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CALM3 calmodulin 3 [ Homo sapiens (human) ]

Gene ID: 808, updated on 2-Nov-2024

Summary

Official Symbol
CALM3provided by HGNC
Official Full Name
calmodulin 3provided by HGNC
Primary source
HGNC:HGNC:1449
See related
Ensembl:ENSG00000160014 MIM:114183; AllianceGenome:HGNC:1449
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
CaM; CALM; CAM1; CAM2; CAMB; PHKD; CPVT6; LQT16; PHKD3; CaMIII; HEL-S-72
Summary
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]
Expression
Ubiquitous expression in brain (RPKM 470.4), testis (RPKM 108.1) and 23 other tissues See more
Orthologs
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

See CALM3 in Genome Data Viewer
Location:
19q13.32
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (46601074..46610782)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (49426688..49436397)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (47104331..47114039)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene PNMA family member 8B Neighboring gene ReSE screen-validated silencer GRCh37_chr19:47025347-47025526 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10813 Neighboring gene PPP5 tetratricopeptide repeat domain containing 1, pseudogene Neighboring gene glyceraldehyde 3 phosphate dehydrogenase pseudogene 38 Neighboring gene MPRA-validated peak3525 silencer Neighboring gene MPRA-validated peak3526 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14842 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10814 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14843 Neighboring gene uncharacterized LOC124904729 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14844 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14845 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:47119779-47120280 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:47120281-47120780 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:47124126-47124640 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:47128561-47129061 Neighboring gene prostaglandin I2 receptor Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10815 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10816 Neighboring gene Sharpr-MPRA regulatory region 2120 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10818 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10819 Neighboring gene G protein subunit gamma 8 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:47157789-47158515 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10820 Neighboring gene dishevelled binding antagonist of beta catenin 3 Neighboring gene DACT3 antisense RNA 1

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

Related articles in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

Associated conditions

Description Tests
Long QT syndrome 16
MedGen: C5394068 OMIM: 618782 GeneReviews: Long QT Syndrome Overview
Compare labs

Copy number response

Description
Copy number response
Haploinsufficency

No evidence available (Last evaluated 2024-07-09)

ClinGen Genome Curation Page
Triplosensitivity

No evidence available (Last evaluated 2024-07-09)

ClinGen Genome Curation Page

EBI GWAS Catalog

Description
Host-microbe interactions have shaped the genetic architecture of inflammatory bowel disease.
EBI GWAS Catalog

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp160, precursor env The calmodulin-binding domains in HIV-1 gp160 are involved in Fas-mediated apoptosis PubMed
env The carboxyl-terminal domains (residues 768-788 and 826-854) of HIV-1 gp160 bind to calmodulin (CaM) PubMed
Envelope transmembrane glycoprotein gp41 env The carboxyl terminus (amino acid residues 768-788 and 828-855) of HIV-1 gp41 binds efficiently to purified calmodulin (CaM) and inhibits in vitro CaM-mediated stimulation of phosphodiesterase activity PubMed
env The fusion between CD4+ human cells and cells stably expressing HIV-1 gp41 and gp120 is inhibited by calmodulin PubMed
Nef nef HIV-1 Nef induces interleukin 10 expression through an interaction with the calcium/calmodulin-dependent phosphodiesterase signal transduction pathway PubMed
nef HIV-1 Nef-induced CCL-2/MCP-1 upregulation in astrocytes depends on the myristoylation moiety (residues 2-3) of Nef and requires functional calmodulin PubMed
nef Fluorescence spectroscopy analyses indicate the myristoylated N-terminal eight amino acids of HIV-1 Nef directly interact with calcium bound calmodulin PubMed
matrix gag An HIV-1 MA peptide (residues 8-43) binds to CaM with a very high affinity with dissociation constant 25 nm PubMed
gag Calmodulin (CaM) binding to HIV-1 MA induces the extrusion of the myristate group, suggesting that hydrophobic contacts between CaM and MA are critical for binding PubMed
gag Calmodulin binds to both HIV-1 Gag and Matrix proteins through an extended calmodulin-binding domain in Matrix (amino acids 11-46) PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables adenylate cyclase activator activity IDA
Inferred from Direct Assay
more info
PubMed 
enables adenylate cyclase binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables calcium ion binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables calcium ion binding IDA
Inferred from Direct Assay
more info
PubMed 
enables calcium-dependent protein binding IEA
Inferred from Electronic Annotation
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein kinase binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein phosphatase activator activity IDA
Inferred from Direct Assay
more info
PubMed 
enables protein serine/threonine kinase activator activity IDA
Inferred from Direct Assay
more info
PubMed 
enables protein serine/threonine kinase activator activity TAS
Traceable Author Statement
more info
PubMed 
enables titin binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables transmembrane transporter binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in G protein-coupled receptor signaling pathway TAS
Traceable Author Statement
more info
PubMed 
involved_in G2/M transition of mitotic cell cycle IEA
Inferred from Electronic Annotation
more info
 
involved_in detection of calcium ion IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of calcium ion export across plasma membrane IEA
Inferred from Electronic Annotation
more info
 
involved_in negative regulation of high voltage-gated calcium channel activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of peptidyl-threonine phosphorylation TAS
Traceable Author Statement
more info
PubMed 
involved_in negative regulation of ryanodine-sensitive calcium-release channel activity ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in positive regulation of cyclic-nucleotide phosphodiesterase activity IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of peptidyl-threonine phosphorylation TAS
Traceable Author Statement
more info
PubMed 
involved_in positive regulation of protein autophosphorylation TAS
Traceable Author Statement
more info
PubMed 
involved_in positive regulation of protein serine/threonine kinase activity TAS
Traceable Author Statement
more info
PubMed 
involved_in positive regulation of ryanodine-sensitive calcium-release channel activity IDA
Inferred from Direct Assay
more info
PubMed 
involved_in presynaptic endocytosis IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of calcium-mediated signaling IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of cardiac muscle cell action potential IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of cardiac muscle contraction IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion IC
Inferred by Curator
more info
 
involved_in regulation of cell communication by electrical coupling involved in cardiac conduction IC
Inferred by Curator
more info
 
involved_in regulation of cytokinesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of heart rate IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of release of sequestered calcium ion into cytosol by sarcoplasmic reticulum IDA
Inferred from Direct Assay
more info
PubMed 
involved_in response to calcium ion IDA
Inferred from Direct Assay
more info
PubMed 
involved_in substantia nigra development HEP PubMed 
Component Evidence Code Pubs
part_of calcium channel complex IDA
Inferred from Direct Assay
more info
PubMed 
located_in calyx of Held IEA
Inferred from Electronic Annotation
more info
 
part_of catalytic complex IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in centrosome IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in centrosome IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in cytoplasm TAS
Traceable Author Statement
more info
PubMed 
is_active_in myelin sheath IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in myelin sheath IEA
Inferred from Electronic Annotation
more info
 
located_in nucleus HDA PubMed 
located_in plasma membrane TAS
Traceable Author Statement
more info
PubMed 
located_in presynaptic cytosol IEA
Inferred from Electronic Annotation
more info
 
part_of protein-containing complex IDA
Inferred from Direct Assay
more info
PubMed 
located_in sarcomere IDA
Inferred from Direct Assay
more info
PubMed 
located_in sperm midpiece IEA
Inferred from Electronic Annotation
more info
 
located_in spindle microtubule IDA
Inferred from Direct Assay
more info
PubMed 
located_in spindle pole IDA
Inferred from Direct Assay
more info
PubMed 
located_in vesicle HDA PubMed 
part_of voltage-gated potassium channel complex IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
calmodulin-3
Names
Calmodulin-1
Calmodulin-2
epididymis secretory protein Li 72
phosphorylase kinase subunit delta
phosphorylase kinase subunit delta 3
prepro-calmodulin 3
NP_001316850.1
NP_001316851.1
NP_001316852.1
NP_001316853.1
NP_001316854.1
NP_001316855.1
NP_005175.2

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

  1. NG_051331.1 RefSeqGene

    Range
    5257..14709
    Download
    GenBank, FASTA, Sequence Viewer (Graphics), LRG_1082

mRNA and Protein(s)

  1. NM_001329921.1NP_001316850.1  calmodulin-3 isoform 2

    Status: REVIEWED

    Source sequence(s)
    AC093503
    Consensus CDS
    CCDS86783.1
    UniProtKB/TrEMBL
    A0A9K3Y7M0, D6W5B3, E7ETZ0, H0Y7A7, Q96HY3
    Related
    ENSP00000375785.2, ENST00000391918.6
    Conserved Domains (1) summary
    PTZ00184
    Location:1113
    PTZ00184; calmodulin; Provisional
  2. NM_001329922.1NP_001316851.1  calmodulin-3 isoform 1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR and initiates translation from an alternate start codon compared to variant 1. Both variants 1 and 3 encode the same protein (isoform 1).
    Source sequence(s)
    AC093503, AK295927, AL050207, BC005137, DC316124
    Consensus CDS
    CCDS86782.1
    UniProtKB/Swiss-Prot
    P02593, P0DP23, P0DP24, P0DP25, P62158, P70667, P99014, Q13942, Q53S29, Q61379, Q61380, Q96HK3
    UniProtKB/TrEMBL
    B2RDW0, B4DJ51
    Related
    ENSP00000472141.1, ENST00000596362.1
    Conserved Domains (1) summary
    PTZ00184
    Location:1149
    PTZ00184; calmodulin; Provisional
  3. NM_001329923.1NP_001316852.1  calmodulin-3 isoform 2

    Status: REVIEWED

    Source sequence(s)
    AC093503, AK310762, AL050207, BC005137
    Consensus CDS
    CCDS86783.1
    UniProtKB/TrEMBL
    A0A9K3Y7M0, D6W5B3, E7ETZ0, H0Y7A7, Q96HY3
    Related
    ENSP00000471225.1, ENST00000599839.5
    Conserved Domains (1) summary
    PTZ00184
    Location:1113
    PTZ00184; calmodulin; Provisional
  4. NM_001329924.2NP_001316853.1  calmodulin-3 isoform 2

    Status: REVIEWED

    Source sequence(s)
    AC093503, AL050207, BC005137, BQ428612
    Consensus CDS
    CCDS86783.1
    UniProtKB/TrEMBL
    A0A9K3Y7M0, D6W5B3, E7ETZ0, H0Y7A7, Q96HY3
    Conserved Domains (1) summary
    PTZ00184
    Location:1113
    PTZ00184; calmodulin; Provisional
  5. NM_001329925.2NP_001316854.1  calmodulin-3 isoform 2

    Status: REVIEWED

    Source sequence(s)
    AC093503, AL050207, BC005137, DC405050
    Consensus CDS
    CCDS86783.1
    UniProtKB/TrEMBL
    A0A9K3Y7M0, D6W5B3, E7ETZ0, H0Y7A7, Q96HY3
    Related
    ENSP00000470502.1, ENST00000598871.5
    Conserved Domains (1) summary
    PTZ00184
    Location:1113
    PTZ00184; calmodulin; Provisional
  6. NM_001329926.2NP_001316855.1  calmodulin-3 isoform 2

    Status: REVIEWED

    Source sequence(s)
    AC093503, AL050207, BC005137, BC006182, DA138677
    Consensus CDS
    CCDS86783.1
    UniProtKB/TrEMBL
    A0A9K3Y7M0, D6W5B3, E7ETZ0, H0Y7A7, Q96HY3
    Related
    ENSP00000468877.1, ENST00000594523.5
    Conserved Domains (1) summary
    PTZ00184
    Location:1113
    PTZ00184; calmodulin; Provisional
  7. NM_005184.4NP_005175.2  calmodulin-3 isoform 1

    See identical proteins and their annotated locations for NP_005175.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (1). Variants 1 and 3 encode the same protein (isoform 1).
    Source sequence(s)
    AW883334, BC005137, BC006182
    Consensus CDS
    CCDS33061.1
    UniProtKB/Swiss-Prot
    P02593, P0DP23, P0DP24, P0DP25, P62158, P70667, P99014, Q13942, Q53S29, Q61379, Q61380, Q96HK3
    UniProtKB/TrEMBL
    B2RDW0, B4DJ51
    Related
    ENSP00000291295.8, ENST00000291295.14
    Conserved Domains (1) summary
    PTZ00184
    Location:1149
    PTZ00184; calmodulin; Provisional

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000019.10 Reference GRCh38.p14 Primary Assembly

    Range
    46601074..46610782
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060943.1 Alternate T2T-CHM13v2.0

    Range
    49426688..49436397
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)