Tchem FDFT1 Squalene synthase

Protein Summary

Description

This gene encodes a membrane-associated enzyme located at a branch point in the mevalonate pathway. The encoded protein is the first specific enzyme in cholesterol biosynthesis, catalyzing the dimerization of two molecules of farnesyl diphosphate in a two-step reaction to form squalene. [provided by RefSeq, Jul 2008]

Uniprot Accession IDs

• P37268
• B3KQ95
• B4DJE5
• B4DT56
• B7Z1J3
• Q96GT0
• SQS

Gene Name

• FDFT1

Ensembl ID

• ENST00000220584
• ENSP00000220584
• ENSG00000079459
• ENST00000443614
• ENSP00000390367
• ENST00000525777
• ENSP00000436069
• ENST00000528643
• ENSP00000431649
• ENST00000528812
• ENSP00000431749
• ENST00000530664
• ENSP00000432331
• ENST00000538689
• ENSP00000444248
• ENST00000615631
• ENSP00000481481
• ENST00000618539
• ENSP00000480828
• ENST00000622850
• ENSP00000484122
• ENST00000623368
• ENSP00000485229

Symbol

• SS
• SQS
• DGPT
• ERG9
• SQSD

Knowledge Table

Most Knowledge About	Knowledge Value (0 to 1 scale)
ligand (chemical)	1
transcription factor perturbation	1
kinase perturbation	0.99
disease perturbation	0.97
interacting protein	0.95

Related Tools

Target Illumination GWAS Analytics (TIGA)

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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: 458.89   (req: < 5)

Gene RIFs: 21   (req: <= 3)

Antibodies: 401   (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: 458.89   (req: >= 5)

Gene RIFs: 21   (req: > 3)

Antibodies: 401   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 9

Tchem

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

Active Ligands: 208

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

ibandronic acid

FDFT1Tchem Enzyme

IC50 : 6.19

Active Ligands (208)

Explore Active Ligands

1 – 10 of 208

CHEMBL15929

FDFT1Tchem Enzyme

IC50 : 7.22

CHEMBL86513,CHEMBL78510

FDFT1Tchem Enzyme

IC50 : 7.75

CHEMBL54714

FDFT1Tchem Enzyme

IC50 : 6.62

CHEMBL497618

FDFT1Tchem Enzyme

Ki : 6

CHEMBL1761659

FDFT1Tchem Enzyme

IC50 : 6.03

CHEMBL490494

FDFT1Tchem Enzyme

IC50 : 6.1

CHEMBL1684848

FDFT1Tchem Enzyme

IC50 : 6.11

CHEMBL561057

FDFT1Tchem Enzyme

Ki : 6.13000011

CHEMBL495623

FDFT1Tchem Enzyme

Ki : 6.13

CHEMBL514788

FDFT1Tchem Enzyme

IC50 : 6.14

GWAS Traits (7)

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GWAS Trait	EFO ID	Study Count	SNP Count	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
C-reactive protein measurement	EFO_0004458	2	3	3		97.9
neuroticism measurement	EFO_0007660	2	3	3		82.6
appendicular lean mass	EFO_0004980	1	1	1		73.5
lymphocyte count	EFO_0004587	1	1	1		57.7
reticulocyte count	EFO_0007986	2	2	2		54

• Explore on Target Illumination GWAS Analytics (TIGA)

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GWAS Trait	EFO ID	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
C-reactive protein measurement	EFO_0004458	3		97.9
neuroticism measurement	EFO_0007660	3		82.6
appendicular lean mass	EFO_0004980	1		73.5
lymphocyte count	EFO_0004587	1		57.7
reticulocyte count	EFO_0007986	2		54

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Orthologs (13)

1 – 5 of 13

Species	Name	Source ID	Gene ID	OMA	EggNOG	Inparanoid
Chimp	farnesyl-diphosphate farnesyltransferase 1	VGNC:3014	740684
Macaque	farnesyl-diphosphate farnesyltransferase 1		696396
Mouse	farnesyl diphosphate farnesyl transferase 1	MGI:102706	14137
Rat	farnesyl diphosphate farnesyl transferase 1	RGD:61834	29580
Dog	farnesyl-diphosphate farnesyltransferase 1	VGNC:40811	477362

Species	Name	OMA	EggNOG	Inparanoid
Chimp	farnesyl-diphosphate farnesyltransferase 1
Macaque	farnesyl-diphosphate farnesyltransferase 1
Mouse	farnesyl diphosphate farnesyl transferase 1
Rat	farnesyl diphosphate farnesyl transferase 1
Dog	farnesyl-diphosphate farnesyltransferase 1

Protein Data Bank (26)

1 – 5 of 26

PDB Structure Id	Ligand	Method	Resolution (Å)	M.W. (kDa)	Pub Year	Title

PDB Structure Id	M.W.	Resolution	Pub Year

Pathways (57)

Reactome (8)

KEGG (2)

PathwayCommons (7)

UniProt (1)

WikiPathways (39)

Activation of gene expression by SREBF (SREBP) (R-HSA-2426168)

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Data Source	Name	Explore in Pharos	Explore in Source
Reactome	Activation of gene expression by SREBF (SREBP)	42 targets	R-HSA-2426168
Reactome	Cholesterol biosynthesis	25 targets	R-HSA-191273
Reactome	Metabolism	2112 targets	R-HSA-1430728
Reactome	Metabolism of lipids	740 targets	R-HSA-556833
Reactome	Metabolism of steroids	151 targets	R-HSA-8957322

Name	Explore in Pharos	Explore in Source
Activation of gene expression by SREBF (SREBP)	42 targets	R-HSA-2426168
Cholesterol biosynthesis	25 targets	R-HSA-191273
Metabolism	2112 targets	R-HSA-1430728
Metabolism of lipids	740 targets	R-HSA-556833
Metabolism of steroids	151 targets	R-HSA-8957322

Gene Ontology Terms (12)

Functions (2)

Components (3)

Processes (7)

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1 – 2 of 2

GO Term	Evidence	Assigned by
farnesyl-diphosphate farnesyltransferase activity	Inferred from Biological aspect of Ancestor (IBA)	GO_Central
squalene synthase activity	Inferred from Biological aspect of Ancestor (IBA)	GO_Central

Protein-Protein Interactions (173)

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1 – 10 of 173

• See Interactions on String-DB

USP32

Tbio

Family: Enzyme

Novelty: 0.08043957

p_int: 0.999999775

p_ni: 2.25e-7

Score: 0.239

Data Source: BioPlex,STRINGDB

UNC93B1

Tbio

Novelty: 0.01288921

p_int: 0.999726218

p_ni: 0.000273772

p_wrong: 9e-9

Score: 0.309

Data Source: BioPlex,STRINGDB

CNNM1

Tdark

Novelty: 0.11053515

p_int: 0.999022393

p_ni: 0.00097411

p_wrong: 0.000003497

Score: 0.174

Data Source: BioPlex,STRINGDB

P2RX1

Tchem

Family: IC

Novelty: 0.00286826

p_int: 0.99736686

p_ni: 0.00263314

Score: 0.189

Data Source: BioPlex,STRINGDB

ADGRE5

Tbio

Family: GPCR

Novelty: 0.01137558

p_int: 0.891277721

p_ni: 0.108722279

Data Source: BioPlex

POMT2

Tbio

Family: Enzyme

Novelty: 0.0251595

p_int: 0.777360097

p_ni: 0.222639056

p_wrong: 8.47e-7

Score: 0.205

Data Source: BioPlex,STRINGDB

SQLE

Tchem

Family: Enzyme

Novelty: 0.0059338

Score: 0.997

Data Source: STRINGDB

FDPS

Tclin

Family: Enzyme

Novelty: 0.00164195

Score: 0.997

Data Source: STRINGDB

GGPS1

Tchem

Family: Enzyme

Novelty: 0.00292258

Score: 0.995

Data Source: STRINGDB

LSS

Tchem

Family: Enzyme

Novelty: 0.00735187

Score: 0.992

Data Source: STRINGDB

Publication Statistics

PubMed Score  458.89

PubMed score by year

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PubTator Score  171.73

PubTator score by year

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Amino Acid Sequence

Residue Counts

Protein Sequence

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Find similar targets by:

UniProt Keyword Find Similar Targets

3D-structure
Alternative splicing
Cholesterol biosynthesis
Cholesterol metabolism
Complete proteome
Endoplasmic reticulum
Isoprene biosynthesis
Lipid biosynthesis
Lipid metabolism
Magnesium

GWAS Trait Find Similar Targets

appendicular lean mass
C-reactive protein measurement
lymphocyte count
neuroticism measurement
platelet count
reticulocyte count
reticulocyte measurement

MGI Phenotype Find Similar Targets

behavior/neurological phenotype
embryo phenotype
growth/size/body region phenotype
mortality/aging
nervous system phenotype
reproductive system phenotype