopsida Os.11596 35
Os11g0174000 35
  • 54.1 (n)
  • 50.86 (a)
corn
(Zea mays)
Liliopsida Zm.6949 35
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
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

Variation tolerance for COPB1 Gene

Residual Variation Intolerance Score: 24.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.65; 31.63% of all genes are more intolerant (likely to be disease-causing)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Relevant External Links for COPB1 Gene

Disorders for COPB1 Gene

Relevant External Links for COPB1

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
COPB1

No disorders were found for COPB1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas 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 67
  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 23
  3. Screen and identification of proteins interacting with ADAM19 cytoplasmic tail. (PMID: 12463424) Huang L. … Li C. (Mol. Biol. Rep. 2002) 3 23
  4. Ski regulates Hippo and TAZ signaling to suppress breast cancer progression. (PMID: 25670202) Rashidian J. … Luo K. (Sci Signal 2015) 3
  5. Temporal proteomics of NGF-TrkA signaling identifies an inhibitory role for the E3 ligase Cbl-b in neuroblastoma cell differentiation. (PMID: 25921289) Emdal K.B. … Olsen J.V. (Sci Signal 2015) 3

Products for COPB1 Gene

Sources for COPB1 Gene

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