CALM3

UniProt ID: P0DP25
Organism: Homo sapiens
Review Status: COMPLETE
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Gene Description

CALM3 encodes one of the three human calmodulin genes and produces the same 149 aa calmodulin protein encoded by CALM1 and CALM2. The protein is a ubiquitous calcium sensor with four EF-hand motifs that binds calcium and regulates ion channels, protein kinases, protein phosphatases, and cell-division machinery. For this review, annotations were interpreted at the protein level: core calcium-sensing functions transfer well across the calmodulin family because the encoded protein sequence is identical, whereas tissue-specific neuronal, cardiac, and subcellular-context terms are kept as non-core when they likely reflect expression or recruitment differences rather than a CALM3-specific biochemical difference. CALM3 variants contribute to calmodulinopathy, including CPVT and long-QT phenotypes driven by dysregulated calcium-channel signaling.

Existing Annotations Review

GO Term Evidence Action Reason
GO:0005737 cytoplasm
IBA
GO_REF:0000033
ACCEPT
Summary: Primary cytoplasmic localization
Reason: Core calmodulin function or localization
GO:0005509 calcium ion binding
IBA
GO_REF:0000033
ACCEPT
Summary: Core calcium-binding function through 4 EF-hand domains
Reason: Core calmodulin function or localization
GO:0005634 nucleus
IBA
GO_REF:0000033
KEEP AS NON CORE
Summary: Nuclear localization in some contexts
Reason: Tissue-specific or specialized function
GO:0010880 regulation of release of sequestered calcium ion into cytosol by sarcoplasmic reticulum
IBA
GO_REF:0000033
ACCEPT
Summary: Regulates RyR-mediated calcium release from SR
Reason: Core calmodulin function or localization
GO:0005513 detection of calcium ion
IBA
GO_REF:0000033
ACCEPT
Summary: Core calcium sensing function
Reason: Core calmodulin function or localization
GO:0097720 calcineurin-mediated signaling
IBA
GO_REF:0000033
ACCEPT
Summary: Activates calcineurin phosphatase for NFAT signaling
Reason: Core calmodulin function or localization
GO:0005813 centrosome
IBA
GO_REF:0000033
ACCEPT
Summary: Centrosomal localization for cell division
Reason: Core calmodulin function or localization
GO:0043209 myelin sheath
IBA
GO_REF:0000033
KEEP AS NON CORE
Summary: Myelin sheath localization
Reason: Tissue-specific or specialized function
GO:0000922 spindle pole
IEA
GO_REF:0000120
ACCEPT
Summary: Spindle pole localization during mitosis
Reason: Core calmodulin function or localization
GO:0002027 regulation of heart rate
IEA
GO_REF:0000117
ACCEPT
Summary: Heart rate regulation through ion channel modulation
Reason: Core calmodulin function or localization
GO:0005246 calcium channel regulator activity
IEA
GO_REF:0000117
ACCEPT
Summary: Regulates L-type calcium channels and ryanodine receptors
Reason: Core calmodulin function or localization
GO:0005509 calcium ion binding
IEA
GO_REF:0000120
ACCEPT
Summary: Core calcium-binding function through 4 EF-hand domains
Reason: Core calmodulin function or localization
GO:0005513 detection of calcium ion
IEA
GO_REF:0000117
ACCEPT
Summary: Core calcium sensing function
Reason: Core calmodulin function or localization
GO:0005813 centrosome
IEA
GO_REF:0000120
ACCEPT
Summary: Centrosomal localization for cell division
Reason: Core calmodulin function or localization
GO:0005819 spindle
IEA
GO_REF:0000044
ACCEPT
Summary: Spindle localization for cell division
Reason: Core calmodulin function or localization
GO:0005876 spindle microtubule
IEA
GO_REF:0000117
ACCEPT
Summary: Spindle microtubule association
Reason: Core calmodulin function or localization
GO:0010856 adenylate cyclase activator activity
IEA
GO_REF:0000117
ACCEPT
Summary: Activates adenylate cyclase for cAMP signaling
Reason: Core calmodulin function or localization
GO:0010881 regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion
IEA
GO_REF:0000117
ACCEPT
Summary: Cardiac calcium-induced calcium release regulation
Reason: Core calmodulin function or localization
GO:0019901 protein kinase binding
IEA
GO_REF:0000117
ACCEPT
Summary: Binds CaMK family and other protein kinases
Reason: Core calmodulin function or localization
GO:0030017 sarcomere
IEA
GO_REF:0000117
KEEP AS NON CORE
Summary: Sarcomere localization in muscle
Reason: Tissue-specific or specialized function
GO:0031432 titin binding
IEA
GO_REF:0000117
KEEP AS NON CORE
Summary: Titin binding in muscle
Reason: Tissue-specific or specialized function
GO:0032465 regulation of cytokinesis
IEA
GO_REF:0000117
ACCEPT
Summary: Cytokinesis regulation with CP110 and centrin
Reason: Core calmodulin function or localization
GO:0034704 calcium channel complex
IEA
GO_REF:0000117
ACCEPT
Summary: Component of calcium channel complexes
Reason: Core calmodulin function or localization
GO:0043539 protein serine/threonine kinase activator activity
IEA
GO_REF:0000117
ACCEPT
Summary: Activates CaMKII and other calcium-dependent kinases
Reason: Core calmodulin function or localization
GO:0060291 long-term synaptic potentiation
IEA
GO_REF:0000117
KEEP AS NON CORE
Summary: Long-term synaptic potentiation reflects specialized neuronal signaling.
Reason: Calmodulin is important for synaptic plasticity, but this is a tissue-specific downstream context and should not be used to distinguish CALM3 from CALM1 or CALM2.
GO:0072542 protein phosphatase activator activity
IEA
GO_REF:0000117
ACCEPT
Summary: Activates calcineurin (PP2B) phosphatase
Reason: Core calmodulin function or localization
GO:0097720 calcineurin-mediated signaling
IEA
GO_REF:0000117
ACCEPT
Summary: Activates calcineurin phosphatase for NFAT signaling
Reason: Core calmodulin function or localization
GO:1901844 regulation of cell communication by electrical coupling involved in cardiac conduction
IEA
GO_REF:0000117
KEEP AS NON CORE
Summary: Cardiac electrical coupling regulation
Reason: Tissue-specific or specialized function
GO:0005515 protein binding
IPI
PMID:35271311
OpenCell: Endogenous tagging for the cartography of human ce...
MARK AS OVER ANNOTATED
Summary: Too general - more specific terms available
Reason: Too general - more specific terms are available
GO:0000785 chromatin
IEA
GO_REF:0000120
KEEP AS NON CORE
Summary: Chromatin association
Reason: Tissue-specific or specialized function
GO:0001975 response to amphetamine
IEA
GO_REF:0000120
KEEP AS NON CORE
Summary: Amphetamine response in neurons
Reason: Tissue-specific or specialized function
GO:0005634 nucleus
IEA
GO_REF:0000120
KEEP AS NON CORE
Summary: Nuclear localization in some contexts
Reason: Tissue-specific or specialized function
GO:0008076 voltage-gated potassium channel complex
IEA
GO_REF:0000120
KEEP AS NON CORE
Summary: KCNQ channel complex component
Reason: Tissue-specific or specialized function
GO:0016020 membrane
IEA
GO_REF:0000107
KEEP AS NON CORE
Summary: General membrane localization is plausible but not a core assignment.
Reason: Calmodulin is recruited to membrane-associated channels and receptors, but broad membrane localization is secondary to its core soluble calcium-sensor role.
GO:0019904 protein domain specific binding
IEA
GO_REF:0000120
KEEP AS NON CORE
Summary: IQ motif and calmodulin-binding domain recognition
Reason: Tissue-specific or specialized function
GO:0030235 nitric-oxide synthase regulator activity
IEA
GO_REF:0000120
ACCEPT
Summary: Regulates NOS enzymes
Reason: Core calmodulin function or localization
GO:0030426 growth cone
IEA
GO_REF:0000120
KEEP AS NON CORE
Summary: Neuronal growth cone localization
Reason: Tissue-specific or specialized function
GO:0030672 synaptic vesicle membrane
IEA
GO_REF:0000120
KEEP AS NON CORE
Summary: Synaptic vesicle localization
Reason: Tissue-specific or specialized function
GO:0031800 type 3 metabotropic glutamate receptor binding
IEA
GO_REF:0000120
KEEP AS NON CORE
Summary: mGluR3 binding in neurons
Reason: Tissue-specific or specialized function
GO:0031966 mitochondrial membrane
IEA
GO_REF:0000120
KEEP AS NON CORE
Summary: Mitochondrial membrane association
Reason: Tissue-specific or specialized function
GO:0031982 vesicle
IEA
GO_REF:0000107
KEEP AS NON CORE
Summary: Vesicle association is observed in specialized trafficking or exosome contexts.
Reason: Vesicle localization reflects specific cell-type and trafficking contexts rather than a defining family-wide localization for the identical calmodulin protein.
GO:0043209 myelin sheath
IEA
GO_REF:0000120
KEEP AS NON CORE
Summary: Myelin sheath localization
Reason: Tissue-specific or specialized function
GO:0043548 phosphatidylinositol 3-kinase binding
IEA
GO_REF:0000120
KEEP AS NON CORE
Summary: PI3K binding for signaling
Reason: Tissue-specific or specialized function
GO:0044305 calyx of Held
IEA
GO_REF:0000120
KEEP AS NON CORE
Summary: Calyx of Held synapse localization
Reason: Tissue-specific or specialized function
GO:0044325 transmembrane transporter binding
IEA
GO_REF:0000120
ACCEPT
Summary: Binds ion channels and transporters
Reason: Core calmodulin function or localization
GO:0048306 calcium-dependent protein binding
IEA
GO_REF:0000120
ACCEPT
Summary: Calcium-dependent target protein binding
Reason: Core calmodulin function or localization
GO:0050998 nitric-oxide synthase binding
IEA
GO_REF:0000120
ACCEPT
Summary: Binds NOS for activation
Reason: Core calmodulin function or localization
GO:0051412 response to corticosterone
IEA
GO_REF:0000120
KEEP AS NON CORE
Summary: Corticosterone response
Reason: Tissue-specific or specialized function
GO:0097225 sperm midpiece
IEA
GO_REF:0000107
KEEP AS NON CORE
Summary: Sperm midpiece localization
Reason: Tissue-specific or specialized function
GO:0098685 Schaffer collateral - CA1 synapse
IEA
GO_REF:0000120
KEEP AS NON CORE
Summary: Hippocampal synapse localization
Reason: Tissue-specific or specialized function
GO:0099523 presynaptic cytosol
IEA
GO_REF:0000120
KEEP AS NON CORE
Summary: Presynaptic localization
Reason: Tissue-specific or specialized function
GO:0099524 postsynaptic cytosol
IEA
GO_REF:0000120
KEEP AS NON CORE
Summary: Postsynaptic localization
Reason: Tissue-specific or specialized function
GO:0140238 presynaptic endocytosis
IEA
GO_REF:0000120
KEEP AS NON CORE
Summary: Presynaptic vesicle endocytosis
Reason: Tissue-specific or specialized function
GO:0141110 transporter inhibitor activity
IEA
GO_REF:0000107
MARK AS OVER ANNOTATED
Summary: This term is too specific for the available transfer evidence.
Reason: Calmodulin modulates multiple transporters and channels, but a generic transporter inhibitor term overstates a context-dependent regulatory effect.
GO:1900242 regulation of synaptic vesicle endocytosis
IEA
GO_REF:0000120
KEEP AS NON CORE
Summary: Synaptic vesicle endocytosis regulation
Reason: Tissue-specific or specialized function
GO:1905913 negative regulation of calcium ion export across plasma membrane
IEA
GO_REF:0000107
KEEP AS NON CORE
Summary: Negative regulation of calcium export is plausible in channel-regulatory contexts but not a core assignment.
Reason: This term reflects a specific downstream physiological setting of calmodulin-dependent channel regulation rather than a defining family-wide process.
GO:2000300 regulation of synaptic vesicle exocytosis
IEA
GO_REF:0000120
KEEP AS NON CORE
Summary: Synaptic vesicle exocytosis regulation
Reason: Tissue-specific or specialized function
GO:0005829 cytosol
TAS
Reactome:R-HSA-9956602
ACCEPT
Summary: Soluble cytosolic protein
Reason: Core calmodulin function or localization
GO:0005829 cytosol
TAS
Reactome:R-HSA-9956624
ACCEPT
Summary: Soluble cytosolic protein
Reason: Core calmodulin function or localization
GO:0005829 cytosol
TAS
Reactome:R-HSA-9956667
ACCEPT
Summary: Soluble cytosolic protein
Reason: Core calmodulin function or localization
GO:0010881 regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion
IDA
PMID:23040497
Mutations in calmodulin cause ventricular tachycardia and su...
ACCEPT
Summary: Cardiac calcium-induced calcium release regulation
Reason: Core calmodulin function or localization
GO:1901844 regulation of cell communication by electrical coupling involved in cardiac conduction
IDA
PMID:23040497
Mutations in calmodulin cause ventricular tachycardia and su...
KEEP AS NON CORE
Summary: Cardiac electrical coupling regulation
Reason: Tissue-specific or specialized function
GO:0005246 calcium channel regulator activity
IDA
PMID:20226167
Defective calmodulin binding to the cardiac ryanodine recept...
ACCEPT
Summary: Regulates L-type calcium channels and ryanodine receptors
Reason: Core calmodulin function or localization
GO:0010881 regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion
IDA
PMID:20226167
Defective calmodulin binding to the cardiac ryanodine recept...
ACCEPT
Summary: Cardiac calcium-induced calcium release regulation
Reason: Core calmodulin function or localization
GO:0060291 long-term synaptic potentiation
TAS
PMID:20668654
Structure of the CaMKIIdelta/calmodulin complex reveals the ...
KEEP AS NON CORE
Summary: Long-term synaptic potentiation reflects specialized neuronal signaling.
Reason: Calmodulin is important for synaptic plasticity, but this is a tissue-specific downstream context and should not be used to distinguish CALM3 from CALM1 or CALM2.
GO:0097720 calcineurin-mediated signaling
IDA
PMID:8631777
Blocking the Ca2+-induced conformational transitions in calm...
ACCEPT
Summary: Activates calcineurin phosphatase for NFAT signaling
Reason: Core calmodulin function or localization
GO:0005515 protein binding
IPI
PMID:11984006
The Chediak-Higashi protein interacts with SNARE complex and...
MARK AS OVER ANNOTATED
Summary: Too general - more specific terms available
Reason: Too general - more specific terms are available
GO:0005515 protein binding
IPI
PMID:19855925
Structural analysis of the complex between calmodulin and fu...
MARK AS OVER ANNOTATED
Summary: Too general - more specific terms available
Reason: Too general - more specific terms are available
GO:0005509 calcium ion binding
IDA
PMID:35568036
A family of conserved bacterial virulence factors dampens in...
ACCEPT
Summary: Core calcium-binding function through 4 EF-hand domains
Reason: Core calmodulin function or localization
GO:0043539 protein serine/threonine kinase activator activity
IDA
PMID:35568036
A family of conserved bacterial virulence factors dampens in...
ACCEPT
Summary: Activates CaMKII and other calcium-dependent kinases
Reason: Core calmodulin function or localization
GO:0005509 calcium ion binding
IDA
PMID:31454269
Genetic Mosaicism in Calmodulinopathy.
ACCEPT
Summary: Core calcium-binding function through 4 EF-hand domains
Reason: Core calmodulin function or localization
GO:0098901 regulation of cardiac muscle cell action potential
IMP
PMID:31454269
Genetic Mosaicism in Calmodulinopathy.
KEEP AS NON CORE
Summary: Cardiac action potential regulation
Reason: Tissue-specific or specialized function
GO:1901842 negative regulation of high voltage-gated calcium channel activity
IMP
PMID:31454269
Genetic Mosaicism in Calmodulinopathy.
KEEP AS NON CORE
Summary: Calcium channel activity regulation
Reason: Tissue-specific or specialized function
GO:0010856 adenylate cyclase activator activity
IDA
PMID:11807546
Structural basis for the activation of anthrax adenylyl cycl...
ACCEPT
Summary: Activates adenylate cyclase for cAMP signaling
Reason: Core calmodulin function or localization
GO:0034704 calcium channel complex
IDA
PMID:23040497
Mutations in calmodulin cause ventricular tachycardia and su...
ACCEPT
Summary: Component of calcium channel complexes
Reason: Core calmodulin function or localization
GO:0000922 spindle pole
IDA
PMID:16760425
CP110 cooperates with two calcium-binding proteins to regula...
ACCEPT
Summary: Spindle pole localization during mitosis
Reason: Core calmodulin function or localization
GO:0005515 protein binding
IPI
PMID:10692436
Ca(2+)-dependent and Ca(2+)-independent calmodulin binding s...
MARK AS OVER ANNOTATED
Summary: Too general - more specific terms available
Reason: Too general - more specific terms are available
GO:0005515 protein binding
IPI
PMID:15140941
Ca2+-binding protein-1 facilitates and forms a postsynaptic ...
MARK AS OVER ANNOTATED
Summary: Too general - more specific terms available
Reason: Too general - more specific terms are available
GO:0005515 protein binding
IPI
PMID:15632291
Myristoyl moiety of HIV Nef is involved in regulation of the...
MARK AS OVER ANNOTATED
Summary: Too general - more specific terms available
Reason: Too general - more specific terms are available
GO:0005515 protein binding
IPI
PMID:16760425
CP110 cooperates with two calcium-binding proteins to regula...
MARK AS OVER ANNOTATED
Summary: Too general - more specific terms available
Reason: Too general - more specific terms are available
GO:0005515 protein binding
IPI
PMID:21299499
IQ-motif selectivity in human IQGAP2 and IQGAP3: binding of ...
MARK AS OVER ANNOTATED
Summary: Too general - more specific terms available
Reason: Too general - more specific terms are available
GO:0005515 protein binding
IPI
PMID:3111527
Comparison of S100b protein with calmodulin: interactions wi...
MARK AS OVER ANNOTATED
Summary: Too general - more specific terms available
Reason: Too general - more specific terms are available
GO:0005634 nucleus
HDA
PMID:21630459
Proteomic characterization of the human sperm nucleus.
KEEP AS NON CORE
Summary: Nuclear localization in some contexts
Reason: Tissue-specific or specialized function
GO:0005737 cytoplasm
TAS
PMID:10899953
Calmodulin regulation of basal and agonist-stimulated G prot...
ACCEPT
Summary: Primary cytoplasmic localization
Reason: Core calmodulin function or localization
GO:0005813 centrosome
IDA
PMID:16760425
CP110 cooperates with two calcium-binding proteins to regula...
ACCEPT
Summary: Centrosomal localization for cell division
Reason: Core calmodulin function or localization
GO:0005876 spindle microtubule
IDA
PMID:16760425
CP110 cooperates with two calcium-binding proteins to regula...
ACCEPT
Summary: Spindle microtubule association
Reason: Core calmodulin function or localization
GO:0005886 plasma membrane
TAS
PMID:10899953
Calmodulin regulation of basal and agonist-stimulated G prot...
KEEP AS NON CORE
Summary: Plasma membrane association occurs in specific signaling contexts.
Reason: Calmodulin can associate with membrane-proximal receptor and channel complexes, but plasma membrane residence is context dependent rather than a defining family-wide localization.
GO:0007186 G protein-coupled receptor signaling pathway
TAS
PMID:10899953
Calmodulin regulation of basal and agonist-stimulated G prot...
KEEP AS NON CORE
Summary: Calmodulin modulates selected GPCR signaling pathways in specialized contexts.
Reason: This captures a real signaling interaction, but the evidence is receptor- and context-specific and should not be treated as a defining CALM3 function relative to the other calmodulin paralogs.
GO:0021762 substantia nigra development
HEP
PMID:22926577
Quantitative proteomic analysis of human substantia nigra in...
REMOVE
Summary: Proteomic detection in substantia nigra does not justify a developmental annotation.
Reason: The cited evidence is expression/proteomics in diseased tissue, not functional evidence for substantia nigra development.
GO:0031982 vesicle
HDA
PMID:19190083
Characterization of exosome-like vesicles released from huma...
KEEP AS NON CORE
Summary: Vesicle association is observed in specialized trafficking or exosome contexts.
Reason: Vesicle localization reflects specific cell-type and trafficking contexts rather than a defining family-wide localization for the identical calmodulin protein.
GO:0032465 regulation of cytokinesis
IMP
PMID:16760425
CP110 cooperates with two calcium-binding proteins to regula...
ACCEPT
Summary: Cytokinesis regulation with CP110 and centrin
Reason: Core calmodulin function or localization
GO:0005509 calcium ion binding
IDA
PMID:11807546
Structural basis for the activation of anthrax adenylyl cycl...
ACCEPT
Summary: Core calcium-binding function through 4 EF-hand domains
Reason: Core calmodulin function or localization
GO:0008179 adenylate cyclase binding
IPI
PMID:11807546
Structural basis for the activation of anthrax adenylyl cycl...
KEEP AS NON CORE
Summary: Direct adenylate cyclase binding is supported, but mainly in host-pathogen interaction studies.
Reason: The interaction is real biochemistry for calmodulin, but the cited evidence centers on bacterial edema-factor activation rather than a defining endogenous CALM3 role.
GO:0032991 protein-containing complex
IDA
PMID:19855925
Structural analysis of the complex between calmodulin and fu...
MARK AS OVER ANNOTATED
Summary: Too general - more specific terms available
Reason: Too general - more specific terms are available
GO:1902494 catalytic complex
IDA
PMID:11807546
Structural basis for the activation of anthrax adenylyl cycl...
KEEP AS NON CORE
Summary: Part of enzyme complexes
Reason: Tissue-specific or specialized function
GO:0002027 regulation of heart rate
IMP
PMID:23040497
Mutations in calmodulin cause ventricular tachycardia and su...
ACCEPT
Summary: Heart rate regulation through ion channel modulation
Reason: Core calmodulin function or localization
GO:0005509 calcium ion binding
IDA
PMID:23040497
Mutations in calmodulin cause ventricular tachycardia and su...
ACCEPT
Summary: Core calcium-binding function through 4 EF-hand domains
Reason: Core calmodulin function or localization
GO:0005509 calcium ion binding
IDA
PMID:7607248
A calmodulin-binding sequence in the C-terminus of human car...
ACCEPT
Summary: Core calcium-binding function through 4 EF-hand domains
Reason: Core calmodulin function or localization
GO:0005509 calcium ion binding
IDA
PMID:8631777
Blocking the Ca2+-induced conformational transitions in calm...
ACCEPT
Summary: Core calcium-binding function through 4 EF-hand domains
Reason: Core calmodulin function or localization
GO:0005513 detection of calcium ion
IMP
PMID:23040497
Mutations in calmodulin cause ventricular tachycardia and su...
ACCEPT
Summary: Core calcium sensing function
Reason: Core calmodulin function or localization
GO:0010880 regulation of release of sequestered calcium ion into cytosol by sarcoplasmic reticulum
IDA
PMID:20226167
Defective calmodulin binding to the cardiac ryanodine recept...
ACCEPT
Summary: Regulates RyR-mediated calcium release from SR
Reason: Core calmodulin function or localization
GO:0019901 protein kinase binding
IPI
PMID:20668654
Structure of the CaMKIIdelta/calmodulin complex reveals the ...
ACCEPT
Summary: Binds CaMK family and other protein kinases
Reason: Core calmodulin function or localization
GO:0030017 sarcomere
IDA
PMID:20226167
Defective calmodulin binding to the cardiac ryanodine recept...
KEEP AS NON CORE
Summary: Sarcomere localization in muscle
Reason: Tissue-specific or specialized function
GO:0031432 titin binding
IPI
PMID:7607248
A calmodulin-binding sequence in the C-terminus of human car...
KEEP AS NON CORE
Summary: Titin binding in muscle
Reason: Tissue-specific or specialized function
GO:0043539 protein serine/threonine kinase activator activity
TAS
PMID:20668654
Structure of the CaMKIIdelta/calmodulin complex reveals the ...
ACCEPT
Summary: Activates CaMKII and other calcium-dependent kinases
Reason: Core calmodulin function or localization
GO:0044325 transmembrane transporter binding
IPI
PMID:21167176
Solution NMR structure of Apo-calmodulin in complex with the...
ACCEPT
Summary: Binds ion channels and transporters
Reason: Core calmodulin function or localization
GO:0044325 transmembrane transporter binding
IPI
PMID:23040497
Mutations in calmodulin cause ventricular tachycardia and su...
ACCEPT
Summary: Binds ion channels and transporters
Reason: Core calmodulin function or localization
GO:0051592 response to calcium ion
IDA
PMID:7607248
A calmodulin-binding sequence in the C-terminus of human car...
KEEP AS NON CORE
Summary: Response to calcium ion
Reason: Tissue-specific or specialized function
GO:0055117 regulation of cardiac muscle contraction
IMP
PMID:23040497
Mutations in calmodulin cause ventricular tachycardia and su...
ACCEPT
Summary: Cardiac contraction through calcium channel regulation
Reason: Core calmodulin function or localization
GO:0072542 protein phosphatase activator activity
IDA
PMID:8631777
Blocking the Ca2+-induced conformational transitions in calm...
ACCEPT
Summary: Activates calcineurin (PP2B) phosphatase
Reason: Core calmodulin function or localization
GO:0005509 calcium ion binding
IDA
PMID:27516456
Novel CPVT-Associated Calmodulin Mutation in CALM3 (CALM3-A1...
ACCEPT
Summary: Core calcium-binding function through 4 EF-hand domains
Reason: Core calmodulin function or localization

Core Functions

Primary intracellular calcium sensor. CALM3-encoded calmodulin binds calcium through four EF-hand motifs and converts calcium fluctuations into target-protein regulation.

Molecular Function:
calcium ion binding
Directly Involved In:
Cellular Locations:
Supporting Evidence:
  • PMID:27516456
    Humans have 3 CaM genes ( CALM1 , CALM2 , and CALM3 ) encoding for a perfectly conserved sequence of amino acids
  • PMID:23040497
    Both CALM1 substitutions demonstrated compromised calcium binding

Core calcium-dependent signal-transduction adaptor for kinase and phosphatase regulation, especially CaMK and calcineurin pathways.

Supporting Evidence:
  • PMID:20668654
    Structure of the CaMKIIdelta/calmodulin complex reveals the molecular mechanism of CaMKII kinase activation.
  • PMID:35568036
    IFN inhibition was mediated by the binding of OspC1 and OspC3 to the Ca2+ sensor calmodulin (CaM), blocking CaM kinase II
  • PMID:8631777
    Blocking the Ca2+-induced conformational transitions in calmodulin with disulfide bonds.

Regulator of cardiac and other excitable-cell calcium channels, especially RyR2 and high-voltage-gated calcium-channel pathways.

Supporting Evidence:
  • PMID:20226167
    the addition of a high concentration of CaM attenuated the aberrant increase of Ca(2+) sparks
  • PMID:27516456
    A103V-CaM (100 nmol/L) promoted spontaneous Ca wave and spark activity
  • PMID:31454269
    Human-induced pluripotent stem cell-derived cardiomyocytes overexpressing mutant or wild-type CaM showed that both mutants impaired Ca2+-dependent inactivation of L-type Ca2+ channels and prolonged action potential duration

Centrosome-associated regulator of late cytokinesis through CP110/centrin-containing cell-division machinery.

Molecular Function:
protein kinase binding
Directly Involved In:
Cellular Locations:
Supporting Evidence:
  • PMID:16760425
    its depletion leads to a failure at a late stage of cytokinesis and the formation of binucleate cells

References

Annotation inferences using phylogenetic trees
Gene Ontology annotation based on UniProtKB/Swiss-Prot Subcellular Location vocabulary mapping, accompanied by conservative changes to GO terms applied by UniProt
Automatic transfer of experimentally verified manual GO annotation data to orthologs using Ensembl Compara
Electronic Gene Ontology annotations created by ARBA machine learning models
Combined Automated Annotation using Multiple IEA Methods
Ca(2+)-dependent and Ca(2+)-independent calmodulin binding sites in erythrocyte protein 4.1. Implications for regulation of protein 4.1 interactions with transmembrane proteins.
Calmodulin regulation of basal and agonist-stimulated G protein coupling by the mu-opioid receptor (OP(3)) in morphine-pretreated cell.
Structural basis for the activation of anthrax adenylyl cyclase exotoxin by calmodulin.
The Chediak-Higashi protein interacts with SNARE complex and signal transduction proteins.
Ca2+-binding protein-1 facilitates and forms a postsynaptic complex with Cav1.2 (L-type) Ca2+ channels.
Myristoyl moiety of HIV Nef is involved in regulation of the interaction with calmodulin in vivo.
CP110 cooperates with two calcium-binding proteins to regulate cytokinesis and genome stability.
Characterization of exosome-like vesicles released from human tracheobronchial ciliated epithelium: a possible role in innate defense.
Structural analysis of the complex between calmodulin and full-length myelin basic protein, an intrinsically disordered molecule.
Defective calmodulin binding to the cardiac ryanodine receptor plays a key role in CPVT-associated channel dysfunction.
Structure of the CaMKIIdelta/calmodulin complex reveals the molecular mechanism of CaMKII kinase activation.
Solution NMR structure of Apo-calmodulin in complex with the IQ motif of human cardiac sodium channel NaV1.5.
IQ-motif selectivity in human IQGAP2 and IQGAP3: binding of calmodulin and myosin essential light chain.
Proteomic characterization of the human sperm nucleus.
Quantitative proteomic analysis of human substantia nigra in Alzheimer's disease, Huntington's disease and Multiple sclerosis.
Mutations in calmodulin cause ventricular tachycardia and sudden cardiac death.
Novel CPVT-Associated Calmodulin Mutation in CALM3 (CALM3-A103V) Activates Arrhythmogenic Ca Waves and Sparks.
Comparison of S100b protein with calmodulin: interactions with melittin and microtubule-associated tau proteins and inhibition of phosphorylation of tau proteins by protein kinase C.
Genetic Mosaicism in Calmodulinopathy.
OpenCell: Endogenous tagging for the cartography of human cellular organization.
A family of conserved bacterial virulence factors dampens interferon responses by blocking calcium signaling.
A calmodulin-binding sequence in the C-terminus of human cardiac titin kinase.
Blocking the Ca2+-induced conformational transitions in calmodulin with disulfide bonds.
Reactome:R-HSA-9956602
CALM binds bacterial OspC3
Reactome:R-HSA-9956624
OspC3 ADP-riboxanates CASP4
Reactome:R-HSA-9956667
CASP4 binds CALM:OspC3
Characterization of the human CALM2 calmodulin gene and comparison of the transcriptional activity of CALM1, CALM2 and CALM3.
file:human/CALM3/CALM3-notes.md
Curator notes for CALM3 review

📚 Additional Documentation

Notes

(CALM3-notes.md)

CALM3 notes

2026-03-19

  • Review scope: the CALM3 GOA file fetched on 2026-03-19 contains no literal ISO evidence-code rows, but it does contain multiple transferred annotations (IBA and IEA). I reviewed those in the spirit of [projects/ISO.md] by asking whether a term is safe to transfer across the human calmodulin paralogs.
  • Family identity: humans have three calmodulin genes, CALM1, CALM2, and CALM3, and all three encode an identical 149 aa calmodulin polypeptide PMID:27516456 PMID:31454269.
  • Family regulation differs even when protein sequence does not: transcription of the three genes is not equivalent, and in teratoma cells CALM3 was reported to be more highly transcribed than CALM1 or CALM2 PMID:9681195.
  • Curation consequence: core protein-level functions that follow directly from the conserved calmodulin sequence are safe to treat as family-wide, especially calcium binding, calcium sensing, kinase/phosphatase activation, and ion-channel regulation PMID:27516456 PMID:23040497.
  • Cardiac core function is strong for the protein family and directly relevant to CALM3: defective calmodulin regulation of RyR2 increases spontaneous calcium release events PMID:20226167 and the CALM3 A103V mutation promotes arrhythmogenic calcium waves and sparks PMID:27516456.
  • CALM3 also has direct human disease evidence for impaired L-type calcium channel regulation and action potential phenotypes in calmodulinopathy PMID:31454269.
  • Cell-division localization/function is supported independently of cardiac biology: calmodulin binds CP110 and loss of that interaction disrupts late cytokinesis PMID:16760425.
  • Microbial hijacking papers support genuine calmodulin biochemistry but not necessarily core host biological-process terms. OspC-family effectors bind calmodulin and block CaMKII / IFN signaling PMID:35568036, but those infection-context processes should stay non-core.
  • Several GOA terms are too context-specific to distinguish CALM3 from CALM1 / CALM2: synaptic localizations, myelin-associated terms, sperm terms, and specialized membrane-trafficking terms likely reflect cell-type context layered on top of the same calmodulin protein sequence rather than a CALM3-specific biochemical innovation PMID:9681195.
  • Some annotations should be removed or down-weighted on evidence quality grounds. substantia nigra development is based on proteomic detection in diseased tissue rather than developmental perturbation PMID:22926577.
  • Generic protein binding annotations are not informative for calmodulin and should not be favored when more specific regulator/binding terms are available.
  • Current UniProt entries for CALM1, CALM2, and CALM3 all show the same 149 aa sequence summary and I found no ALTERNATIVE PRODUCTS block in these local records, so there is no isoform-specific caveat comparable to the splice-isoform project genes [file:human/CALM1/CALM1-uniprot.txt "SQ SEQUENCE 149 AA"] [file:human/CALM2/CALM2-uniprot.txt "SQ SEQUENCE 149 AA"] [file:human/CALM3/CALM3-uniprot.txt "SQ SEQUENCE 149 AA"].

📄 View Raw YAML

id: P0DP25
gene_symbol: CALM3
product_type: PROTEIN
status: COMPLETE
taxon:
  id: NCBITaxon:9606
  label: Homo sapiens
description: 'CALM3 encodes one of the three human calmodulin genes and produces the
  same 149 aa calmodulin protein encoded by CALM1 and CALM2. The protein is a ubiquitous
  calcium sensor with four EF-hand motifs that binds calcium and regulates ion channels,
  protein kinases, protein phosphatases, and cell-division machinery. For this review,
  annotations were interpreted at the protein level: core calcium-sensing functions
  transfer well across the calmodulin family because the encoded protein sequence
  is identical, whereas tissue-specific neuronal, cardiac, and subcellular-context
  terms are kept as non-core when they likely reflect expression or recruitment differences
  rather than a CALM3-specific biochemical difference. CALM3 variants contribute to
  calmodulinopathy, including CPVT and long-QT phenotypes driven by dysregulated calcium-channel
  signaling.'
existing_annotations:
- term:
    id: GO:0005737
    label: cytoplasm
  evidence_type: IBA
  original_reference_id: GO_REF:0000033
  review:
    summary: Primary cytoplasmic localization
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0005509
    label: calcium ion binding
  evidence_type: IBA
  original_reference_id: GO_REF:0000033
  review:
    summary: Core calcium-binding function through 4 EF-hand domains
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0005634
    label: nucleus
  evidence_type: IBA
  original_reference_id: GO_REF:0000033
  review:
    summary: Nuclear localization in some contexts
    action: KEEP_AS_NON_CORE
    reason: Tissue-specific or specialized function
- term:
    id: GO:0010880
    label: regulation of release of sequestered calcium ion into cytosol by sarcoplasmic
      reticulum
  evidence_type: IBA
  original_reference_id: GO_REF:0000033
  review:
    summary: Regulates RyR-mediated calcium release from SR
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0005513
    label: detection of calcium ion
  evidence_type: IBA
  original_reference_id: GO_REF:0000033
  review:
    summary: Core calcium sensing function
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0097720
    label: calcineurin-mediated signaling
  evidence_type: IBA
  original_reference_id: GO_REF:0000033
  review:
    summary: Activates calcineurin phosphatase for NFAT signaling
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0005813
    label: centrosome
  evidence_type: IBA
  original_reference_id: GO_REF:0000033
  review:
    summary: Centrosomal localization for cell division
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0043209
    label: myelin sheath
  evidence_type: IBA
  original_reference_id: GO_REF:0000033
  review:
    summary: Myelin sheath localization
    action: KEEP_AS_NON_CORE
    reason: Tissue-specific or specialized function
- term:
    id: GO:0000922
    label: spindle pole
  evidence_type: IEA
  original_reference_id: GO_REF:0000120
  review:
    summary: Spindle pole localization during mitosis
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0002027
    label: regulation of heart rate
  evidence_type: IEA
  original_reference_id: GO_REF:0000117
  review:
    summary: Heart rate regulation through ion channel modulation
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0005246
    label: calcium channel regulator activity
  evidence_type: IEA
  original_reference_id: GO_REF:0000117
  review:
    summary: Regulates L-type calcium channels and ryanodine receptors
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0005509
    label: calcium ion binding
  evidence_type: IEA
  original_reference_id: GO_REF:0000120
  review:
    summary: Core calcium-binding function through 4 EF-hand domains
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0005513
    label: detection of calcium ion
  evidence_type: IEA
  original_reference_id: GO_REF:0000117
  review:
    summary: Core calcium sensing function
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0005813
    label: centrosome
  evidence_type: IEA
  original_reference_id: GO_REF:0000120
  review:
    summary: Centrosomal localization for cell division
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0005819
    label: spindle
  evidence_type: IEA
  original_reference_id: GO_REF:0000044
  review:
    summary: Spindle localization for cell division
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0005876
    label: spindle microtubule
  evidence_type: IEA
  original_reference_id: GO_REF:0000117
  review:
    summary: Spindle microtubule association
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0010856
    label: adenylate cyclase activator activity
  evidence_type: IEA
  original_reference_id: GO_REF:0000117
  review:
    summary: Activates adenylate cyclase for cAMP signaling
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0010881
    label: regulation of cardiac muscle contraction by regulation of the release of
      sequestered calcium ion
  evidence_type: IEA
  original_reference_id: GO_REF:0000117
  review:
    summary: Cardiac calcium-induced calcium release regulation
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0019901
    label: protein kinase binding
  evidence_type: IEA
  original_reference_id: GO_REF:0000117
  review:
    summary: Binds CaMK family and other protein kinases
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0030017
    label: sarcomere
  evidence_type: IEA
  original_reference_id: GO_REF:0000117
  review:
    summary: Sarcomere localization in muscle
    action: KEEP_AS_NON_CORE
    reason: Tissue-specific or specialized function
- term:
    id: GO:0031432
    label: titin binding
  evidence_type: IEA
  original_reference_id: GO_REF:0000117
  review:
    summary: Titin binding in muscle
    action: KEEP_AS_NON_CORE
    reason: Tissue-specific or specialized function
- term:
    id: GO:0032465
    label: regulation of cytokinesis
  evidence_type: IEA
  original_reference_id: GO_REF:0000117
  review:
    summary: Cytokinesis regulation with CP110 and centrin
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0034704
    label: calcium channel complex
  evidence_type: IEA
  original_reference_id: GO_REF:0000117
  review:
    summary: Component of calcium channel complexes
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0043539
    label: protein serine/threonine kinase activator activity
  evidence_type: IEA
  original_reference_id: GO_REF:0000117
  review:
    summary: Activates CaMKII and other calcium-dependent kinases
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0060291
    label: long-term synaptic potentiation
  evidence_type: IEA
  original_reference_id: GO_REF:0000117
  review:
    summary: Long-term synaptic potentiation reflects specialized neuronal signaling.
    action: KEEP_AS_NON_CORE
    reason: Calmodulin is important for synaptic plasticity, but this is a tissue-specific
      downstream context and should not be used to distinguish CALM3 from CALM1 or
      CALM2.
- term:
    id: GO:0072542
    label: protein phosphatase activator activity
  evidence_type: IEA
  original_reference_id: GO_REF:0000117
  review:
    summary: Activates calcineurin (PP2B) phosphatase
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0097720
    label: calcineurin-mediated signaling
  evidence_type: IEA
  original_reference_id: GO_REF:0000117
  review:
    summary: Activates calcineurin phosphatase for NFAT signaling
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:1901844
    label: regulation of cell communication by electrical coupling involved in cardiac
      conduction
  evidence_type: IEA
  original_reference_id: GO_REF:0000117
  review:
    summary: Cardiac electrical coupling regulation
    action: KEEP_AS_NON_CORE
    reason: Tissue-specific or specialized function
- term:
    id: GO:0005515
    label: protein binding
  evidence_type: IPI
  original_reference_id: PMID:35271311
  review:
    summary: Too general - more specific terms available
    action: MARK_AS_OVER_ANNOTATED
    reason: Too general - more specific terms are available
- term:
    id: GO:0000785
    label: chromatin
  evidence_type: IEA
  original_reference_id: GO_REF:0000120
  review:
    summary: Chromatin association
    action: KEEP_AS_NON_CORE
    reason: Tissue-specific or specialized function
- term:
    id: GO:0001975
    label: response to amphetamine
  evidence_type: IEA
  original_reference_id: GO_REF:0000120
  review:
    summary: Amphetamine response in neurons
    action: KEEP_AS_NON_CORE
    reason: Tissue-specific or specialized function
- term:
    id: GO:0005634
    label: nucleus
  evidence_type: IEA
  original_reference_id: GO_REF:0000120
  review:
    summary: Nuclear localization in some contexts
    action: KEEP_AS_NON_CORE
    reason: Tissue-specific or specialized function
- term:
    id: GO:0008076
    label: voltage-gated potassium channel complex
  evidence_type: IEA
  original_reference_id: GO_REF:0000120
  review:
    summary: KCNQ channel complex component
    action: KEEP_AS_NON_CORE
    reason: Tissue-specific or specialized function
- term:
    id: GO:0016020
    label: membrane
  evidence_type: IEA
  original_reference_id: GO_REF:0000107
  review:
    summary: General membrane localization is plausible but not a core assignment.
    action: KEEP_AS_NON_CORE
    reason: Calmodulin is recruited to membrane-associated channels and receptors,
      but broad membrane localization is secondary to its core soluble calcium-sensor
      role.
- term:
    id: GO:0019904
    label: protein domain specific binding
  evidence_type: IEA
  original_reference_id: GO_REF:0000120
  review:
    summary: IQ motif and calmodulin-binding domain recognition
    action: KEEP_AS_NON_CORE
    reason: Tissue-specific or specialized function
- term:
    id: GO:0030235
    label: nitric-oxide synthase regulator activity
  evidence_type: IEA
  original_reference_id: GO_REF:0000120
  review:
    summary: Regulates NOS enzymes
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0030426
    label: growth cone
  evidence_type: IEA
  original_reference_id: GO_REF:0000120
  review:
    summary: Neuronal growth cone localization
    action: KEEP_AS_NON_CORE
    reason: Tissue-specific or specialized function
- term:
    id: GO:0030672
    label: synaptic vesicle membrane
  evidence_type: IEA
  original_reference_id: GO_REF:0000120
  review:
    summary: Synaptic vesicle localization
    action: KEEP_AS_NON_CORE
    reason: Tissue-specific or specialized function
- term:
    id: GO:0031800
    label: type 3 metabotropic glutamate receptor binding
  evidence_type: IEA
  original_reference_id: GO_REF:0000120
  review:
    summary: mGluR3 binding in neurons
    action: KEEP_AS_NON_CORE
    reason: Tissue-specific or specialized function
- term:
    id: GO:0031966
    label: mitochondrial membrane
  evidence_type: IEA
  original_reference_id: GO_REF:0000120
  review:
    summary: Mitochondrial membrane association
    action: KEEP_AS_NON_CORE
    reason: Tissue-specific or specialized function
- term:
    id: GO:0031982
    label: vesicle
  evidence_type: IEA
  original_reference_id: GO_REF:0000107
  review:
    summary: Vesicle association is observed in specialized trafficking or exosome
      contexts.
    action: KEEP_AS_NON_CORE
    reason: Vesicle localization reflects specific cell-type and trafficking contexts
      rather than a defining family-wide localization for the identical calmodulin
      protein.
- term:
    id: GO:0043209
    label: myelin sheath
  evidence_type: IEA
  original_reference_id: GO_REF:0000120
  review:
    summary: Myelin sheath localization
    action: KEEP_AS_NON_CORE
    reason: Tissue-specific or specialized function
- term:
    id: GO:0043548
    label: phosphatidylinositol 3-kinase binding
  evidence_type: IEA
  original_reference_id: GO_REF:0000120
  review:
    summary: PI3K binding for signaling
    action: KEEP_AS_NON_CORE
    reason: Tissue-specific or specialized function
- term:
    id: GO:0044305
    label: calyx of Held
  evidence_type: IEA
  original_reference_id: GO_REF:0000120
  review:
    summary: Calyx of Held synapse localization
    action: KEEP_AS_NON_CORE
    reason: Tissue-specific or specialized function
- term:
    id: GO:0044325
    label: transmembrane transporter binding
  evidence_type: IEA
  original_reference_id: GO_REF:0000120
  review:
    summary: Binds ion channels and transporters
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0048306
    label: calcium-dependent protein binding
  evidence_type: IEA
  original_reference_id: GO_REF:0000120
  review:
    summary: Calcium-dependent target protein binding
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0050998
    label: nitric-oxide synthase binding
  evidence_type: IEA
  original_reference_id: GO_REF:0000120
  review:
    summary: Binds NOS for activation
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0051412
    label: response to corticosterone
  evidence_type: IEA
  original_reference_id: GO_REF:0000120
  review:
    summary: Corticosterone response
    action: KEEP_AS_NON_CORE
    reason: Tissue-specific or specialized function
- term:
    id: GO:0097225
    label: sperm midpiece
  evidence_type: IEA
  original_reference_id: GO_REF:0000107
  review:
    summary: Sperm midpiece localization
    action: KEEP_AS_NON_CORE
    reason: Tissue-specific or specialized function
- term:
    id: GO:0098685
    label: Schaffer collateral - CA1 synapse
  evidence_type: IEA
  original_reference_id: GO_REF:0000120
  review:
    summary: Hippocampal synapse localization
    action: KEEP_AS_NON_CORE
    reason: Tissue-specific or specialized function
- term:
    id: GO:0099523
    label: presynaptic cytosol
  evidence_type: IEA
  original_reference_id: GO_REF:0000120
  review:
    summary: Presynaptic localization
    action: KEEP_AS_NON_CORE
    reason: Tissue-specific or specialized function
- term:
    id: GO:0099524
    label: postsynaptic cytosol
  evidence_type: IEA
  original_reference_id: GO_REF:0000120
  review:
    summary: Postsynaptic localization
    action: KEEP_AS_NON_CORE
    reason: Tissue-specific or specialized function
- term:
    id: GO:0140238
    label: presynaptic endocytosis
  evidence_type: IEA
  original_reference_id: GO_REF:0000120
  review:
    summary: Presynaptic vesicle endocytosis
    action: KEEP_AS_NON_CORE
    reason: Tissue-specific or specialized function
- term:
    id: GO:0141110
    label: transporter inhibitor activity
  evidence_type: IEA
  original_reference_id: GO_REF:0000107
  review:
    summary: This term is too specific for the available transfer evidence.
    action: MARK_AS_OVER_ANNOTATED
    reason: Calmodulin modulates multiple transporters and channels, but a generic
      transporter inhibitor term overstates a context-dependent regulatory effect.
- term:
    id: GO:1900242
    label: regulation of synaptic vesicle endocytosis
  evidence_type: IEA
  original_reference_id: GO_REF:0000120
  review:
    summary: Synaptic vesicle endocytosis regulation
    action: KEEP_AS_NON_CORE
    reason: Tissue-specific or specialized function
- term:
    id: GO:1905913
    label: negative regulation of calcium ion export across plasma membrane
  evidence_type: IEA
  original_reference_id: GO_REF:0000107
  review:
    summary: Negative regulation of calcium export is plausible in channel-regulatory
      contexts but not a core assignment.
    action: KEEP_AS_NON_CORE
    reason: This term reflects a specific downstream physiological setting of calmodulin-dependent
      channel regulation rather than a defining family-wide process.
- term:
    id: GO:2000300
    label: regulation of synaptic vesicle exocytosis
  evidence_type: IEA
  original_reference_id: GO_REF:0000120
  review:
    summary: Synaptic vesicle exocytosis regulation
    action: KEEP_AS_NON_CORE
    reason: Tissue-specific or specialized function
- term:
    id: GO:0005829
    label: cytosol
  evidence_type: TAS
  original_reference_id: Reactome:R-HSA-9956602
  review:
    summary: Soluble cytosolic protein
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0005829
    label: cytosol
  evidence_type: TAS
  original_reference_id: Reactome:R-HSA-9956624
  review:
    summary: Soluble cytosolic protein
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0005829
    label: cytosol
  evidence_type: TAS
  original_reference_id: Reactome:R-HSA-9956667
  review:
    summary: Soluble cytosolic protein
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0010881
    label: regulation of cardiac muscle contraction by regulation of the release of
      sequestered calcium ion
  evidence_type: IDA
  original_reference_id: PMID:23040497
  review:
    summary: Cardiac calcium-induced calcium release regulation
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:1901844
    label: regulation of cell communication by electrical coupling involved in cardiac
      conduction
  evidence_type: IDA
  original_reference_id: PMID:23040497
  review:
    summary: Cardiac electrical coupling regulation
    action: KEEP_AS_NON_CORE
    reason: Tissue-specific or specialized function
- term:
    id: GO:0005246
    label: calcium channel regulator activity
  evidence_type: IDA
  original_reference_id: PMID:20226167
  review:
    summary: Regulates L-type calcium channels and ryanodine receptors
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0010881
    label: regulation of cardiac muscle contraction by regulation of the release of
      sequestered calcium ion
  evidence_type: IDA
  original_reference_id: PMID:20226167
  review:
    summary: Cardiac calcium-induced calcium release regulation
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0060291
    label: long-term synaptic potentiation
  evidence_type: TAS
  original_reference_id: PMID:20668654
  review:
    summary: Long-term synaptic potentiation reflects specialized neuronal signaling.
    action: KEEP_AS_NON_CORE
    reason: Calmodulin is important for synaptic plasticity, but this is a tissue-specific
      downstream context and should not be used to distinguish CALM3 from CALM1 or
      CALM2.
- term:
    id: GO:0097720
    label: calcineurin-mediated signaling
  evidence_type: IDA
  original_reference_id: PMID:8631777
  review:
    summary: Activates calcineurin phosphatase for NFAT signaling
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0005515
    label: protein binding
  evidence_type: IPI
  original_reference_id: PMID:11984006
  review:
    summary: Too general - more specific terms available
    action: MARK_AS_OVER_ANNOTATED
    reason: Too general - more specific terms are available
- term:
    id: GO:0005515
    label: protein binding
  evidence_type: IPI
  original_reference_id: PMID:19855925
  review:
    summary: Too general - more specific terms available
    action: MARK_AS_OVER_ANNOTATED
    reason: Too general - more specific terms are available
- term:
    id: GO:0005509
    label: calcium ion binding
  evidence_type: IDA
  original_reference_id: PMID:35568036
  review:
    summary: Core calcium-binding function through 4 EF-hand domains
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0043539
    label: protein serine/threonine kinase activator activity
  evidence_type: IDA
  original_reference_id: PMID:35568036
  review:
    summary: Activates CaMKII and other calcium-dependent kinases
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0005509
    label: calcium ion binding
  evidence_type: IDA
  original_reference_id: PMID:31454269
  review:
    summary: Core calcium-binding function through 4 EF-hand domains
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0098901
    label: regulation of cardiac muscle cell action potential
  evidence_type: IMP
  original_reference_id: PMID:31454269
  review:
    summary: Cardiac action potential regulation
    action: KEEP_AS_NON_CORE
    reason: Tissue-specific or specialized function
- term:
    id: GO:1901842
    label: negative regulation of high voltage-gated calcium channel activity
  evidence_type: IMP
  original_reference_id: PMID:31454269
  review:
    summary: Calcium channel activity regulation
    action: KEEP_AS_NON_CORE
    reason: Tissue-specific or specialized function
- term:
    id: GO:0010856
    label: adenylate cyclase activator activity
  evidence_type: IDA
  original_reference_id: PMID:11807546
  review:
    summary: Activates adenylate cyclase for cAMP signaling
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0034704
    label: calcium channel complex
  evidence_type: IDA
  original_reference_id: PMID:23040497
  review:
    summary: Component of calcium channel complexes
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0000922
    label: spindle pole
  evidence_type: IDA
  original_reference_id: PMID:16760425
  review:
    summary: Spindle pole localization during mitosis
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0005515
    label: protein binding
  evidence_type: IPI
  original_reference_id: PMID:10692436
  review:
    summary: Too general - more specific terms available
    action: MARK_AS_OVER_ANNOTATED
    reason: Too general - more specific terms are available
- term:
    id: GO:0005515
    label: protein binding
  evidence_type: IPI
  original_reference_id: PMID:15140941
  review:
    summary: Too general - more specific terms available
    action: MARK_AS_OVER_ANNOTATED
    reason: Too general - more specific terms are available
- term:
    id: GO:0005515
    label: protein binding
  evidence_type: IPI
  original_reference_id: PMID:15632291
  review:
    summary: Too general - more specific terms available
    action: MARK_AS_OVER_ANNOTATED
    reason: Too general - more specific terms are available
- term:
    id: GO:0005515
    label: protein binding
  evidence_type: IPI
  original_reference_id: PMID:16760425
  review:
    summary: Too general - more specific terms available
    action: MARK_AS_OVER_ANNOTATED
    reason: Too general - more specific terms are available
- term:
    id: GO:0005515
    label: protein binding
  evidence_type: IPI
  original_reference_id: PMID:21299499
  review:
    summary: Too general - more specific terms available
    action: MARK_AS_OVER_ANNOTATED
    reason: Too general - more specific terms are available
- term:
    id: GO:0005515
    label: protein binding
  evidence_type: IPI
  original_reference_id: PMID:3111527
  review:
    summary: Too general - more specific terms available
    action: MARK_AS_OVER_ANNOTATED
    reason: Too general - more specific terms are available
- term:
    id: GO:0005634
    label: nucleus
  evidence_type: HDA
  original_reference_id: PMID:21630459
  review:
    summary: Nuclear localization in some contexts
    action: KEEP_AS_NON_CORE
    reason: Tissue-specific or specialized function
- term:
    id: GO:0005737
    label: cytoplasm
  evidence_type: TAS
  original_reference_id: PMID:10899953
  review:
    summary: Primary cytoplasmic localization
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0005813
    label: centrosome
  evidence_type: IDA
  original_reference_id: PMID:16760425
  review:
    summary: Centrosomal localization for cell division
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0005876
    label: spindle microtubule
  evidence_type: IDA
  original_reference_id: PMID:16760425
  review:
    summary: Spindle microtubule association
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0005886
    label: plasma membrane
  evidence_type: TAS
  original_reference_id: PMID:10899953
  review:
    summary: Plasma membrane association occurs in specific signaling contexts.
    action: KEEP_AS_NON_CORE
    reason: Calmodulin can associate with membrane-proximal receptor and channel complexes,
      but plasma membrane residence is context dependent rather than a defining family-wide
      localization.
- term:
    id: GO:0007186
    label: G protein-coupled receptor signaling pathway
  evidence_type: TAS
  original_reference_id: PMID:10899953
  review:
    summary: Calmodulin modulates selected GPCR signaling pathways in specialized
      contexts.
    action: KEEP_AS_NON_CORE
    reason: This captures a real signaling interaction, but the evidence is receptor-
      and context-specific and should not be treated as a defining CALM3 function
      relative to the other calmodulin paralogs.
- term:
    id: GO:0021762
    label: substantia nigra development
  evidence_type: HEP
  original_reference_id: PMID:22926577
  review:
    summary: Proteomic detection in substantia nigra does not justify a developmental
      annotation.
    action: REMOVE
    reason: The cited evidence is expression/proteomics in diseased tissue, not functional
      evidence for substantia nigra development.
- term:
    id: GO:0031982
    label: vesicle
  evidence_type: HDA
  original_reference_id: PMID:19190083
  review:
    summary: Vesicle association is observed in specialized trafficking or exosome
      contexts.
    action: KEEP_AS_NON_CORE
    reason: Vesicle localization reflects specific cell-type and trafficking contexts
      rather than a defining family-wide localization for the identical calmodulin
      protein.
- term:
    id: GO:0032465
    label: regulation of cytokinesis
  evidence_type: IMP
  original_reference_id: PMID:16760425
  review:
    summary: Cytokinesis regulation with CP110 and centrin
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0005509
    label: calcium ion binding
  evidence_type: IDA
  original_reference_id: PMID:11807546
  review:
    summary: Core calcium-binding function through 4 EF-hand domains
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0008179
    label: adenylate cyclase binding
  evidence_type: IPI
  original_reference_id: PMID:11807546
  review:
    summary: Direct adenylate cyclase binding is supported, but mainly in host-pathogen
      interaction studies.
    action: KEEP_AS_NON_CORE
    reason: The interaction is real biochemistry for calmodulin, but the cited evidence
      centers on bacterial edema-factor activation rather than a defining endogenous
      CALM3 role.
- term:
    id: GO:0032991
    label: protein-containing complex
  evidence_type: IDA
  original_reference_id: PMID:19855925
  review:
    summary: Too general - more specific terms available
    action: MARK_AS_OVER_ANNOTATED
    reason: Too general - more specific terms are available
- term:
    id: GO:1902494
    label: catalytic complex
  evidence_type: IDA
  original_reference_id: PMID:11807546
  review:
    summary: Part of enzyme complexes
    action: KEEP_AS_NON_CORE
    reason: Tissue-specific or specialized function
- term:
    id: GO:0002027
    label: regulation of heart rate
  evidence_type: IMP
  original_reference_id: PMID:23040497
  review:
    summary: Heart rate regulation through ion channel modulation
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0005509
    label: calcium ion binding
  evidence_type: IDA
  original_reference_id: PMID:23040497
  review:
    summary: Core calcium-binding function through 4 EF-hand domains
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0005509
    label: calcium ion binding
  evidence_type: IDA
  original_reference_id: PMID:7607248
  review:
    summary: Core calcium-binding function through 4 EF-hand domains
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0005509
    label: calcium ion binding
  evidence_type: IDA
  original_reference_id: PMID:8631777
  review:
    summary: Core calcium-binding function through 4 EF-hand domains
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0005513
    label: detection of calcium ion
  evidence_type: IMP
  original_reference_id: PMID:23040497
  review:
    summary: Core calcium sensing function
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0010880
    label: regulation of release of sequestered calcium ion into cytosol by sarcoplasmic
      reticulum
  evidence_type: IDA
  original_reference_id: PMID:20226167
  review:
    summary: Regulates RyR-mediated calcium release from SR
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0019901
    label: protein kinase binding
  evidence_type: IPI
  original_reference_id: PMID:20668654
  review:
    summary: Binds CaMK family and other protein kinases
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0030017
    label: sarcomere
  evidence_type: IDA
  original_reference_id: PMID:20226167
  review:
    summary: Sarcomere localization in muscle
    action: KEEP_AS_NON_CORE
    reason: Tissue-specific or specialized function
- term:
    id: GO:0031432
    label: titin binding
  evidence_type: IPI
  original_reference_id: PMID:7607248
  review:
    summary: Titin binding in muscle
    action: KEEP_AS_NON_CORE
    reason: Tissue-specific or specialized function
- term:
    id: GO:0043539
    label: protein serine/threonine kinase activator activity
  evidence_type: TAS
  original_reference_id: PMID:20668654
  review:
    summary: Activates CaMKII and other calcium-dependent kinases
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0044325
    label: transmembrane transporter binding
  evidence_type: IPI
  original_reference_id: PMID:21167176
  review:
    summary: Binds ion channels and transporters
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0044325
    label: transmembrane transporter binding
  evidence_type: IPI
  original_reference_id: PMID:23040497
  review:
    summary: Binds ion channels and transporters
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0051592
    label: response to calcium ion
  evidence_type: IDA
  original_reference_id: PMID:7607248
  review:
    summary: Response to calcium ion
    action: KEEP_AS_NON_CORE
    reason: Tissue-specific or specialized function
- term:
    id: GO:0055117
    label: regulation of cardiac muscle contraction
  evidence_type: IMP
  original_reference_id: PMID:23040497
  review:
    summary: Cardiac contraction through calcium channel regulation
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0072542
    label: protein phosphatase activator activity
  evidence_type: IDA
  original_reference_id: PMID:8631777
  review:
    summary: Activates calcineurin (PP2B) phosphatase
    action: ACCEPT
    reason: Core calmodulin function or localization
- term:
    id: GO:0005509
    label: calcium ion binding
  evidence_type: IDA
  original_reference_id: PMID:27516456
  review:
    summary: Core calcium-binding function through 4 EF-hand domains
    action: ACCEPT
    reason: Core calmodulin function or localization
references:
- id: GO_REF:0000033
  title: Annotation inferences using phylogenetic trees
  findings: []
- id: GO_REF:0000044
  title: Gene Ontology annotation based on UniProtKB/Swiss-Prot Subcellular Location
    vocabulary mapping, accompanied by conservative changes to GO terms applied by
    UniProt
  findings: []
- id: GO_REF:0000107
  title: Automatic transfer of experimentally verified manual GO annotation data to
    orthologs using Ensembl Compara
  findings: []
- id: GO_REF:0000117
  title: Electronic Gene Ontology annotations created by ARBA machine learning models
  findings: []
- id: GO_REF:0000120
  title: Combined Automated Annotation using Multiple IEA Methods
  findings: []
- id: PMID:10692436
  title: Ca(2+)-dependent and Ca(2+)-independent calmodulin binding sites in erythrocyte
    protein 4.1. Implications for regulation of protein 4.1 interactions with transmembrane
    proteins.
  findings: []
- id: PMID:10899953
  title: Calmodulin regulation of basal and agonist-stimulated G protein coupling
    by the mu-opioid receptor (OP(3)) in morphine-pretreated cell.
  findings: []
- id: PMID:11807546
  title: Structural basis for the activation of anthrax adenylyl cyclase exotoxin
    by calmodulin.
  findings: []
- id: PMID:11984006
  title: The Chediak-Higashi protein interacts with SNARE complex and signal transduction
    proteins.
  findings: []
- id: PMID:15140941
  title: Ca2+-binding protein-1 facilitates and forms a postsynaptic complex with
    Cav1.2 (L-type) Ca2+ channels.
  findings: []
- id: PMID:15632291
  title: Myristoyl moiety of HIV Nef is involved in regulation of the interaction
    with calmodulin in vivo.
  findings: []
- id: PMID:16760425
  title: CP110 cooperates with two calcium-binding proteins to regulate cytokinesis
    and genome stability.
  findings: []
- id: PMID:19190083
  title: 'Characterization of exosome-like vesicles released from human tracheobronchial
    ciliated epithelium: a possible role in innate defense.'
  findings: []
- id: PMID:19855925
  title: Structural analysis of the complex between calmodulin and full-length myelin
    basic protein, an intrinsically disordered molecule.
  findings: []
- id: PMID:20226167
  title: Defective calmodulin binding to the cardiac ryanodine receptor plays a key
    role in CPVT-associated channel dysfunction.
  findings: []
- id: PMID:20668654
  title: Structure of the CaMKIIdelta/calmodulin complex reveals the molecular mechanism
    of CaMKII kinase activation.
  findings: []
- id: PMID:21167176
  title: Solution NMR structure of Apo-calmodulin in complex with the IQ motif of
    human cardiac sodium channel NaV1.5.
  findings: []
- id: PMID:21299499
  title: 'IQ-motif selectivity in human IQGAP2 and IQGAP3: binding of calmodulin and
    myosin essential light chain.'
  findings: []
- id: PMID:21630459
  title: Proteomic characterization of the human sperm nucleus.
  findings: []
- id: PMID:22926577
  title: Quantitative proteomic analysis of human substantia nigra in Alzheimer's
    disease, Huntington's disease and Multiple sclerosis.
  findings: []
- id: PMID:23040497
  title: Mutations in calmodulin cause ventricular tachycardia and sudden cardiac
    death.
  findings: []
- id: PMID:27516456
  title: Novel CPVT-Associated Calmodulin Mutation in CALM3 (CALM3-A103V) Activates
    Arrhythmogenic Ca Waves and Sparks.
  findings: []
- id: PMID:3111527
  title: 'Comparison of S100b protein with calmodulin: interactions with melittin
    and microtubule-associated tau proteins and inhibition of phosphorylation of tau
    proteins by protein kinase C.'
  findings: []
- id: PMID:31454269
  title: Genetic Mosaicism in Calmodulinopathy.
  findings: []
- id: PMID:35271311
  title: 'OpenCell: Endogenous tagging for the cartography of human cellular organization.'
  findings: []
- id: PMID:35568036
  title: A family of conserved bacterial virulence factors dampens interferon responses
    by blocking calcium signaling.
  findings: []
- id: PMID:7607248
  title: A calmodulin-binding sequence in the C-terminus of human cardiac titin kinase.
  findings: []
- id: PMID:8631777
  title: Blocking the Ca2+-induced conformational transitions in calmodulin with disulfide
    bonds.
  findings: []
- id: Reactome:R-HSA-9956602
  title: CALM binds bacterial OspC3
  findings: []
- id: Reactome:R-HSA-9956624
  title: OspC3 ADP-riboxanates CASP4
  findings: []
- id: Reactome:R-HSA-9956667
  title: CASP4 binds CALM:OspC3
  findings: []
- id: PMID:9681195
  title: Characterization of the human CALM2 calmodulin gene and comparison of the
    transcriptional activity of CALM1, CALM2 and CALM3.
  findings: []
- id: file:human/CALM3/CALM3-notes.md
  title: Curator notes for CALM3 review
  findings: []
core_functions:
- description: Primary intracellular calcium sensor. CALM3-encoded calmodulin binds
    calcium through four EF-hand motifs and converts calcium fluctuations into target-protein
    regulation.
  molecular_function:
    id: GO:0005509
    label: calcium ion binding
  locations:
  - id: GO:0005737
    label: cytoplasm
  directly_involved_in:
  - id: GO:0005513
    label: detection of calcium ion
  supported_by:
  - reference_id: PMID:27516456
    supporting_text: Humans have 3 CaM genes ( CALM1 , CALM2 , and CALM3 ) encoding
      for a perfectly conserved sequence of amino acids
  - reference_id: PMID:23040497
    supporting_text: Both CALM1 substitutions demonstrated compromised calcium binding
- description: Core calcium-dependent signal-transduction adaptor for kinase and phosphatase
    regulation, especially CaMK and calcineurin pathways.
  molecular_function:
    id: GO:0043539
    label: protein serine/threonine kinase activator activity
  locations:
  - id: GO:0005737
    label: cytoplasm
  directly_involved_in:
  - id: GO:0097720
    label: calcineurin-mediated signaling
  supported_by:
  - reference_id: PMID:20668654
    supporting_text: Structure of the CaMKIIdelta/calmodulin complex reveals the molecular
      mechanism of CaMKII kinase activation.
  - reference_id: PMID:35568036
    supporting_text: IFN inhibition was mediated by the binding of OspC1 and OspC3
      to the Ca2+ sensor calmodulin (CaM), blocking CaM kinase II
  - reference_id: PMID:8631777
    supporting_text: Blocking the Ca2+-induced conformational transitions in calmodulin
      with disulfide bonds.
- description: Regulator of cardiac and other excitable-cell calcium channels, especially
    RyR2 and high-voltage-gated calcium-channel pathways.
  molecular_function:
    id: GO:0005246
    label: calcium channel regulator activity
  locations:
  - id: GO:0005737
    label: cytoplasm
  directly_involved_in:
  - id: GO:0010880
    label: regulation of release of sequestered calcium ion into cytosol by sarcoplasmic
      reticulum
  supported_by:
  - reference_id: PMID:20226167
    supporting_text: the addition of a high concentration of CaM attenuated the aberrant
      increase of Ca(2+) sparks
  - reference_id: PMID:27516456
    supporting_text: A103V-CaM (100 nmol/L) promoted spontaneous Ca wave and spark
      activity
  - reference_id: PMID:31454269
    supporting_text: Human-induced pluripotent stem cell-derived cardiomyocytes overexpressing
      mutant or wild-type CaM showed that both mutants impaired Ca2+-dependent inactivation
      of L-type Ca2+ channels and prolonged action potential duration
- description: Centrosome-associated regulator of late cytokinesis through CP110/centrin-containing
    cell-division machinery.
  molecular_function:
    id: GO:0019901
    label: protein kinase binding
  locations:
  - id: GO:0005813
    label: centrosome
  - id: GO:0000922
    label: spindle pole
  directly_involved_in:
  - id: GO:0032465
    label: regulation of cytokinesis
  supported_by:
  - reference_id: PMID:16760425
    supporting_text: its depletion leads to a failure at a late stage of cytokinesis
      and the formation of binucleate cells