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Aliases for CALM3 Gene

Aliases for CALM3 Gene

  • Calmodulin 3 2 3 5
  • Phosphorylase Kinase Subunit Delta 2 3
  • Prepro-Calmodulin 3 2 3
  • Calmodulin 3 (Phosphorylase Kinase, Delta) 2
  • Epididymis Secretory Protein Li 72 3
  • Calmodulin-3 3
  • HEL-S-72 3
  • CaMIII 3
  • CALML2 4
  • CAMIII 4
  • PHKD3 3
  • PHKD 3
  • CAM3 4
  • CAMC 4
  • CaM 3

External Ids for CALM3 Gene

Previous GeneCards Identifiers for CALM3 Gene

  • GC19P047748
  • GC19P047495
  • GC19P051780
  • GC19P051797
  • GC19P051798
  • GC19P051799
  • GC19P047105
  • GC19P043529

Summaries for CALM3 Gene

Entrez Gene Summary for CALM3 Gene

  • This gene encodes a member of a family of proteins that binds calcium and functions as a enzymatic co-factor. Activity of this protein is important in the regulation of the cell cycle and cytokinesis. Multiple alternatively spliced transcript variants have been observed at this gene. [provided by RefSeq, Aug 2016]

GeneCards Summary for CALM3 Gene

CALM3 (Calmodulin 3) is a Protein Coding gene. Diseases associated with CALM3 include Long Qt Syndrome 1 and Catecholaminergic Polymorphic Ventricular Tachycardia. Among its related pathways are Antigen activates B Cell Receptor (BCR) leading to generation of second messengers and Apelin signaling pathway. Gene Ontology (GO) annotations related to this gene include calcium ion binding and protein domain specific binding. An important paralog of this gene is CALM2.

UniProtKB/Swiss-Prot for CALM3 Gene

  • Calmodulin mediates the control of a large number of enzymes, ion channels, aquaporins and other proteins through calcium-binding. Among the enzymes to be stimulated by the calmodulin-calcium complex are a number of protein kinases and phosphatases. Together with CCP110 and centrin, is involved in a genetic pathway that regulates the centrosome cycle and progression through cytokinesis.

Gene Wiki entry for CALM3 Gene

Additional gene information for CALM3 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CALM3 Gene

Genomics for CALM3 Gene

GeneHancer (GH) Regulatory Elements for CALM3 Gene

Promoters and enhancers for CALM3 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH19J046600 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 656.9 +1.3 1321 4.6 CLOCK DMAP1 YY1 ZNF213 E2F8 ZNF143 ZNF263 SP3 NFYC ZC3H11A PPP5D1 CALM3 GC19M046598 ENSG00000268423 ZC3H4 CCDC61 ENSG00000268810 FBXO46 ENSG00000269148 CCDC9
GH19J046618 Promoter/Enhancer 2.1 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 5.2 +21.5 21494 8.7 HDGF PKNOX1 ZNF133 YBX1 GLI4 IRF4 GLIS2 ZNF416 ZNF207 ZNF143 PTGIR ZC3H4 ENSG00000268810 BICRA CCDC61 SYMPK ENSG00000268746 QPCTL IRF2BP1 INAFM1
GH19J046859 Promoter/Enhancer 2.3 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 4 +262.4 262360 8.5 MLX FEZF1 DMAP1 YY1 SLC30A9 ZNF213 E2F8 ZNF143 SP3 NFYC ARHGAP35 AP2S1 ZC3H4 CCDC61 BICRA ENSG00000268810 CCDC9 SLC1A5 ENSG00000269124 TMEM160
GH19J046611 Enhancer 1.1 Ensembl ENCODE dbSUPER 5.6 +11.0 11039 1.8 HDGF BCOR ZMYM3 EBF1 FEZF1 RELA ZNF121 POLR2B E2F8 POLR2A ENSG00000269292 SYMPK CCDC61 ZC3H4 CALM3 GC19M046616 PTGIR
GH19J046610 Enhancer 0.6 dbSUPER 6.6 +9.8 9787 0.6 PAF1 HDGF POLR2B SSRP1 POLR2A E2F8 ZBTB33 SUPT5H ENSG00000269292 SYMPK CCDC61 ZC3H4 CALM3 GC19M046616 PTGIR
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around CALM3 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the CALM3 gene promoter:

Genomic Locations for CALM3 Gene

Genomic Locations for CALM3 Gene
9,720 bases
Plus strand

Genomic View for CALM3 Gene

Genes around CALM3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CALM3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CALM3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CALM3 Gene

Proteins for CALM3 Gene

  • Protein details for CALM3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Protein Accession:
    Secondary Accessions:
    • P02593
    • P62158
    • P70667
    • P99014
    • Q13942
    • Q53S29
    • Q61379
    • Q61380
    • Q96HK3

    Protein attributes for CALM3 Gene

    149 amino acids
    Molecular mass:
    16838 Da
    Quaternary structure:
    • Interacts with MYO1C, MYO5A and RRAD. Interacts with MYO10 (By similarity). Interacts with CEP97, CCP110, TTN/titin and SRY (PubMed:9804419, PubMed:12871148, PubMed:15746192, PubMed:16760425, PubMed:17719545). Interacts with USP6; the interaction is calcium dependent (PubMed:16127172). Interacts with CDK5RAP2 (PubMed:20466722). Interacts with SCN5A (By similarity). Interacts with RYR1 (PubMed:18650434). Interacts with FCHO1 (PubMed:22484487). Interacts with MIP in a 1:2 stoichiometry; the interaction with the cytoplasmic domains from two MIP subunits promotes MIP water channel closure (By similarity). Interacts with ORAI1; this may play a role in the regulation of ORAI1-mediated calcium transport (By similarity). Interacts with IQCF1 (By similarity). Interacts with SYT7 (By similarity). Interacts with CEACAM1 (via cytoplasmic domain); this interaction is in a calcium dependent manner and reduces homophilic cell adhesion through dissociation of dimer (By similarity). Interacts with RYR2; regulates RYR2 calcium-release channel activity (PubMed:27516456, PubMed:18650434). Interacts with PCP4; regulates calmodulin calcium-binding (PubMed:27876793). Interacts with the heterotetrameric KCNQ2 and KCNQ3 channel; the interaction is calcium-independent, constitutive and participates to the proper assembly of a functional heterotetrameric M channel (PubMed:27564677).
    • This protein has four functional calcium-binding sites.
    • Sequence=CAA36839.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

neXtProt entry for CALM3 Gene

Post-translational modifications for CALM3 Gene

No data available for DME Specific Peptides for CALM3 Gene

Domains & Families for CALM3 Gene

Gene Families for CALM3 Gene

Human Protein Atlas (HPA):
  • Cancer-related genes
  • Plasma proteins
  • Predicted intracellular proteins
  • Transporters

Protein Domains for CALM3 Gene

Suggested Antigen Peptide Sequences for CALM3 Gene

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the calmodulin family.
  • Belongs to the calmodulin family.
genes like me logo Genes that share domains with CALM3: view

Function for CALM3 Gene

Molecular function for CALM3 Gene

UniProtKB/Swiss-Prot Function:
Calmodulin mediates the control of a large number of enzymes, ion channels, aquaporins and other proteins through calcium-binding. Among the enzymes to be stimulated by the calmodulin-calcium complex are a number of protein kinases and phosphatases. Together with CCP110 and centrin, is involved in a genetic pathway that regulates the centrosome cycle and progression through cytokinesis.
GENATLAS Biochemistry:
calmodulin 3,calcium modulated protein

Phenotypes From GWAS Catalog for CALM3 Gene

Gene Ontology (GO) - Molecular Function for CALM3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005509 calcium ion binding IDA 7607248
GO:0005515 protein binding IPI 3111527
GO:0008179 adenylate cyclase binding IPI 11807546
GO:0016301 kinase activity IEA --
GO:0019901 protein kinase binding IPI 20668654
genes like me logo Genes that share ontologies with CALM3: view
genes like me logo Genes that share phenotypes with CALM3: view

Human Phenotype Ontology for CALM3 Gene

HPO Id HPO Name Alternative Ids Definition Synonyms

Animal Model Products

miRNA for CALM3 Gene

miRTarBase miRNAs that target CALM3

Clone Products

  • Addgene plasmids for CALM3

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targets and HOMER Transcription for CALM3 Gene

Localization for CALM3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CALM3 Gene

Cytoplasm, cytoskeleton, spindle. Cytoplasm, cytoskeleton, spindle pole. Note=Distributed throughout the cell during interphase, but during mitosis becomes dramatically localized to the spindle poles and the spindle microtubules.

Subcellular locations from

Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for CALM3 gene
Compartment Confidence
plasma membrane 3
extracellular 3
cytoskeleton 3
nucleus 3
endoplasmic reticulum 3
cytosol 3
mitochondrion 2
lysosome 2
golgi apparatus 2
endosome 1

Gene Ontology (GO) - Cellular Components for CALM3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000922 spindle pole IDA 16760425
GO:0005634 nucleus HDA 21630459
GO:0005737 cytoplasm TAS 10899953
GO:0005813 centrosome IDA 16760425
GO:0005819 spindle IEA --
genes like me logo Genes that share ontologies with CALM3: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for CALM3 Gene

Pathways & Interactions for CALM3 Gene

SuperPathways for CALM3 Gene

SuperPathway Contained pathways
1 RET signaling
2 DAG and IP3 signaling
3 Post NMDA receptor activation events
4 Development Angiotensin activation of ERK
5 Development Endothelin-1/EDNRA signaling
genes like me logo Genes that share pathways with CALM3: view

SIGNOR curated interactions for CALM3 Gene

Is inactivated by:

Gene Ontology (GO) - Biological Process for CALM3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002027 regulation of heart rate IMP 23040497
GO:0005513 detection of calcium ion IMP 23040497
GO:0007186 G-protein coupled receptor signaling pathway TAS 10899953
GO:0010800 positive regulation of peptidyl-threonine phosphorylation TAS 20668654
GO:0010801 negative regulation of peptidyl-threonine phosphorylation TAS 20668654
genes like me logo Genes that share ontologies with CALM3: view

Drugs & Compounds for CALM3 Gene

(17) Drugs for CALM3 Gene - From: DrugBank

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Calcium Citrate Approved Pharma Target, agonist 0
Calcium Phosphate Approved Pharma Target, agonist 0
Camphor Approved Pharma Activator, Target 11
Metyrapone Approved, Investigational Pharma Target, other/unknown 11-beta hydroxylase inhibitor 13
1-(N-Imidazolyl)-2-Hydroxy-2-(2,3-Dichlorophenyl)Octane Experimental Pharma Target 0
genes like me logo Genes that share compounds with CALM3: view

Transcripts for CALM3 Gene

Unigene Clusters for CALM3 Gene

Calmodulin 3 (phosphorylase kinase, delta):
Representative Sequences:

Clone Products

  • Addgene plasmids for CALM3

Alternative Splicing Database (ASD) splice patterns (SP) for CALM3 Gene

ExUns: 1 ^ 2a · 2b ^ 3a · 3b · 3c · 3d ^ 4a · 4b ^ 5a · 5b · 5c ^ 6 ^ 7 ^ 8 ^ 9
SP1: - - - -
SP2: - - -
SP3: - - - - -
SP4: - - -
SP5: - - -
SP6: - - - -
SP7: - - - - - - -
SP8: - - -

Relevant External Links for CALM3 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for CALM3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for CALM3 Gene

mRNA differential expression in normal tissues according to GTEx for CALM3 Gene

This gene is overexpressed in Brain - Frontal Cortex (BA9) (x4.4) and Brain - Anterior cingulate cortex (BA24) (x4.1).

Protein differential expression in normal tissues from HIPED for CALM3 Gene

This gene is overexpressed in Lavage (13.7), Bone (10.1), and Brain (6.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for CALM3 Gene

Protein tissue co-expression partners for CALM3 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of CALM3 Gene:


SOURCE GeneReport for Unigene cluster for CALM3 Gene:


Evidence on tissue expression from TISSUES for CALM3 Gene

  • Nervous system(5)
  • Kidney(4.6)
  • Lung(4.4)
  • Intestine(4.2)
  • Liver(4)
  • Blood(3.9)
  • Eye(3.9)
  • Muscle(3.9)
  • Heart(3.7)
  • Skin(3.5)
  • Pancreas(3.2)
  • Stomach(2.9)
  • Adrenal gland(2.7)
  • Spleen(2.7)
  • Bone(2.6)
  • Thyroid gland(2.6)

Phenotype-based relationships between genes and organs from Gene ORGANizer for CALM3 Gene

Germ Layers:
  • ectoderm
  • mesoderm
  • cardiovascular
  • nervous
  • skeletal muscle
Head and neck:
  • brain
  • ear
  • head
  • heart
  • heart valve
  • lower limb
  • upper limb
  • blood
  • blood vessel
  • red blood cell
genes like me logo Genes that share expression patterns with CALM3: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA Expression by UniProt/SwissProt for CALM3 Gene

Orthologs for CALM3 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for CALM3 Gene

Organism Taxonomy Gene Similarity Type Details
(Mus musculus)
Mammalia Calm3 34
  • 100 (a)
(Monodelphis domestica)
Mammalia -- 34
  • 100 (a)
(Canis familiaris)
Mammalia CALM3 34
  • 100 (a)
(Pan troglodytes)
Mammalia CALM3 34 33
  • 100 (n)
(Bos Taurus)
Mammalia CALM 34 33
  • 81.88 (n)
(Gallus gallus)
Aves CALM1 33
  • 82.55 (n)
(Anolis carolinensis)
Reptilia -- 34
  • 100 (a)
-- 34
  • 99 (a)
(Danio rerio)
Actinopterygii calm1b 34
  • 100 (a)
calm1a 34
  • 100 (a)
calm2a 34
  • 100 (a)
-- 33
fruit fly
(Drosophila melanogaster)
Insecta Cam 34 35
  • 98 (a)
And 35
  • 65 (a)
CG11165 35
  • 52 (a)
Mlc-c 35
  • 45 (a)
TpnC41C 35
  • 44 (a)
(Caenorhabditis elegans)
Secernentea cmd-1 34 35
  • 98 (a)
cal-6 34
  • 76 (a)
Y73B3A.12 35
  • 74 (a)
cal-1 35
  • 66 (a)
cal-2 35
  • 63 (a)
cal-4 35
  • 58 (a)
cal-3 35
  • 57 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes CMD1 36
thale cress
(Arabidopsis thaliana)
eudicotyledons CAM7 33
  • 78.08 (n)
(Oryza sativa)
Liliopsida Os01g0267900 33
  • 79.42 (n)
Os.10290 33
(Zea mays)
Liliopsida Zm.176 33
sea squirt
(Ciona savignyi)
Ascidiacea CSA.10340 34
  • 97 (a)
bread mold
(Neurospora crassa)
Ascomycetes NCU04120 33
  • 76.06 (n)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes cam1 33
  • 67.59 (n)
Species where no ortholog for CALM3 was found in the sources mined by GeneCards:
  • 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)
  • barley (Hordeum vulgare)
  • 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)
  • 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)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • 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)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)

Evolution for CALM3 Gene

Gene Tree for CALM3 (if available)
Gene Tree for CALM3 (if available)
Evolutionary constrained regions (ECRs) for CALM3: view image

Paralogs for CALM3 Gene Pseudogenes for CALM3 Gene

genes like me logo Genes that share paralogs with CALM3: view

Variants for CALM3 Gene

Sequence variations from dbSNP and Humsavar for CALM3 Gene

SNP ID Clin Chr 19 pos Variation AA Info Type
rs1001080500 likely-benign, Long QT syndrome 1 46,605,847(+) G/A coding_sequence_variant, synonymous_variant
rs1060502607 uncertain-significance, Long QT syndrome 1 46,608,846(+) G/C coding_sequence_variant, missense_variant
rs1060502608 pathogenic, Long QT syndrome 1 46,608,584(+) A/C coding_sequence_variant, missense_variant
rs115265989 benign, Long QT syndrome 1 46,608,570(+) G/A coding_sequence_variant, synonymous_variant
rs146819515 benign, Long QT syndrome 1 46,608,866(+) C/T coding_sequence_variant, synonymous_variant

Structural Variations from Database of Genomic Variants (DGV) for CALM3 Gene

Variant ID Type Subtype PubMed ID
esv3352253 CNV duplication 20981092
nsv833849 CNV loss 17160897
nsv953589 CNV deletion 24416366

Variation tolerance for CALM3 Gene

Residual Variation Intolerance Score: 45% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CALM3 Gene

Human Gene Mutation Database (HGMD)
SNPedia medical, phenotypic, and genealogical associations of SNPs for

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CALM3 Gene

Disorders for CALM3 Gene

MalaCards: The human disease database

(23) MalaCards diseases for CALM3 Gene - From: HGMD, ClinVar, Orphanet, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
long qt syndrome 1
  • lqt1
catecholaminergic polymorphic ventricular tachycardia
  • ventricular tachycardia, catecholaminergic polymorphic, 1
  • singapore ear
external ear disease
  • preauricular cyst
cardiomyopathy, dilated, 1p
  • cmd1p
- elite association - COSMIC cancer census association via MalaCards
Search CALM3 in MalaCards View complete list of genes associated with diseases


  • Note=Catecholaminergic polymorphic ventricular tachycardia (CPVT) is a rare condition caused by mutation in CALM3 that lead to an arrhythmogenic disorder characterized by stress-induced, bidirectional ventricular tachycardia that may degenerate into cardiac arrest and cause sudden death. Patients present with recurrent syncope, seizures, or sudden death after physical activity or emotional stress. {ECO:0000269 PubMed:27516456}.

Additional Disease Information for CALM3

Genetic Association Database
Human Genome Epidemiology Navigator
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with CALM3: view

No data available for Genatlas for CALM3 Gene

Publications for CALM3 Gene

  1. Novel CPVT-Associated Calmodulin Mutation in CALM3 (CALM3-A103V) Activates Arrhythmogenic Ca Waves and Sparks. (PMID: 27516456) Gomez-Hurtado N … Knollmann BC (Circulation. Arrhythmia and electrophysiology 2016) 3 4 58
  2. Crystal structure of calmodulin binding domain of orai1 in complex with Ca2+ calmodulin displays a unique binding mode. (PMID: 23109337) Liu Y … Birnbaumer L (The Journal of biological chemistry 2012) 3 4 58
  3. Distinct and separable activities of the endocytic clathrin-coat components Fcho1/2 and AP-2 in developmental patterning. (PMID: 22484487) Umasankar PK … Traub LM (Nature cell biology 2012) 3 4 58
  4. Conserved motif of CDK5RAP2 mediates its localization to centrosomes and the Golgi complex. (PMID: 20466722) Wang Z … Qi RZ (The Journal of biological chemistry 2010) 3 4 58
  5. Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study. (PMID: 20628086) Bailey SD … DREAM investigators (Diabetes care 2010) 3 44 58

Products for CALM3 Gene