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Aliases for IDI1 Gene

Aliases for IDI1 Gene

  • Isopentenyl-Diphosphate Delta Isomerase 1 2 3 5
  • Isopentenyl Pyrophosphate Isomerase 1 3 4
  • IPP Isomerase 1 3 4
  • EC 4 56
  • IPPI1 3 4
  • Isopentenyl Diphosphate Dimethylallyl Diphosphate Isomerase 1 3
  • Isopentenyl-Diphosphate Delta-Isomerase 1 3
  • Isopentenyl-Diphosphate Delta Isomerase 2
  • IPP Isomerase 2
  • IPP1 3

External Ids for IDI1 Gene

Previous GeneCards Identifiers for IDI1 Gene

  • GC10M001056
  • GC10M001039

Summaries for IDI1 Gene

Entrez Gene Summary for IDI1 Gene

  • IDI1 encodes a peroxisomally-localized enzyme that catalyzes the interconversion of isopentenyl diphosphate (IPP) to its highly electrophilic isomer, dimethylallyl diphosphate (DMAPP), which are the substrates for the successive reaction that results in the synthesis of farnesyl diphosphate and, ultimately, cholesterol. It has been shown in peroxisomal deficiency diseases such as Zellweger syndrome and neonatal adrenoleukodystrophy that there is reduction in IPP isomerase activity. [provided by RefSeq, Jul 2008]

GeneCards Summary for IDI1 Gene

IDI1 (Isopentenyl-Diphosphate Delta Isomerase 1) is a Protein Coding gene. Diseases associated with IDI1 include Neonatal Adrenoleukodystrophy. Among its related pathways are Terpenoid backbone biosynthesis and Regulation of cholesterol biosynthesis by SREBP (SREBF). Gene Ontology (GO) annotations related to this gene include hydrolase activity and manganese ion binding. An important paralog of this gene is IDI2.

UniProtKB/Swiss-Prot for IDI1 Gene

  • Catalyzes the 1,3-allylic rearrangement of the homoallylic substrate isopentenyl (IPP) to its highly electrophilic allylic isomer, dimethylallyl diphosphate (DMAPP).

Additional gene information for IDI1 Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for IDI1 Gene

Genomics for IDI1 Gene

GeneHancer (GH) Regulatory Elements for IDI1 Gene

Promoters and enhancers for IDI1 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH10I001054 Promoter/Enhancer 2.5 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 550.8 +0.1 141 4.4 HDGF PKNOX1 FOXA2 ARNT ARID4B SIN3A FEZF1 DMAP1 ZNF2 ZBTB7B WDR37 IDI1 LARP4B IDI2 IDI2-AS1
GH10I001047 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 550.4 +7.3 7347 4.3 HDGF PKNOX1 CLOCK SMAD1 FOXA2 ARNT ARID4B SIN3A FEZF1 DMAP1 WDR37 IDI1 LARP4B GTPBP4 IDI2-AS1 IDI2
GH10I000546 Enhancer 1.4 FANTOM5 Ensembl ENCODE dbSUPER 4.9 +509.4 509419 1.8 MXI1 MAX SIN3A FEZF1 ZIC2 ZFHX2 CTBP1 GATA3 ELK1 HSF1 DIP2C IDI1 PIR53292 PIR42401 GC10M000585
GH10I000560 Enhancer 0.5 ENCODE dbSUPER 4.5 +496.2 496223 0.8 ZNF18 DIP2C IDI1 GC10M000585 PIR42401 PIR53292
GH10I000575 Enhancer 0.3 dbSUPER 5.1 +480.8 480796 1.2 SCRT2 LOC101930421 IDI1 GC10M000585 PIR42401 PIR53292 DIP2C
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around IDI1 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the IDI1 gene promoter:

Genomic Locations for IDI1 Gene

Genomic Locations for IDI1 Gene
16,792 bases
Minus strand

Genomic View for IDI1 Gene

Genes around IDI1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
IDI1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for IDI1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for IDI1 Gene

Proteins for IDI1 Gene

  • Protein details for IDI1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Isopentenyl-diphosphate Delta-isomerase 1
    Protein Accession:
    Secondary Accessions:
    • B4E155
    • Q32Q13
    • Q53GQ6
    • Q86U81
    • Q8WUX8
    • Q96IZ4
    • Q9BQ74

    Protein attributes for IDI1 Gene

    227 amino acids
    Molecular mass:
    26319 Da
    Name=Mg(2+); Xref=ChEBI:CHEBI:18420;
    Quaternary structure:
    • Monomer.
    • Sequence=AAH57827.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=AAK29357.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=AAK49434.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=AAK49435.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=AAP35407.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=CAA34890.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for IDI1 Gene

    Alternative splice isoforms for IDI1 Gene


neXtProt entry for IDI1 Gene

Selected DME Specific Peptides for IDI1 Gene


Post-translational modifications for IDI1 Gene

  • Ubiquitination at isoforms=2113, isoforms=2169, isoforms=2180, posLast=192192, and isoforms=2223
  • Modification sites at PhosphoSitePlus

Other Protein References for IDI1 Gene

Domains & Families for IDI1 Gene

Gene Families for IDI1 Gene

Human Protein Atlas (HPA):
  • Enzymes
  • Predicted intracellular proteins

Suggested Antigen Peptide Sequences for IDI1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the IPP isomerase type 1 family.
  • Belongs to the IPP isomerase type 1 family.
genes like me logo Genes that share domains with IDI1: view

Function for IDI1 Gene

Molecular function for IDI1 Gene

UniProtKB/Swiss-Prot CatalyticActivity:
Isopentenyl diphosphate = dimethylallyl diphosphate.
UniProtKB/Swiss-Prot Function:
Catalyzes the 1,3-allylic rearrangement of the homoallylic substrate isopentenyl (IPP) to its highly electrophilic allylic isomer, dimethylallyl diphosphate (DMAPP).

Enzyme Numbers (IUBMB) for IDI1 Gene

Gene Ontology (GO) - Molecular Function for IDI1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004452 isopentenyl-diphosphate delta-isomerase activity IBA --
GO:0016787 hydrolase activity IEA --
GO:0016853 isomerase activity IEA --
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with IDI1: view
genes like me logo Genes that share phenotypes with IDI1: view

Animal Model Products

Clone Products

No data available for Phenotypes From GWAS Catalog , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for IDI1 Gene

Localization for IDI1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for IDI1 Gene


Subcellular locations from

Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for IDI1 gene
Compartment Confidence
peroxisome 5
cytosol 5
mitochondrion 3
nucleus 2

Gene Ontology (GO) - Cellular Components for IDI1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005777 peroxisome IDA,IEA 17180682
GO:0005829 cytosol TAS --
genes like me logo Genes that share ontologies with IDI1: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for IDI1 Gene

Pathways & Interactions for IDI1 Gene

genes like me logo Genes that share pathways with IDI1: view

UniProtKB/Swiss-Prot Q13907-IDI1_HUMAN

  • Pathway: Isoprenoid biosynthesis; dimethylallyl diphosphate biosynthesis; dimethylallyl diphosphate from isopentenyl diphosphate: step 1/1.

Gene Ontology (GO) - Biological Process for IDI1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006629 lipid metabolic process IEA --
GO:0006694 steroid biosynthetic process IEA --
GO:0006695 cholesterol biosynthetic process TAS --
GO:0008202 steroid metabolic process IEA --
GO:0008203 cholesterol metabolic process IEA --
genes like me logo Genes that share ontologies with IDI1: view

No data available for SIGNOR curated interactions for IDI1 Gene

Drugs & Compounds for IDI1 Gene

(6) Drugs for IDI1 Gene - From: DrugBank, DGIdb, IUPHAR, HMDB, and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Magnesium Approved Nutra 0
DIMETHYLALLYL DIPHOSPHATE Experimental Pharma Competitive, Inhibitor, Target 0
Isopentenyl pyrophosphate Experimental Pharma 0
NE21650 Pharma Inhibition, Inhibitor 0

(1) Additional Compounds for IDI1 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with IDI1: view

Transcripts for IDI1 Gene

Unigene Clusters for IDI1 Gene

Isopentenyl-diphosphate delta isomerase 1:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for IDI1 Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3a · 3b ^ 4 ^ 5a · 5b ^ 6a · 6b
SP1: -
SP2: - - -
SP3: - -

Relevant External Links for IDI1 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for IDI1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for IDI1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for IDI1 Gene

This gene is overexpressed in Fetal testis (21.1) and Fetal Liver (18.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for IDI1 Gene

Protein tissue co-expression partners for IDI1 Gene

NURSA nuclear receptor signaling pathways regulating expression of IDI1 Gene:


SOURCE GeneReport for Unigene cluster for IDI1 Gene:


Evidence on tissue expression from TISSUES for IDI1 Gene

  • Nervous system(4.8)
  • Liver(4.7)
  • Skin(4.5)
  • Bone marrow(4.4)
  • Kidney(4.3)
  • Blood(2.9)
  • Lung(2.9)
genes like me logo Genes that share expression patterns with IDI1: view

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for IDI1 Gene

Orthologs for IDI1 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for IDI1 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia IDI1 33 34
  • 99.06 (n)
(Canis familiaris)
Mammalia IDI1 33 34
  • 87.2 (n)
(Ornithorhynchus anatinus)
Mammalia IDI1 34
  • 85 (a)
(Mus musculus)
Mammalia Idi1 33 16 34
  • 80.68 (n)
(Rattus norvegicus)
Mammalia Idi1 33
  • 79.95 (n)
(Monodelphis domestica)
Mammalia IDI1 34
  • 79 (a)
(Bos Taurus)
Mammalia IDI1 33 34
  • 76.88 (n)
(Gallus gallus)
Aves -- 34
  • 81 (a)
IDI1 33
  • 69.63 (n)
(Anolis carolinensis)
Reptilia -- 34
  • 81 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia idi1 33
  • 71.51 (n)
Str.12004 33
(Danio rerio)
Actinopterygii idi1 33 34
  • 69.46 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP001704 33
  • 55.3 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG5919 35 33 34
  • 51.32 (n)
(Caenorhabditis elegans)
Secernentea K06H7.9 35
  • 38 (a)
idi-1 34
  • 37 (a)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0F00924g 33
  • 60 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes IDI1 33 34 36
  • 55.97 (n)
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_ADL268C 33
  • 52.12 (n)
thale cress
(Arabidopsis thaliana)
eudicotyledons IPP2 33
  • 57.86 (n)
(Oryza sativa)
Liliopsida Os07g0546000 33
  • 55.09 (n)
Os.18877 33
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes idi1 33
  • 57.34 (n)
bread mold
(Neurospora crassa)
Ascomycetes NCU07719 33
  • 55.11 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.9971 34
  • 50 (a)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.3020 33
Species where no ortholog for IDI1 was found in the sources mined by GeneCards:
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • 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)
  • rainbow trout (Oncorhynchus mykiss)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for IDI1 Gene

Gene Tree for IDI1 (if available)
Gene Tree for IDI1 (if available)

Paralogs for IDI1 Gene

Paralogs for IDI1 Gene

(1) SIMAP similar genes for IDI1 Gene using alignment to 3 proteins: Pseudogenes for IDI1 Gene

genes like me logo Genes that share paralogs with IDI1: view

Variants for IDI1 Gene

Sequence variations from dbSNP and Humsavar for IDI1 Gene

SNP ID Clin Chr 10 pos Variation AA Info Type
rs1000115722 -- 1,049,307(-) C/A 5_prime_UTR_variant, genic_upstream_transcript_variant, intron_variant, non_coding_transcript_variant, upstream_transcript_variant
rs1000127747 -- 1,046,000(-) A/C intron_variant
rs1000216791 -- 1,039,848(-) G/A 3_prime_UTR_variant, downstream_transcript_variant, genic_downstream_transcript_variant, non_coding_transcript_variant
rs1000336083 -- 1,048,078(-) G/A intron_variant
rs1000340233 -- 1,051,424(-) G/A genic_upstream_transcript_variant, intron_variant

Structural Variations from Database of Genomic Variants (DGV) for IDI1 Gene

Variant ID Type Subtype PubMed ID
esv2156728 CNV deletion 18987734
esv2483699 CNV deletion 19546169
esv2660097 CNV deletion 23128226
esv2729373 CNV deletion 23290073
esv2729384 CNV deletion 23290073
esv2729395 CNV deletion 23290073
esv3891735 CNV gain 25118596
esv990965 CNV deletion 20482838
nsv1046220 CNV gain 25217958
nsv1068263 CNV deletion 25765185
nsv512136 CNV loss 21212237
nsv549765 CNV gain 21841781
nsv5532 CNV deletion 18451855
nsv951231 CNV duplication 24416366

Variation tolerance for IDI1 Gene

Residual Variation Intolerance Score: 38.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.07; 37.91% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for IDI1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for IDI1 Gene

Disorders for IDI1 Gene

MalaCards: The human disease database

(1) MalaCards diseases for IDI1 Gene - From: GeneCards

Disorder Aliases PubMed IDs
neonatal adrenoleukodystrophy
  • adrenoleukodystrophy autosomal neonatal form
- elite association - COSMIC cancer census association via MalaCards
Search IDI1 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for IDI1

Genetic Association Database
Human Genome Epidemiology Navigator
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with IDI1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for IDI1 Gene

Publications for IDI1 Gene

  1. The crystal structure of human isopentenyl diphosphate isomerase at 1.7 A resolution reveals its catalytic mechanism in isoprenoid biosynthesis. (PMID: 17250851) Zheng W … Rao Z (Journal of molecular biology 2007) 3 4 22 58
  2. Human isopentenyl diphosphate: dimethylallyl diphosphate isomerase: overproduction, purification, and characterization. (PMID: 8806705) Hahn FM … Poulter CD (Archives of biochemistry and biophysics 1996) 3 4 22 58
  3. A human promyelocyte mRNA transiently induced by TPA is homologous to yeast IPP isomerase. (PMID: 8020941) Xuan JW … Denhardt DT (Genomics 1994) 2 3 4 58
  4. Genetic variants in nuclear-encoded mitochondrial genes influence AIDS progression. (PMID: 20877624) Hendrickson SL … O'Brien SJ (PloS one 2010) 3 44 58
  5. Multiple genetic variants along candidate pathways influence plasma high-density lipoprotein cholesterol concentrations. (PMID: 18660489) Lu Y … Boer JM (Journal of lipid research 2008) 3 44 58

Products for IDI1 Gene

Sources for IDI1 Gene

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