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Aliases for FDFT1 Gene

Aliases for FDFT1 Gene

  • Farnesyl-Diphosphate Farnesyltransferase 1 2 3 5
  • FPP:FPP Farnesyltransferase 3 4
  • EC 4 63
  • SQS 3 4
  • SS 3 4
  • Farnesyl-Diphosphate Farnesyltransferase 4
  • Presqualene-Di-Diphosphate Synthase 3
  • Squalene Synthetase 3
  • Squalene Synthase 2
  • DGPT 3
  • ERG9 3

External Ids for FDFT1 Gene

Previous GeneCards Identifiers for FDFT1 Gene

  • GC08P011723
  • GC08P011524
  • GC08P011697
  • GC08P010591
  • GC08P011653

Summaries for FDFT1 Gene

Entrez Gene Summary for FDFT1 Gene

  • 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]

GeneCards Summary for FDFT1 Gene

FDFT1 (Farnesyl-Diphosphate Farnesyltransferase 1) is a Protein Coding gene. Diseases associated with FDFT1 include Congenital Disorder Of Glycosylation, Type Ij and Myasthenic Syndrome, Congenital, 13, With Tubular Aggregates. Among its related pathways are Terpenoid backbone biosynthesis and Regulation of cholesterol biosynthesis by SREBP (SREBF). GO annotations related to this gene include oxidoreductase activity and farnesyl-diphosphate farnesyltransferase activity.

No data available for UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for FDFT1 Gene

Genomics for FDFT1 Gene

Regulatory Elements for FDFT1 Gene

Enhancers for FDFT1 Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around FDFT1 on UCSC Golden Path with GeneCards custom track

Promoters for FDFT1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around FDFT1 on UCSC Golden Path with GeneCards custom track

Genomic Location for FDFT1 Gene

11,795,573 bp from pter
11,839,309 bp from pter
43,737 bases
Plus strand

Genomic View for FDFT1 Gene

Genes around FDFT1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
FDFT1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for FDFT1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for FDFT1 Gene

Proteins for FDFT1 Gene

  • Protein details for FDFT1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Squalene synthase
    Protein Accession:
    Secondary Accessions:
    • B3KQ95
    • B4DJE5
    • B4DT56
    • B7Z1J3
    • Q96GT0

    Protein attributes for FDFT1 Gene

    417 amino acids
    Molecular mass:
    48115 Da
    Name=Mg(2+); Xref=ChEBI:CHEBI:18420;
    Quaternary structure:
    • Monomer.

    Three dimensional structures from OCA and Proteopedia for FDFT1 Gene

    Alternative splice isoforms for FDFT1 Gene


neXtProt entry for FDFT1 Gene

Proteomics data for FDFT1 Gene at MOPED

Selected DME Specific Peptides for FDFT1 Gene

Post-translational modifications for FDFT1 Gene

  • Ubiquitination at Lys 30, Lys 41, Lys 45, Lys 93, Lys 117, Lys 138, Lys 170, Lys 213, Lys 318, and Lys 358
  • Modification sites at PhosphoSitePlus

Domains & Families for FDFT1 Gene

Gene Families for FDFT1 Gene

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the phytoene/squalene synthase family.
  • Belongs to the phytoene/squalene synthase family.
genes like me logo Genes that share domains with FDFT1: view

Function for FDFT1 Gene

Molecular function for FDFT1 Gene

GENATLAS Biochemistry:
farnesyl diphosphate,farnesyltransferase
UniProtKB/Swiss-Prot CatalyticActivity:
2 farnesyl diphosphate + NAD(P)H = squalene + 2 diphosphate + NAD(P)(+).

Enzyme Numbers (IUBMB) for FDFT1 Gene

Gene Ontology (GO) - Molecular Function for FDFT1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0051996 squalene synthase activity IEA --
genes like me logo Genes that share ontologies with FDFT1: view
genes like me logo Genes that share phenotypes with FDFT1: view

Animal Models for FDFT1 Gene

MGI Knock Outs for FDFT1:

Animal Model Products

miRNA for FDFT1 Gene

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for FDFT1 Gene

Localization for FDFT1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for FDFT1 Gene

Endoplasmic reticulum membrane; Multi-pass membrane protein.

Subcellular locations from

Jensen Localization Image for FDFT1 Gene COMPARTMENTS Subcellular localization image for FDFT1 gene
Compartment Confidence
endoplasmic reticulum 5
cytosol 2
extracellular 2
nucleus 2
plasma membrane 2
mitochondrion 1
peroxisome 1
vacuole 1

Gene Ontology (GO) - Cellular Components for FDFT1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0043231 intracellular membrane-bounded organelle IEA --
genes like me logo Genes that share ontologies with FDFT1: view

Pathways & Interactions for FDFT1 Gene

genes like me logo Genes that share pathways with FDFT1: view

UniProtKB/Swiss-Prot P37268-FDFT_HUMAN

  • Pathway: Terpene metabolism; lanosterol biosynthesis; lanosterol from farnesyl diphosphate: step 1/3.

Gene Ontology (GO) - Biological Process for FDFT1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006694 steroid biosynthetic process TAS 8474436
GO:0008610 lipid biosynthetic process IEA --
GO:0009058 biosynthetic process IEA --
GO:0044255 cellular lipid metabolic process TAS --
genes like me logo Genes that share ontologies with FDFT1: view

No data available for SIGNOR curated interactions for FDFT1 Gene

Drugs & Compounds for FDFT1 Gene

(42) Drugs for FDFT1 Gene - From: DrugBank, ApexBio, DGIdb, IUPHAR, HMDB, and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Diphosphate Experimental Pharma 0
farnesyl diphosphate Experimental Pharma Antagonist 0
TAK-475 Investigational Pharma Target 0
zaragozic acid A Pharma Inhibition, Inhibitor 0
(1-methyl-1-{[3-(3-phenoxyphenyl)propyl]carbamoyl}ethyl)phosphonate Pharma Inhibition, Inhibitor 0

(24) Additional Compounds for FDFT1 Gene - From: Novoseek, HMDB, and IUPHAR

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
  • 2'-(Dihydrogen phosphate) 5'-(trihydrogen pyrophosphate) Adenosine 5'-ester with 1,4-dihydro-1-b-D-ribofuranosylnicotinamide
  • 2'-(Dihydrogen phosphate) 5'-(trihydrogen pyrophosphate) Adenosine 5'-ester with 1,4-dihydro-1-beta-delta-ribofuranosylnicotinamide
  • Adenosine 5'-(trihydrogen diphosphate) 2'-(dihydrogen phosphate) P'-5'-ester with 1,4-dihydro-1-beta-D-ribofuranosyl-3-pyridinecarboxamide
  • Adenosine 5'-(trihydrogen diphosphate) 2'-(dihydrogen phosphate) P'-5'-ester with 1,4-dihydro-1-beta-delta-ribofuranosyl-3-pyridinecarboxamide
  • b-NADPH
Presqualene diphosphate
  • (1alpha,2beta(E),3beta(1E,5E))-Diphosphoric acid mono((2-(4,8-dimethyl-3,7-nonadienyl)-2-methyl-3-(2,6,10-trimethyl-1,5,9-undecatrienyl)cyclopropyl)methyl) ester
  • Presqualene diphosphate
  • Presqualene pyrophosphate
  • (all-E)-2,6,10,15,19,23-hexamethyl-2,6,10,14,18,22-Tetracosahexaene
  • (E,E,E,E)-Squalene
  • 2,6,10,15,19,23-Hexamethyl-2,6,10,14,18,22-tetracosahexaene
  • All-trans-Squalene
  • Nikko Squalane EX
Inhibition, Inhibitor
Inhibition, Inhibitor

(1) ApexBio Compounds for FDFT1 Gene

Compound Action Cas Number
Costundide 553-21-9
genes like me logo Genes that share compounds with FDFT1: view

Transcripts for FDFT1 Gene

Unigene Clusters for FDFT1 Gene

Farnesyl-diphosphate farnesyltransferase 1:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for FDFT1 Gene

ExUns: 1a · 1b · 1c · 1d · 1e ^ 2a · 2b ^ 3a · 3b · 3c ^ 4 ^ 5 ^ 6a · 6b ^ 7 ^ 8a · 8b · 8c ^ 9 ^ 10 ^ 11
SP1: - - - - - -
SP3: -
SP4: - - -
SP5: - - - - - - - - - - - -
SP6: - -

Relevant External Links for FDFT1 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for FDFT1 Gene

mRNA expression in normal human tissues for FDFT1 Gene

Protein differential expression in normal tissues from HIPED for FDFT1 Gene

This gene is overexpressed in Fetal testis (32.0) and Bone (26.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for FDFT1 Gene

SOURCE GeneReport for Unigene cluster for FDFT1 Gene Hs.593928

genes like me logo Genes that share expression patterns with FDFT1: view

Protein tissue co-expression partners for FDFT1 Gene

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for FDFT1 Gene

Orthologs for FDFT1 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for FDFT1 Gene

Organism Taxonomy Gene Similarity Type Details
(Bos Taurus)
Mammalia FDFT1 35
  • 87.77 (n)
  • 91.85 (a)
FDFT1 36
  • 92 (a)
(Canis familiaris)
Mammalia FDFT1 35
  • 89.77 (n)
  • 93.53 (a)
FDFT1 36
  • 94 (a)
(Mus musculus)
Mammalia Fdft1 35
  • 85.31 (n)
  • 88.62 (a)
Fdft1 16
Fdft1 36
  • 88 (a)
(Pan troglodytes)
Mammalia FDFT1 35
  • 99.44 (n)
  • 100 (a)
FDFT1 36
  • 100 (a)
(Rattus norvegicus)
Mammalia Fdft1 35
  • 84.42 (n)
  • 86.2 (a)
(Monodelphis domestica)
Mammalia FDFT1 36
  • 76 (a)
(Gallus gallus)
Aves FDFT1 35
  • 75.63 (n)
  • 76.76 (a)
FDFT1 36
  • 76 (a)
(Anolis carolinensis)
Reptilia -- 36
  • 66 (a)
-- 36
  • 64 (a)
-- 36
  • 73 (a)
-- 36
  • 64 (a)
-- 36
  • 65 (a)
-- 36
  • 68 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia fdft1 35
  • 72.03 (n)
  • 74.39 (a)
Str.13257 35
(Danio rerio)
Actinopterygii si:ch73-107c13.2 35
  • 67.25 (n)
  • 69.98 (a)
FDFT1 36
  • 67 (a)
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_AFR444C 35
  • 52.88 (n)
  • 49.58 (a)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0D08866g 35
  • 50.92 (n)
  • 46.98 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes ERG9 35
  • 50.7 (n)
  • 49.4 (a)
ERG9 36
  • 39 (a)
ERG9 38
thale cress
(Arabidopsis thaliana)
eudicotyledons SQS1 35
  • 50.73 (n)
  • 44.47 (a)
(Glycine max)
eudicotyledons Gma.8028 35
Alicante grape
(Vitis vinifera)
eudicotyledons Vvi.3819 35
(Hordeum vulgare)
Liliopsida Hv.10521 35
(Oryza sativa)
Liliopsida Os07g0200700 35
  • 52.41 (n)
  • 47.78 (a)
(Zea mays)
Liliopsida Zm.13795 35
bread mold
(Neurospora crassa)
Ascomycetes NCU06054 35
  • 51.77 (n)
  • 43.85 (a)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes erg9 35
  • 53.76 (n)
  • 49.09 (a)
Species with no ortholog for FDFT1:
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for FDFT1 Gene

Gene Tree for FDFT1 (if available)
Gene Tree for FDFT1 (if available)

Paralogs for FDFT1 Gene

No data available for Paralogs for FDFT1 Gene

Variants for FDFT1 Gene

Sequence variations from dbSNP and Humsavar for FDFT1 Gene

SNP ID Clin Chr 08 pos Sequence Context AA Info Type
VAR_011786 -
rs1804473 - 11,838,530(+) CATGC(C/T)TTTGG reference, missense
rs2047362 -- 11,804,165(+) TTTAA(A/G)AAAGC intron-variant
rs2179010 -- 11,807,309(+) CCACA(C/G)CTGGC intron-variant, upstream-variant-2KB
rs2179011 -- 11,807,386(+) TCAAA(C/T)TCCTG intron-variant, upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for FDFT1 Gene

Variant ID Type Subtype PubMed ID
nsv890361 CNV Gain 21882294
nsv890362 CNV Loss 21882294
nsv890363 CNV Loss 21882294
nsv890364 CNV Loss 21882294
nsv890365 CNV Gain 21882294
nsv890366 CNV Gain 21882294
nsv890367 CNV Gain 21882294
nsv890368 CNV Loss 21882294
nsv890369 CNV Loss 21882294
nsv525089 CNV Loss 19592680

Variation tolerance for FDFT1 Gene

Residual Variation Intolerance Score: 34.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.67; 57.04% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for FDFT1 Gene

Human Gene Mutation Database (HGMD)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for FDFT1 Gene

Disorders for FDFT1 Gene

MalaCards: The human disease database

(7) MalaCards diseases for FDFT1 Gene - From: OMIM, DISEASES, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
congenital disorder of glycosylation, type ij
  • congenital disorder of glycosylation 1j
myasthenic syndrome, congenital, 13, with tubular aggregates
  • myasthenic syndrome, congenital, with tubular aggregates 2
smith-lemli-opitz syndrome
  • rutledge lethal multiple congenital anomaly syndrome
smoldering myeloma
phencyclidine abuse
  • pcp abuse
- elite association - COSMIC cancer census association via MalaCards
Search FDFT1 in MalaCards View complete list of genes associated with diseases

Relevant External Links for FDFT1

Genetic Association Database (GAD)
Human Genome Epidemiology (HuGE) Navigator
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
genes like me logo Genes that share disorders with FDFT1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for FDFT1 Gene

Publications for FDFT1 Gene

  1. K45R variant of squalene synthase increases total cholesterol levels in two study samples from a French Canadian population. (PMID: 18350552) Do R. … Engert J.C. (Hum. Mutat. 2008) 3 4 23 48 67
  2. Squalene synthase: a critical enzyme in the cholesterol biosynthesis pathway. (PMID: 19054015) Do R. … Engert J.C. (Clin. Genet. 2009) 3 23
  3. Studies of CTNNBL1 and FDFT1 variants and measures of obesity: analyses of quantitative traits and case-control studies in 18,014 Danes. (PMID: 19245693) Andreasen C.H. … Hansen T. (BMC Med. Genet. 2009) 3 23
  4. Identification of a chromosome 8p locus for early-onset coronary heart disease in a French Canadian population. (PMID: 17805225) Engert J.C. … Gaudet D. (Eur. J. Hum. Genet. 2008) 3 23
  5. Regulation of cholesterologenesis by the oxysterol receptor, LXRalpha. (PMID: 18676367) Wang Y. … Burris T.P. (J. Biol. Chem. 2008) 3 23

Products for FDFT1 Gene

Sources for FDFT1 Gene