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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 5.3.3.2 4 61
  • 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 Sterol Regulatory Element-Binding Proteins (SREBP) signalling and Terpenoid backbone biosynthesis. 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).

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

Regulatory Elements for IDI1 Gene

Enhancers for IDI1 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH10G000546 1.6 FANTOM5 Ensembl ENCODE dbSUPER 4.9 +509.4 509419 1.8 MXI1 SIN3A MAX FEZF1 RAD21 ZIC2 YY1 ZFHX2 CTBP1 GATA3 DIP2C IDI1 PIR53292 GC10M000585 PIR42401
GH10G000575 0.7 dbSUPER 5.1 +480.8 480796 1.2 ATF1 ETV1 USF2 PAX8 ZFHX2 ATF3 POLR2A SCRT2 ZNF584 EGR2 LOC101930421 IDI1 PIR42401 GC10M000585 PIR53292
GH10G000560 0.7 ENCODE dbSUPER 4.5 +496.2 496224 0.8 NFE2L2 ZNF18 DIP2C IDI1 PIR53292 GC10M000585 PIR42401
GH10G001054 1.7 FANTOM5 ENCODE dbSUPER 0.7 +0.1 142 4.4 HDGF PKNOX1 ARNT CREB3L1 ARID4B SIN3A FEZF1 DMAP1 ZNF2 ZBTB7B WDR37 IDI2 IDI2-AS1 IDI1
GH10G001060 1.3 Ensembl ENCODE dbSUPER 0.4 -6.2 -6190 5.5 SIN3A RAD21 GATA2 ZNF143 ETV6 FOS CREM ZNF654 JUNB REST IDI2 WDR37 ADARB2 IDI1 PIR60283
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around IDI1 on UCSC Golden Path with GeneCards custom track

Promoters for IDI1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000023419 -1 2601 HDGF PKNOX1 FOXA2 ARNT CREB3L1 ARID4B SIN3A DMAP1 ZNF2 ZBTB7B

Genomic Location for IDI1 Gene

Chromosome:
10
Start:
1,039,908 bp from pter
End:
1,056,699 bp from pter
Size:
16,792 bases
Orientation:
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:
    Q13907-IDI1_HUMAN
    Recommended name:
    Isopentenyl-diphosphate Delta-isomerase 1
    Protein Accession:
    Q13907
    Secondary Accessions:
    • B4E155
    • Q32Q13
    • Q53GQ6
    • Q86U81
    • Q8WUX8
    • Q96IZ4
    • Q9BQ74

    Protein attributes for IDI1 Gene

    Size:
    227 amino acids
    Molecular mass:
    26319 Da
    Cofactor:
    Name=Mg(2+); Xref=ChEBI:CHEBI:18420;
    Quaternary structure:
    • Monomer.
    SequenceCaution:
    • 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

    UniProtKB/Swiss-Prot:

neXtProt entry for IDI1 Gene

Selected DME Specific Peptides for IDI1 Gene

Q13907:
  • FLFKWWD
  • LLLQQRS
  • IGAETKKNCHLNENIE
  • NTCCSHP
  • KNVTLNPDPNEIKSYCYV
  • EEVPPEEINYLTRIHYKAQSD

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

Suggested Antigen Peptide Sequences for IDI1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q13907

UniProtKB/Swiss-Prot:

IDI1_HUMAN :
  • Belongs to the IPP isomerase type 1 family.
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

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for IDI1

No data available for 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

Peroxisome.

Subcellular locations from

COMPARTMENTS
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

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
DIMETHYLALLYL DIPHOSPHATE Experimental Pharma Competitive, Inhibitor, Target 0
Isopentenyl pyrophosphate Experimental Pharma 0
NE21650 Pharma Inhibition, Inhibitor 0
Magnesium Nutra 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:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for IDI1

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: - -
SP4:

Relevant External Links for IDI1 Gene

GeneLoc Exon Structure for
IDI1
ECgene alternative splicing isoforms for
IDI1

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:

IDI1

SOURCE GeneReport for Unigene cluster for IDI1 Gene:

Hs.283652

Evidence on tissue expression from TISSUES for IDI1 Gene

  • Nervous system(4.8)
  • Liver(4.6)
  • 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

Primer Products

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
chimpanzee
(Pan troglodytes)
Mammalia IDI1 34 35
  • 99.06 (n)
dog
(Canis familiaris)
Mammalia IDI1 34 35
  • 87.2 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia IDI1 35
  • 85 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Idi1 34 16 35
  • 80.68 (n)
rat
(Rattus norvegicus)
Mammalia Idi1 34
  • 79.95 (n)
oppossum
(Monodelphis domestica)
Mammalia IDI1 35
  • 79 (a)
OneToOne
cow
(Bos Taurus)
Mammalia IDI1 34 35
  • 76.88 (n)
chicken
(Gallus gallus)
Aves -- 35
  • 81 (a)
OneToMany
IDI1 34
  • 69.63 (n)
lizard
(Anolis carolinensis)
Reptilia -- 35
  • 81 (a)
OneToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia idi1 34
  • 71.51 (n)
Str.12004 34
zebrafish
(Danio rerio)
Actinopterygii idi1 34 35
  • 69.46 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP001704 34
  • 55.3 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG5919 36 34 35
  • 51.32 (n)
worm
(Caenorhabditis elegans)
Secernentea K06H7.9 36
  • 38 (a)
idi-1 35
  • 37 (a)
OneToMany
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0F00924g 34
  • 60 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes IDI1 34 35 37
  • 55.97 (n)
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_ADL268C 34
  • 52.12 (n)
thale cress
(Arabidopsis thaliana)
eudicotyledons IPP2 34
  • 57.86 (n)
rice
(Oryza sativa)
Liliopsida Os07g0546000 34
  • 55.09 (n)
Os.18877 34
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes idi1 34
  • 57.34 (n)
bread mold
(Neurospora crassa)
Ascomycetes NCU07719 34
  • 55.11 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.9971 35
  • 50 (a)
OneToMany
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.3020 34
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

ENSEMBL:
Gene Tree for IDI1 (if available)
TreeFam:
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.org 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 Sequence Context AA Info Type
rs1000115722 -- 1,049,307(+) AGGCT(A/C)GCGTT intron-variant, nc-transcript-variant, upstream-variant-2KB, utr-variant-5-prime
rs1000127747 -- 1,046,000(+) ATGTG(A/C)AAAGG intron-variant
rs1000216791 -- 1,039,848(+) GCAAC(A/G)GAAAC intron-variant, nc-transcript-variant, downstream-variant-500B, utr-variant-3-prime
rs1000336083 -- 1,048,078(+) GTGCA(A/G)TGGCG intron-variant
rs1000340233 -- 1,051,424(+) TTCAC(A/G)AAAAT 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)

Relevant External Links for IDI1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
IDI1

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

Relevant External Links for IDI1

Genetic Association Database (GAD)
IDI1
Human Genome Epidemiology (HuGE) Navigator
IDI1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
IDI1
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. (J. Mol. Biol. 2007) 3 4 22 64
  2. Human isopentenyl diphosphate: dimethylallyl diphosphate isomerase: overproduction, purification, and characterization. (PMID: 8806705) Hahn F.M. … Poulter C.D. (Arch. Biochem. Biophys. 1996) 3 4 22 64
  3. A human promyelocyte mRNA transiently induced by TPA is homologous to yeast IPP isomerase. (PMID: 8020941) Xuan J.W. … Denhardt D.T. (Genomics 1994) 2 3 4 64
  4. Genetic variants in nuclear-encoded mitochondrial genes influence AIDS progression. (PMID: 20877624) Hendrickson S.L. … O'Brien S.J. (PLoS ONE 2010) 3 46 64
  5. Multiple genetic variants along candidate pathways influence plasma high-density lipoprotein cholesterol concentrations. (PMID: 18660489) Lu Y. … Boer J.M. (J. Lipid Res. 2008) 3 46 64

Products for IDI1 Gene

Sources for IDI1 Gene

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