Vitamin D-sensitive calcium signaling in depression (Homo sapiens)

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ArcPathVisio Brace Ellipse EndoplasmicReticulum GolgiApparatus HexagonPathVisio MimDegradation Mitochondria Octagon PentagonPathVisio Rectangle RoundedRectangle SarcoplasmicReticulum TriangleEquilateralEast TrianglePathVisio none ERCalcium pumpSuperoxideAntioxidant genesVDREVDR target genesNMDAreceptorHyperpolarizationOpenInsP3RDemethylasesHepatocyteNeuronSkinSunlightRXRAGGT1G6PDGSRGPXGCLCATP2B4ATP2B3ATP2B2ATP2B1Inflammatory cytokinesTPH1CACNA1CITPR3ITPR1ITPR2KDM1BKDM3AKDM6BKDM1ACHRM1TPH2PVALBSLC8A1CalbindinNFE2L2PMCAGRIN2BGRIN2DGRIN2CGRIN1GRIN2ACalbindinCa2+Inositol 1,4,5-trisphosphateKetamineVitamin D pathwayCYP27A1GRM5DiacylglycerolGlutamatePLCAcetylcholineKCNQ2KCNQ3PIP2VDR1,25-(OH)2D3H2O2Na+25(OH)D3Vitamin D3K+BCL2Ca2+Li+Vitamin D37-DehydrocholesterolCYP27B11,25-(OH)2D3Ca2+Ca2+SLC8A1Ca2+KCNQ2KCNQ3ShutDepolarizationM-currentCACNA1CVDRNFE2L2AREVDR1,25-(OH)2D3RXRANa+Ca2+Ca2+DepressionNucleusEndoplasmicreticulumName: Vitamin D-sensitive calcium signaling in depressionOrganism: Homo sapiens


Description

Depression has been linked to (lack of) sunlight exposure and raised intracellular calcium levels. In this pathway, the role of the vitamin D pathway in calcium signaling in depression is shown. Active 1,25-dihydroxy-vitamin D3 is formed from 7-dehydrocholesterol by multiple conversion steps. It associates with RXR and VDR in the nucleus, which stimulates transcription of VDR target genes, resulting in lower intracellular calcium levels. Less sunlight exposure results in lower 1,25-dihydroxyvitamin D3 levels and therefore higher calcium levels.

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Quality Tags

Image:Curated.pngApproved version
Image:Unconnected.pngFix interactions
Image:MissingXref.pngAnnotate nodes

Ontology Terms

Bibliography

  1. Xuan Qin, Xin Wang; ''Role of vitamin D receptor in the regulation of CYP3A gene expression''; Acta Pharmaceutica Sinica B, 2019 PubMed Europe PMC Scholia
  2. Berridge MJ; ''Vitamin D and Depression: Cellular and Regulatory Mechanisms.''; Pharmacol Rev, 2017 PubMed Europe PMC Scholia

History

View all...
CompareRevisionActionTimeUserComment
136779
Approved
view00:31, 21 February 2025EweitzRefine cell type label placement
136778view00:30, 21 February 2025EweitzStandardize case, refine z-index, align nodes
136777view00:22, 21 February 2025EweitzEconomize layout
136776view13:59, 20 February 2025EweitzOntology Term : 'neuron' added !
136775view13:58, 20 February 2025EweitzOntology Term : 'hepatocyte' added !
136774view13:58, 20 February 2025EweitzOntology Term : 'epidermal cell' added !
136773view13:56, 20 February 2025EweitzLabel organelles
136772view13:51, 20 February 2025EweitzStandardize case
136771view13:51, 20 February 2025EweitzMove label closer
136770view13:50, 20 February 2025EweitzRefine padding, "NMDA receptor" labeling
136769view13:50, 20 February 2025EweitzRefine alignment, fill color
136768view13:46, 20 February 2025EweitzConnect to sunlight
136767view13:46, 20 February 2025EweitzRefine z-index layering
136766view13:42, 20 February 2025EweitzEconomize layout
136765view13:35, 20 February 2025EweitzRefine cell, metabolite placement
136764view13:33, 20 February 2025EweitzUpgrade nodes for sunlight and depression
136763view13:26, 20 February 2025EweitzEconomize layout
136762view13:17, 20 February 2025EweitzEconomize layout
136761view13:04, 20 February 2025EweitzEconomize layout
136760view12:56, 20 February 2025EweitzEconomize layout
136759view12:54, 20 February 2025EweitzTailor node heights
136758view12:51, 20 February 2025EweitzEconomize layout
136757view12:42, 20 February 2025EweitzImprove readability of cell type labels
136756view12:38, 20 February 2025EweitzEconomize layout
136755view12:36, 20 February 2025EweitzEconomize layout
136754view12:33, 20 February 2025EweitzEconomize layout
134350view05:37, 21 July 2024EgonwRemoved a template comment
123493view04:50, 29 July 2022EgonwMade a pathway clickable
119119view08:49, 18 June 2021FinterlyAdded PMID
110708view14:35, 28 May 2020Marvin M2changed unknown datanodes to labels
107972view13:34, 18 November 2019Fehrhartchanged connections to grahpical lines
107718view09:14, 31 October 2019Leonievdvenchanged label into correct metabolites
107717view09:10, 31 October 2019LeonievdvenConnected lines to nodes
107487view14:26, 14 October 2019LeonievdvenChanged visual elements, added complexes
107441view12:12, 8 October 2019LeonievdvenAdded groups/complexes and changed labels into properly annotated genes
107319view11:04, 23 September 2019EgonwInsP3R is a metabolite
106811view13:29, 17 September 2019MaintBotHMDB identifier normalization
106613view07:38, 12 September 2019LeonievdvenChanged secondary ChEBI identifiers to primary identifiers
106611view12:43, 11 September 2019Marvin M2Ontology Term : 'mental depression' added !
106610view12:38, 11 September 2019Marvin M2Ontology Term : 'altered calcium/calcium-mediated signaling pathway' added !
106565view15:06, 6 September 2019LeonievdvenModified description
106564view15:05, 6 September 2019LeonievdvenModified title
106563view15:04, 6 September 2019LeonievdvenModified description
106562view15:02, 6 September 2019LeonievdvenNew pathway

External references

DataNodes

View all...
Name  ↓Type  ↓Database reference  ↓Comment  ↓
1,25-(OH)2D3MetaboliteHMDB0000876 (HMDB)
25(OH)D3 MetaboliteHMDB0003550 (HMDB)
7-DehydrocholesterolMetaboliteCHEBI:17759 (ChEBI)
ATP2B1GeneProductENSG00000070961 (Ensembl)
ATP2B2GeneProductENSG00000157087 (Ensembl)
ATP2B3GeneProductENSG00000067842 (Ensembl)
ATP2B4GeneProductENSG00000058668 (Ensembl)
AcetylcholineMetaboliteCHEBI:15355 (ChEBI)
BCL2GeneProductENSG00000171791 (Ensembl)
CACNA1CGeneProductENSG00000151067 (Ensembl)
CHRM1GeneProductENSG00000168539 (Ensembl)
CYP27A1GeneProductENSG00000135929 (Ensembl)
CYP27B1GeneProductENSG00000111012 (Ensembl)
Ca2+MetaboliteCHEBI:29108 (ChEBI)
CalbindinProteinP05937 (Uniprot-TrEMBL)
DepressionQ4340209 (Wikidata)
DiacylglycerolMetaboliteCHEBI:18035 (ChEBI)
G6PDGeneProductENSG00000160211 (Ensembl)
GCLCGeneProductENSG00000001084 (Ensembl)
GGT1GeneProductENSG00000100031 (Ensembl)
GPXProteinA0A087WT12 (Uniprot-TrEMBL)
GRIN1GeneProductENSG00000176884 (Ensembl)
GRIN2AGeneProductGRIN2A (HGNC)
GRIN2BGeneProductENSG00000273079 (Ensembl)
GRIN2CGeneProductGRIN2C (HGNC)
GRIN2DGeneProductENSG00000105464 (Ensembl)
GRM5GeneProductENSG00000168959 (Ensembl)
GSRGeneProductENSG00000104687 (Ensembl)
GlutamateMetaboliteCHEBI:14321 (ChEBI)
H2O2MetaboliteCHEBI:16240 (ChEBI)
ITPR1GeneProductENSG00000150995 (Ensembl)
ITPR2GeneProductENSG00000123104 (Ensembl)
ITPR3GeneProductENSG00000096433 (Ensembl)
Inflammatory cytokines Metabolite
Inositol 1,4,5-trisphosphateMetaboliteHMDB0001498 (HMDB)
K+MetaboliteCHEBI:29103 (ChEBI)
KCNQ2GeneProductENSG00000075043 (Ensembl)
KCNQ3GeneProductENSG00000184156 (Ensembl)
KDM1AGeneProductENSG00000004487 (Ensembl)
KDM1BGeneProductENSG00000165097 (Ensembl)
KDM3AGeneProductENSG00000115548 (Ensembl)
KDM6BGeneProductENSG00000132510 (Ensembl)
KetamineMetaboliteHMDB0015352 (HMDB)
Li+MetaboliteCHEBI:49713 (ChEBI)
NFE2L2GeneProductENSG00000116044 (Ensembl)
Na+MetaboliteCHEBI:29101 (ChEBI)
PIP2MetaboliteCHEBI:18348 (ChEBI)
PLCGeneProduct
PMCAComplex
PVALBGeneProductENSG00000100362 (Ensembl)
RXRAGeneProductENSG00000186350 (Ensembl)
SLC8A1GeneProductENSG00000183023 (Ensembl)
SunlightQ193788 (Wikidata)
SuperoxideMetaboliteCHEBI:18421 (ChEBI)
TPH1GeneProductENSG00000129167 (Ensembl)
TPH2GeneProductENSG00000139287 (Ensembl)
VDRGeneProductENSG00000111424 (Ensembl)
Vitamin D pathwayPathwayWP2877 (WikiPathways)
Vitamin D3MetaboliteCHEBI:28940 (ChEBI)

Annotated Interactions

No annotated interactions

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