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CANX calnexin [ Homo sapiens (human) ]

Gene ID: 821, updated on 9-May-2021

Summary

Official Symbol
CANXprovided by HGNC
Official Full Name
calnexinprovided by HGNC
Primary source
HGNC:HGNC:1473
See related
Ensembl:ENSG00000127022 MIM:114217
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
CNX; P90; IP90
Summary
This gene encodes a member of the calnexin family of molecular chaperones. The encoded protein is a calcium-binding, endoplasmic reticulum (ER)-associated protein that interacts transiently with newly synthesized N-linked glycoproteins, facilitating protein folding and assembly. It may also play a central role in the quality control of protein folding by retaining incorrectly folded protein subunits within the ER for degradation. Alternatively spliced transcript variants encoding different isoforms have been described. [provided by RefSeq, Jun 2018]
Expression
Ubiquitous expression in thyroid (RPKM 267.4), placenta (RPKM 108.5) and 25 other tissues See more
Orthologs
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Genomic context

See CANX in Genome Data Viewer
Location:
5q35.3
Exon count:
20
Annotation release Status Assembly Chr Location
109.20210226 current GRCh38.p13 (GCF_000001405.39) 5 NC_000005.10 (179678646..179731641)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (179125428..179158642)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene chromosome 5 open reading frame 60-like Neighboring gene uncharacterized LOC105377763 Neighboring gene chibby family member 3 Neighboring gene high mobility group box 3 pseudogene 22 Neighboring gene mastermind like transcriptional coactivator 1 Neighboring gene NADH:ubiquinone oxidoreductase subunit A12 pseudogene

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?

Phenotypes

Associated conditions

Description Tests
Insight into genetic determinants of resting heart rate.
GeneReviews: Not available

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env Tandem affinity purification and mass spectrometry analysis identify calnexin (CANX), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
env The signal-sequence-retained form of HIV-1 gp120 is associated with calnexin in the endoplasmic reticulum (ER), while the signal-sequence-cleaved form is disassociated from calnexin and undergoes folding to associate with the CD4 cellular receptor PubMed
Envelope surface glycoprotein gp160, precursor env HIV-1 gp160 interacts with CANX; predicted interaction to be within the endoplasmic reticulum and function as chaperone for endoplasmic reticulum-associated degradation PubMed
env HIV-1 Nef enhances interaction of calnexin with HIV-1 gp160, but inhibits physical interaction between calnexin and ABCA1 PubMed
env HIV-1 gp160 domains V1/V2, C2, and the C-terminus of V3 are required for its binding to calnexin PubMed
env HIV-1 gp160 is identified to have a physical interaction with calnexin (CANX) in human HEK293 and/or Jurkat cell lines by using affinity tagging and purification mass spectrometry analyses PubMed
env The molecular chaperone calnexin binds to newly synthesized HIV-1 gp160; nonglycosylated gp160 is not associated with calnexin, suggesting a requirement for N-linked oligosaccharides on the newly synthesized protein for binding to occur PubMed
Gag-Pol gag-pol Tandem affinity purification and mass spectrometry analysis identify calnexin (CANX), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Nef nef Knockdown of calnexin by siRNA mimics the effects of HIV-1 Nef on ABCA1 downregulation in cells PubMed
nef HIV-1 Nef physically interacts with calnexin and co-localizes with calnexin to ER membranes in cells PubMed
nef Tandem affinity purification and mass spectrometry analysis identify calnexin (CANX), 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 calnexin (CANX), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Tat tat Expression of HIV-1 Tat upregulates the abundance of calnexin (CANX) in the nucleoli of Jurkat T-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

  • FLJ26570

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables RNA binding HDA PubMed 
enables apolipoprotein binding IEA
Inferred from Electronic Annotation
more info
 
enables calcium ion binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables carbohydrate binding IEA
Inferred from Electronic Annotation
more info
 
enables ionotropic glutamate receptor binding IEA
Inferred from Electronic Annotation
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables unfolded protein binding IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
located_in axon IEA
Inferred from Electronic Annotation
more info
 
located_in dendrite cytoplasm IEA
Inferred from Electronic Annotation
more info
 
located_in dendritic spine IEA
Inferred from Electronic Annotation
more info
 
located_in endoplasmic reticulum IDA
Inferred from Direct Assay
more info
PubMed 
located_in endoplasmic reticulum lumen TAS
Traceable Author Statement
more info
 
is_active_in endoplasmic reticulum membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in endoplasmic reticulum membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in endoplasmic reticulum quality control compartment IEA
Inferred from Electronic Annotation
more info
 
located_in extracellular exosome HDA PubMed 
NOT located_in extracellular exosome IDA
Inferred from Direct Assay
more info
PubMed 
located_in glutamatergic synapse IEA
Inferred from Electronic Annotation
more info
 
located_in integral component of lumenal side of endoplasmic reticulum membrane TAS
Traceable Author Statement
more info
 
located_in integral component of postsynaptic membrane IEA
Inferred from Electronic Annotation
more info
 
located_in integral component of presynaptic active zone membrane IEA
Inferred from Electronic Annotation
more info
 
located_in melanosome IEA
Inferred from Electronic Annotation
more info
 
located_in membrane HDA PubMed 
located_in mitochondria-associated endoplasmic reticulum membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in neuronal cell body IEA
Inferred from Electronic Annotation
more info
 
part_of protein-containing complex IEA
Inferred from Electronic Annotation
more info
 
located_in ribosome IEA
Inferred from Electronic Annotation
more info
 
located_in rough endoplasmic reticulum IEA
Inferred from Electronic Annotation
more info
 
located_in smooth endoplasmic reticulum IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
calnexin
Names
epididymis secretory sperm binding protein
major histocompatibility complex class I antigen-binding protein p88

NCBI Reference Sequences (RefSeq)

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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_001024649.2NP_001019820.1  calnexin isoform d precursor

    See identical proteins and their annotated locations for NP_001019820.1

    Status: REVIEWED

    Source sequence(s)
    AC113426, BC042843
    Consensus CDS
    CCDS4447.1
    UniProtKB/Swiss-Prot
    P27824
    Related
    ENSP00000391646.2, ENST00000452673.6
    Conserved Domains (1) summary
    pfam00262
    Location:71440
    Calreticulin; Calreticulin family
  2. NM_001363993.1NP_001350922.1  calnexin isoform a

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) represents the longest transcript and encodes the longest isoform (a).
    Source sequence(s)
    AC113426
    Conserved Domains (1) summary
    pfam00262
    Location:125494
    Calreticulin; Calreticulin family
  3. NM_001363994.1NP_001350923.1  calnexin isoform b

    Status: REVIEWED

    Source sequence(s)
    AC113426, AK294702
    Conserved Domains (1) summary
    pfam00262
    Location:106475
    Calreticulin; Calreticulin family
  4. NM_001363995.1NP_001350924.1  calnexin isoform c precursor

    Status: REVIEWED

    Source sequence(s)
    AC113426
    Related
    ENSP00000506168.1, ENST00000680984.1
    Conserved Domains (1) summary
    pfam00262
    Location:71474
    Calreticulin; Calreticulin family
  5. NM_001363996.1NP_001350925.1  calnexin isoform d precursor

    Status: REVIEWED

    Source sequence(s)
    AC113426
    Related
    ENSP00000424745.2, ENST00000502296.6
    Conserved Domains (1) summary
    pfam00262
    Location:71440
    Calreticulin; Calreticulin family
  6. NM_001363997.1NP_001350926.1  calnexin isoform d precursor

    Status: REVIEWED

    Source sequence(s)
    AC113426
    Related
    ENSP00000506003.1, ENST00000681476.1
    Conserved Domains (1) summary
    pfam00262
    Location:71440
    Calreticulin; Calreticulin family
  7. NM_001363998.1NP_001350927.1  calnexin isoform e precursor

    Status: REVIEWED

    Source sequence(s)
    AC113426
    Related
    ENSP00000505470.1, ENST00000680894.1
    Conserved Domains (1) summary
    pfam00262
    Location:71440
    Calreticulin; Calreticulin family
  8. NM_001363999.1NP_001350928.1  calnexin isoform f precursor

    Status: REVIEWED

    Source sequence(s)
    AC113426
    Related
    ENSP00000506591.1, ENST00000681894.1
    Conserved Domains (1) summary
    pfam00262
    Location:71440
    Calreticulin; Calreticulin family
  9. NM_001364000.1NP_001350929.1  calnexin isoform g

    Status: REVIEWED

    Source sequence(s)
    AC113426, AK304420
    Related
    ENSP00000505129.1, ENST00000680006.1
    Conserved Domains (1) summary
    pfam00262
    Location:6332
    Calreticulin; Calreticulin family
  10. NM_001364001.1NP_001350930.1  calnexin isoform g

    Status: REVIEWED

    Source sequence(s)
    AC113426
    Related
    ENSP00000506051.1, ENST00000680827.1
    Conserved Domains (1) summary
    pfam00262
    Location:6332
    Calreticulin; Calreticulin family
  11. NM_001746.4NP_001737.1  calnexin isoform d precursor

    See identical proteins and their annotated locations for NP_001737.1

    Status: REVIEWED

    Source sequence(s)
    AC113426, BC003552
    Consensus CDS
    CCDS4447.1
    UniProtKB/Swiss-Prot
    P27824
    Related
    ENSP00000247461.4, ENST00000247461.9
    Conserved Domains (1) summary
    pfam00262
    Location:71440
    Calreticulin; Calreticulin family

RNA

  1. NR_157048.1 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AC113426
    Related
    ENST00000681504.1

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210226

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000005.10 Reference GRCh38.p13 Primary Assembly

    Range
    179678646..179731641
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011534665.3XP_011532967.1  calnexin isoform X2

    See identical proteins and their annotated locations for XP_011532967.1

    UniProtKB/Swiss-Prot
    P27824
    Related
    ENSP00000505013.1, ENST00000681674.1
    Conserved Domains (1) summary
    pfam00262
    Location:71440
    Calreticulin; Calreticulin family
  2. XM_011534664.2XP_011532966.1  calnexin isoform X3

    Conserved Domains (1) summary
    pfam00262
    Location:125494
    Calreticulin; Calreticulin family

Reference GRCh38.p13 PATCHES

Genomic

  1. NW_016107298.1 Reference GRCh38.p13 PATCHES

    Range
    463981..497221
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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