Tchem TPCN2 Two pore calcium channel protein 2

Protein Classes

DTO Classes

Protein / Ion Channel / Calcium Channel Alpha-1 Subunit Family / Two Pore Calcium Channel Subfamily / Two Pore Calcium Channel Protein 2

Protein Summary

Description

Nicotinic acid adenine dinucleotide phosphate (NAADP) receptor that may function as one of the major voltage-gated Ca(2+) channels (VDCC) across the lysosomal membrane. May be involved in smooth muscle contraction. This gene encodes a putative cation-selective ion channel with two repeats of a six-transmembrane-domain. The protein localizes to lysosomal membranes and enables nicotinic acid adenine dinucleotide phosphate (NAADP) -induced calcium ion release from lysosome-related stores. This ubiquitously expressed gene has elevated expression in liver and kidney. Two common nonsynonymous SNPs in this gene strongly associate with blond versus brown hair pigmentation.[provided by RefSeq, Dec 2009]

Uniprot Accession IDs

• Q8NHX9
• Q9NT82

Gene Name

• TPCN2

Ensembl ID

• ENST00000294309
• ENSP00000294309
• ENSG00000162341

Symbol

• TPC2
• TPC2
• SHEP10

Knowledge Table

Most Knowledge About	Knowledge Value (0 to 1 scale)
molecular function	0.96
cell line	0.59
cellular component	0.56
histone modification site profile	0.56
biological process	0.55

Related Tools

Target Illumination GWAS Analytics (TIGA)

TIGA scores and ranks GWAS discovered associations according to the quantity and quality of the evidence supporting the association.

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GENEVA

GENEVA (GENe Expression Variance Analysis) allows you to identify RNA-sequencing datasets from the Gene Expression Omnibus (GEO) that contain conditions modulating a gene or a gene signature.

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GlyGen

GlyGen is a data integration and dissemination project for carbohydrate and glycoconjugate related data.

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ARCHS4

ARCHS4 provides access to gene-function predictions based on RNA-seq co-expression, and gene expression levels across cell and tissues.

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IDG Development Level Summary

Tdark

These are targets about which virtually nothing is known. They do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 93.21   (req: < 5)

Gene RIFs: 24   (req: <= 3)

Antibodies: 71   (req: <= 50)

Tbio

These targets do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 93.21   (req: >= 5)

Gene RIFs: 24   (req: > 3)

Antibodies: 71   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 12

Tchem

Target has at least one ChEMBL compound with an activity cutoff of < 30 nM - AND - satisfies the preceding conditions

Active Ligand: 1

Tclin

Target has at least one approved drug - AND - satisfies the preceding conditions

Active Drug: 1

Approved Drugs (1)

Explore Approved Drugs

1 – 1 of 1

verapamil

TPCN2Tchem IC

IC50 : 5

Active Ligands (1)

Explore Active Ligands

1 – 1 of 1

phosphatidyl (3,5) inositol bisphosphate

TPCN2Tchem IC

EC50 : 6.4000001

GWAS Traits (7)

• Explore on Target Illumination GWAS Analytics (TIGA)

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1 – 5 of 7

GWAS Trait	EFO ID	Study Count	SNP Count	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
hair color	EFO_0003924	6	7	0	1.6	99
heel bone mineral density	EFO_0009270	3	2	6		96.7
hair colour measurement	EFO_0007822	1	1	1		89.7
suntan	EFO_0004279	1	1	1		82.3
type II diabetes mellitus	EFO_0001360	2	2	1	1.1	69.2

• Explore on Target Illumination GWAS Analytics (TIGA)

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5

1 – 5 of 7

GWAS Trait	EFO ID	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
hair color	EFO_0003924	0	1.6	99
heel bone mineral density	EFO_0009270	6		96.7
hair colour measurement	EFO_0007822	1		89.7
suntan	EFO_0004279	1		82.3
type II diabetes mellitus	EFO_0001360	1	1.1	69.2

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Orthologs (12)

1 – 5 of 12

Species	Name	Source ID	Gene ID	OMA	EggNOG	Inparanoid
Chimp	two pore segment channel 2	VGNC:53181	747605
Macaque	two pore segment channel 2		709391
Mouse	two pore segment channel 2	MGI:2385297	233979
Rat	two pore segment channel 2	RGD:1311779	309139
Dog	two pore segment channel 2	VGNC:47733	483683

Species	Name	OMA	EggNOG	Inparanoid
Chimp	two pore segment channel 2
Macaque	two pore segment channel 2
Mouse	two pore segment channel 2
Rat	two pore segment channel 2
Dog	two pore segment channel 2

Protein Structure (0 Structures, 1 AlphaFold Model)

Representation

  axes   backbone   ball+stick   cartoon   rocket   rope   spacefill

Color Scheme

  target   atomindex   bfactor   chainname   electrostatic   element   hydrophobicity   resname   sstruc

AF-Q8NHX9-F1-model_v1

AlphaFold Structures Developed by DeepMind and EMBL-EBI

Pathways (8)

Reactome (3)

KEGG (2)

PathwayCommons (1)

WikiPathways (2)

Ion channel transport (R-HSA-983712)

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Data Source	Name	Explore in Pharos	Explore in Source
Reactome	Ion channel transport	179 targets	R-HSA-983712
Reactome	Stimuli-sensing channels	102 targets	R-HSA-2672351
Reactome	Transport of small molecules	725 targets	R-HSA-382551

Name	Explore in Pharos	Explore in Source
Ion channel transport	179 targets	R-HSA-983712
Stimuli-sensing channels	102 targets	R-HSA-2672351
Transport of small molecules	725 targets	R-HSA-382551

Gene Ontology Terms (16)

Functions (4)

Components (4)

Processes (8)

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10

1 – 4 of 4

GO Term	Evidence	Assigned by
NAADP-sensitive calcium-release channel activity	Inferred from Direct Assay (IDA)	UniProtKB
identical protein binding	Inferred from Physical Interaction (IPI)	IntAct
protein kinase binding	Inferred from Physical Interaction (IPI)	UniProtKB
voltage-gated calcium channel activity	Inferred from Sequence or structural Similarity (ISS)	UniProtKB

Protein-Protein Interactions (102)

Explore Interacting Targets

1 – 10 of 102

• See Interactions on String-DB

TMEM154

Tdark

Novelty: 0.08935925

p_int: 0.999999544

p_ni: 4.56e-7

Data Source: BioPlex

ANKRD27

Tbio

Novelty: 0.02843267

p_int: 0.999997386

p_ni: 0.000002611

p_wrong: 2e-9

Score: 0.179

Data Source: BioPlex,STRINGDB

AGBL5

Tbio

Family: Enzyme

Novelty: 0.05735805

p_int: 0.999997229

p_ni: 0.000002771

Data Source: BioPlex

USP32

Tbio

Family: Enzyme

Novelty: 0.08043957

p_int: 0.99992695

p_ni: 0.00007305

Score: 0.301

Data Source: BioPlex,STRINGDB

DENND6A

Tbio

Novelty: 4.5572617

p_int: 0.999695866

p_ni: 0.000304134

Data Source: BioPlex

TRAPPC8

Tdark

Novelty: 0.07711264

p_int: 0.999244102

p_ni: 0.000755898

Score: 0.174

Data Source: BioPlex,STRINGDB

WDR44

Tdark

Novelty: 0.02158824

p_int: 0.998743296

p_ni: 0.001256704

Data Source: BioPlex

PTPRA

Tchem

Family: Enzyme

Novelty: 0.01392344

p_int: 0.998536699

p_ni: 0.000027812

p_wrong: 0.001435488

Score: 0.158

Data Source: BioPlex,STRINGDB

CLCN3

Tchem

Family: IC

Novelty: 0.00416196

p_int: 0.997947216

p_ni: 0.002045274

p_wrong: 0.00000751

Score: 0.172

Data Source: BioPlex,STRINGDB

FBXO10

Tbio

Novelty: 0.18324932

p_int: 0.99694949

p_ni: 0.002653057

p_wrong: 0.000397453

Data Source: BioPlex

Publication Statistics

PubMed Score  93.21

PubMed score by year

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PubTator Score  43.02

PubTator score by year

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Patents

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Amino Acid Sequence

Residue Counts

Protein Sequence

Show Full Sequence

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Find similar targets by:

UniProt Keyword Find Similar Targets

Calcium
Calcium channel
Calcium transport
Complete proteome
Glycoprotein
Ion channel
Ion transport
Lysosome
Membrane
Polymorphism

GWAS Trait Find Similar Targets

glomerular filtration rate
hair color
hair colour measurement
heel bone mineral density
leukocyte count
suntan
type II diabetes mellitus

MGI Phenotype Find Similar Targets

endocrine/exocrine gland phenotype