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COPA COPI coat complex subunit alpha [ Homo sapiens (human) ]

Gene ID: 1314, updated on 5-Jul-2020

Summary

Official Symbol
COPAprovided by HGNC
Official Full Name
COPI coat complex subunit alphaprovided by HGNC
Primary source
HGNC:HGNC:2230
See related
Ensembl:ENSG00000122218 MIM:601924
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
AILJK; HEP-COP; alpha-COP
Summary
In eukaryotic cells, protein transport between the endoplasmic reticulum and Golgi compartments is mediated in part by non-clathrin-coated vesicular coat proteins (COPs). Seven coat proteins have been identified, and they represent subunits of a complex known as coatomer. The subunits are designated alpha-COP, beta-COP, beta-prime-COP, gamma-COP, delta-COP, epsilon-COP, and zeta-COP. The alpha-COP, encoded by COPA, shares high sequence similarity with RET1P, the alpha subunit of the coatomer complex in yeast. Also, the N-terminal 25 amino acids of alpha-COP encode the bioactive peptide, xenin, which stimulates exocrine pancreatic secretion and may act as a gastrointestinal hormone. Alternative splicing results in multiple splice forms encoding distinct isoforms. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in thyroid (RPKM 39.8), colon (RPKM 29.3) and 25 other tissues See more
Orthologs

Genomic context

See COPA in Genome Data Viewer
Location:
1q23.2
Exon count:
33
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 1 NC_000001.11 (160288594..160343250, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (160258377..160313354, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene ribosomal protein SA pseudogene 18 Neighboring gene uncharacterized LOC107985219 Neighboring gene peroxisomal biogenesis factor 19 Neighboring gene SUMO1 pseudogene 3 Neighboring gene nicastrin Neighboring gene nescient helix-loop-helix 1

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
Envelope surface glycoprotein gp120 env Tandem affinity purification and mass spectrometry analysis identify subunit alpha of coatomer protein complex (COPA), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into Staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Gag-Pol gag-pol Tandem affinity purification and mass spectrometry analysis identify subunit alpha of coatomer protein complex (COPA), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into Staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Nef nef Tandem affinity purification and mass spectrometry analysis identify subunit alpha of coatomer protein complex (COPA), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into Staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Pr55(Gag) gag Tandem affinity purification and mass spectrometry analysis identify subunit alpha of coatomer protein complex (COPA), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into Staufen1 RNP complexes isolated from HIV-1-expressing cells 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

  • FLJ26320

Gene Ontology Provided by GOA

Function Evidence Code Pubs
hormone activity IEA
Inferred from Electronic Annotation
more info
 
mRNA binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
structural molecule activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
ER to Golgi vesicle-mediated transport IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
ER to Golgi vesicle-mediated transport TAS
Traceable Author Statement
more info
 
intra-Golgi vesicle-mediated transport IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
intracellular protein transport IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
pancreatic juice secretion IDA
Inferred from Direct Assay
more info
PubMed 
protein localization to axon IEA
Inferred from Electronic Annotation
more info
 
protein localization to cell leading edge IEA
Inferred from Electronic Annotation
more info
 
retrograde vesicle-mediated transport, Golgi to ER IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
retrograde vesicle-mediated transport, Golgi to ER TAS
Traceable Author Statement
more info
 
signal transduction IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
COPI vesicle coat IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
COPI vesicle coat IDA
Inferred from Direct Assay
more info
PubMed 
COPI vesicle coat ISS
Inferred from Sequence or Structural Similarity
more info
 
Golgi membrane TAS
Traceable Author Statement
more info
 
cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
cytosol TAS
Traceable Author Statement
more info
 
endoplasmic reticulum membrane TAS
Traceable Author Statement
more info
 
extracellular exosome HDA PubMed 
extracellular space IDA
Inferred from Direct Assay
more info
PubMed 
growth cone IDA
Inferred from Direct Assay
more info
PubMed 
membrane HDA PubMed 
transport vesicle TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
coatomer subunit alpha
Names
alpha coat protein
coatomer protein complex subunit alpha
proxenin
xenin

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.

Genomic

  1. NG_050927.1 RefSeqGene

    Range
    5315..59971
    Download
    GenBank, FASTA, Sequence Viewer (Graphics), LRG_1336

mRNA and Protein(s)

  1. NM_001098398.2NP_001091868.1  coatomer subunit alpha isoform 1

    See identical proteins and their annotated locations for NP_001091868.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AL513282, BC038447, DC308331
    Consensus CDS
    CCDS41424.1
    UniProtKB/Swiss-Prot
    P53621
    Related
    ENSP00000357048.3, ENST00000368069.7
    Conserved Domains (5) summary
    COG2319
    Location:2317
    WD40; WD40 repeat [General function prediction only]
    cd00200
    Location:9318
    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 ...
    pfam04053
    Location:339776
    Coatomer_WDAD; Coatomer WD associated region
    pfam06957
    Location:8251227
    COPI_C; Coatomer (COPI) alpha subunit C-terminus
    sd00039
    Location:1549
    7WD40; WD40 repeat [structural motif]
  2. NM_004371.4NP_004362.2  coatomer subunit alpha isoform 2

    See identical proteins and their annotated locations for NP_004362.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 3' coding region, compared to variant 1, resulting in a shorter protein (isoform 2).
    Source sequence(s)
    AL513282, DC308331, U24105
    Consensus CDS
    CCDS1202.1
    UniProtKB/Swiss-Prot
    P53621
    Related
    ENSP00000241704.7, ENST00000241704.8
    Conserved Domains (5) summary
    COG2319
    Location:2317
    WD40; WD40 repeat [General function prediction only]
    cd00200
    Location:9318
    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 ...
    pfam04053
    Location:339767
    Coatomer_WDAD; Coatomer WD associated region
    pfam06957
    Location:8161218
    COPI_C; Coatomer (COPI) alpha subunit C-terminus
    sd00039
    Location:1549
    7WD40; WD40 repeat [structural motif]

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
    160288594..160343250 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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