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Aliases for CALCOCO2 Gene

Aliases for CALCOCO2 Gene

  • Calcium Binding And Coiled-Coil Domain 2 2 3
  • Antigen Nuclear Dot 52 KDa Protein 3 4
  • Nuclear Domain 10 Protein NDP52 3 4
  • Nuclear Domain 10 Protein 52 3 4
  • Nuclear Dot Protein 52 3 4
  • NDP52 3 4
  • Calcium-Binding And Coiled-Coil Domain-Containing Protein 2 3

External Ids for CALCOCO2 Gene

Previous GeneCards Identifiers for CALCOCO2 Gene

  • GC17P044264
  • GC17P046908
  • GC17P042276

Summaries for CALCOCO2 Gene

Entrez Gene Summary for CALCOCO2 Gene

  • This gene encodes a coiled-coil domain-containing protein. The encoded protein functions as a receptor for ubiquitin-coated bacteria and plays an important role in innate immunity by mediating macroautophagy. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene. [provided by RefSeq, May 2012]

GeneCards Summary for CALCOCO2 Gene

CALCOCO2 (Calcium Binding And Coiled-Coil Domain 2) is a Protein Coding gene. Among its related pathways are Apoptosis and Autophagy and NF-kappaB Signaling. GO annotations related to this gene include protein homodimerization activity. An important paralog of this gene is TAX1BP1.

UniProtKB/Swiss-Prot for CALCOCO2 Gene

  • May play a role in ruffle formation and actin cytoskeleton organization. Seems to negatively regulate constitutive secretion.

Gene Wiki entry for CALCOCO2 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CALCOCO2 Gene

Genomics for CALCOCO2 Gene

Regulatory Elements for CALCOCO2 Gene

Epigenetics Products

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

Genomic Location for CALCOCO2 Gene

Start:
48,830,988 bp from pter
End:
48,866,522 bp from pter
Size:
35,535 bases
Orientation:
Plus strand

Genomic View for CALCOCO2 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for CALCOCO2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CALCOCO2 Gene

Proteins for CALCOCO2 Gene

  • Protein details for CALCOCO2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q13137-CACO2_HUMAN
    Recommended name:
    Calcium-binding and coiled-coil domain-containing protein 2
    Protein Accession:
    Q13137
    Secondary Accessions:
    • B2RBT0
    • B4DDC4
    • B4DDT4
    • B4DP36
    • B4E0C0
    • E7ENK0
    • E7ETP5
    • E9PBE5
    • Q53FQ5
    • Q53HB5
    • Q6IBN9
    • Q9BTF7

    Protein attributes for CALCOCO2 Gene

    Size:
    446 amino acids
    Molecular mass:
    52254 Da
    Quaternary structure:
    • Part of a complex consisting of CALCOCO2, TAX1BP1 and MYO6. Interacts with GEMIN4.
    Miscellaneous:
    • According to PubMed:7540613, HSV-1 infection removes CALCOCO2 from the nucleus, however, it remains faintly in areas shown to be domains, containing splicing components. Treatment with IFNB1/IFN-beta and IFNG/IFN-gamma show an increase in number and size of CALCOCO2-specific dots and partial redistribution to the cytoplasm. According to PubMed:9230084, IFNG/IFN-gamma increases gene expression only slightly and IFNB does not increase expression

    Three dimensional structures from OCA and Proteopedia for CALCOCO2 Gene

    Alternative splice isoforms for CALCOCO2 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CALCOCO2 Gene

Proteomics data for CALCOCO2 Gene at MOPED

Post-translational modifications for CALCOCO2 Gene

  • Ubiquitination at Lys299, Lys312, Lys339, and Lys395
  • Modification sites at PhosphoSitePlus

Antibody Products

  • Cell Signaling Technology (CST) Antibodies for CALCOCO2 (CALCOCO2)

No data available for DME Specific Peptides for CALCOCO2 Gene

Domains for CALCOCO2 Gene

Protein Domains for CALCOCO2 Gene

Suggested Antigen Peptide Sequences for CALCOCO2 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with CALCOCO2: view

No data available for Gene Families and UniProtKB/Swiss-Prot for CALCOCO2 Gene

Function for CALCOCO2 Gene

Molecular function for CALCOCO2 Gene

UniProtKB/Swiss-Prot Function: May play a role in ruffle formation and actin cytoskeleton organization. Seems to negatively regulate constitutive secretion.

Gene Ontology (GO) - Molecular Function for CALCOCO2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 12869526
GO:0042803 protein homodimerization activity IPI 9230084
genes like me logo Genes that share ontologies with CALCOCO2: view

Phenotypes for CALCOCO2 Gene

genes like me logo Genes that share phenotypes with CALCOCO2: view

Animal Model Products

CRISPR Products

miRNA for CALCOCO2 Gene

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targeting and HOMER Transcription for CALCOCO2 Gene

Localization for CALCOCO2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CALCOCO2 Gene

Cytoplasm, perinuclear region. Golgi apparatus. Cytoplasm, cytoskeleton. Note=According to PubMed:7540613, localizes to nuclear dots. According to PubMed:9230084 and PubMed:12869526, it is not a nuclear dot-associated protein but localizes predominantly in the cytoplasm with a coarse-grained distribution preferentially close to the nucleus.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for CALCOCO2 Gene COMPARTMENTS Subcellular localization image for CALCOCO2 gene
Compartment Confidence
cytoskeleton 5
golgi apparatus 5
nucleus 4
cytosol 2
lysosome 2
vacuole 2
extracellular 1
plasma membrane 1

Gene Ontology (GO) - Cellular Components for CALCOCO2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus TAS 7540613
GO:0005737 cytoplasm IDA --
GO:0005794 Golgi apparatus IEA --
GO:0005856 cytoskeleton IEA --
GO:0016020 membrane IDA 19946888
genes like me logo Genes that share ontologies with CALCOCO2: view

Pathways for CALCOCO2 Gene

genes like me logo Genes that share pathways with CALCOCO2: view

Pathways by source for CALCOCO2 Gene

2 Cell Signaling Technology pathways for CALCOCO2 Gene

Gene Ontology (GO) - Biological Process for CALCOCO2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016032 viral process TAS 7540613
GO:0034341 response to interferon-gamma IDA 9230084
genes like me logo Genes that share ontologies with CALCOCO2: view

Transcripts for CALCOCO2 Gene

Unigene Clusters for CALCOCO2 Gene

Calcium binding and coiled-coil domain 2:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for CALCOCO2

Primer Products

  • QuantiTect SYBR Green Assays in human,mouse,rat
  • Pre-validated RT² qPCR Primer Assay in human,mouse,rat
  • QuantiFast Probe-based Assays in human,mouse,rat

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for CALCOCO2 Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3a · 3b ^ 4 ^ 5 ^ 6 ^ 7a · 7b · 7c · 7d · 7e ^ 8a · 8b ^ 9a · 9b ^ 10a · 10b ^ 11a · 11b · 11c · 11d ^ 12a · 12b ^
SP1: - - - - - - - - -
SP2: - - - -
SP3: - - - - - - - -
SP4: - - - -
SP5: - -
SP6: - -
SP7: - - - -
SP8: - -
SP9: -
SP10: -
SP11: - - - -

ExUns: 13 ^ 14a · 14b ^ 15
SP1:
SP2:
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11:

Relevant External Links for CALCOCO2 Gene

GeneLoc Exon Structure for
CALCOCO2
ECgene alternative splicing isoforms for
CALCOCO2

Expression for CALCOCO2 Gene

mRNA expression in normal human tissues for CALCOCO2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for CALCOCO2 Gene

SOURCE GeneReport for Unigene cluster for CALCOCO2 Gene Hs.514920

mRNA Expression by UniProt/SwissProt for CALCOCO2 Gene

Q13137-CACO2_HUMAN
Tissue specificity: Expressed in all tissues tested with highest expression in skeletal muscle and lowest in brain.
genes like me logo Genes that share expressions with CALCOCO2: view

In Situ Assay Products

No data available for mRNA differential expression in normal tissues for CALCOCO2 Gene

Orthologs for CALCOCO2 Gene

This gene was present in the common ancestor of chordates.

Orthologs for CALCOCO2 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CALCOCO2 35
  • 99.48 (n)
  • 98.88 (a)
CALCOCO2 36
  • 99 (a)
OneToOne
cow
(Bos Taurus)
Mammalia CALCOCO2 35
  • 89.16 (n)
  • 83.86 (a)
CALCOCO2 36
  • 83 (a)
OneToOne
dog
(Canis familiaris)
Mammalia CALCOCO2 35
  • 88.94 (n)
  • 84.08 (a)
CALCOCO2 36
  • 81 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Calcoco2 16
Calcoco2 36
  • 40 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia CALCOCO2 36
  • 78 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia CALCOCO2 36
  • 42 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Calcoco2 35
  • 70.14 (n)
  • 52.15 (a)
chicken
(Gallus gallus)
Aves CALCOCO2 35
  • 62.12 (n)
  • 52.05 (a)
CALCOCO2 36
  • 40 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia CALCOCO2 36
  • 42 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia calcoco2 35
  • 52.03 (n)
  • 38.46 (a)
zebrafish
(Danio rerio)
Actinopterygii calcoco2 35
  • 47.95 (n)
  • 34.22 (a)
calcoco2 36
  • 22 (a)
OneToOne
sea squirt
(Ciona savignyi)
Ascidiacea CSA.823 36
  • 17 (a)
OneToMany
Species with no ortholog for CALCOCO2:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for CALCOCO2 Gene

ENSEMBL:
Gene Tree for CALCOCO2 (if available)
TreeFam:
Gene Tree for CALCOCO2 (if available)

Paralogs for CALCOCO2 Gene

Paralogs for CALCOCO2 Gene

genes like me logo Genes that share paralogs with CALCOCO2: view

Variants for CALCOCO2 Gene

Sequence variations from dbSNP and Humsavar for CALCOCO2 Gene

SNP ID Clin Chr 17 pos Sequence Context AA Info Type MAF
rs10278 - 48,862,296(+) CTTCC(C/G)CCAGC reference, missense
rs11434 -- 48,863,883(+) CTTCT(A/G)TTTTG utr-variant-3-prime
rs471975 -- 48,843,825(+) GCCAC(A/G)TGTGG intron-variant
rs481636 -- 48,859,134(-) AAGTT(C/T)TTAGG intron-variant
rs484632 -- 48,830,656(+) gcacc(A/G)tggtt upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for CALCOCO2 Gene

Variant ID Type Subtype PubMed ID
esv29639 CNV Loss 19812545
nsv482969 CNV Loss 15286789

Relevant External Links for CALCOCO2 Gene

HapMap Linkage Disequilibrium report
CALCOCO2
Human Gene Mutation Database (HGMD)
CALCOCO2

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CALCOCO2 Gene

Disorders for CALCOCO2 Gene

Relevant External Links for CALCOCO2

Genetic Association Database (GAD)
CALCOCO2
genes like me logo Genes that share disorders with CALCOCO2: view

No data available for UniProtKB/Swiss-Prot for CALCOCO2 Gene

Publications for CALCOCO2 Gene

  1. Molecular characterization of NDP52, a novel protein of the nuclear domain 10, which is redistributed upon virus infection and interferon treatment. (PMID: 7540613) Korioth F. … Frey J. (J. Cell Biol. 1995) 2 3 4
  2. Cellular localization, expression, and structure of the nuclear dot protein 52. (PMID: 9230084) Sternsdorf T. … Will H. (J. Cell Biol. 1997) 3 4
  3. HCC-associated protein HCAP1, a variant of GEMIN4, interacts with zinc-finger proteins. (PMID: 12869526) Di Y. … Gu J. (J. Biochem. 2003) 3 4
  4. T6BP and NDP52 are myosin VI binding partners with potential roles in cytokine signalling and cell adhesion. (PMID: 17635994) Morriswood B. … Buss F. (J. Cell Sci. 2007) 3 4
  5. Toward a confocal subcellular atlas of the human proteome. (PMID: 18029348) Barbe L. … Andersson-Svahn H. (Mol. Cell Proteomics 2008) 3

Products for CALCOCO2 Gene

  • antibodies-online proteins for CALCOCO2
  • antibodies-online antibodies for CALCOCO2
  • antibodies-online kits for CALCOCO2

Sources for CALCOCO2 Gene

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