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IDI1 Gene

protein-coding   GIFtS: 57

GC10M001075
isopentenyl-diphosphate delta isomerase 1
(Previous name: isopentenyl-diphosphate delta isomerase )
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
About This Section

Aliases
EC 5.3.3.2 3
IPP1 2
IPPI1 2, 3
OTTHUMP00000018951 2
Descriptions
IPP isomerase 2
IPP isomerase 1 3
Isopentenyl pyrophosphate isomerase 1 2, 3
isopentenyl diphosphate dimethylallyl diphosphate isomerase
1 2
isopentenyl-diphosphate delta isomerase 1, 2
isopentenyl-diphosphate delta isomerase 1 2
External Ids
HGNC: 53871
Entrez Gene: 34222
UniProtKB: Q139073
Ensembl: ENSG000000670647
Search outside databases for aliases for IDI1 gene

Previous GC identifers: GC10M001056 GC10M001039

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

EntrezGene summary for IDI1:
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]

UniProtKB/Swiss-Prot: IDI1_HUMAN, Q13907
Function: Catalyzes the 1,3-allylic rearrangement of the homoallylic substrate isopentenyl (IPP) to
its highly electrophilic allylic isomer, dimethylallyl diphosphate (DMAPP)

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences)
About This Section

Genomic View:
UCSC Golden Path with GeneCards custom track

 Transcription factor binding sites upstream to the IDI1 gene  

Entrez Gene cytogenetic band: 10p15.3   Ensembl cytogenetic band:  10p15.3   HGNC cytogenetic band: 10p15.3

IDI1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)

GeneLoc gene densities for chromosome 10         GeneLoc Exon Structure

GeneLoc location for GC10M001075:     (about GC identifiers)

Start:
1,075,963 bp from pter
End:
1,085,061 bp from pter
Size:
9,099 bases
Orientation:
minus strand
RefSeq DNA sequence:
NC_000010.9  NT_077567.3  
(According to 1UniProtKB, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Enzo Life Sciences, Abnova, OriGene and/or, Abcam,
Biochemical Assays by Invitrogen, Millipore, R&D Systems, Cell Signaling Technology, and/or Enzo Life Sciences, Ontologies according to Gene Ontology Consortium 01 Apr 2009 and Entrez Gene, Antibodies by Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Cell Signaling Technology, Abcam, Abnova, and/or Novus Biologicals)
About This Section

UniProtKB/Swiss-Prot: IDI1_HUMAN, Q13907 (See protein sequence)
Recommended Name: Isopentenyl-diphosphate Delta-isomerase 1  
Size: 227 amino acids; 26319 Da
Cofactor: Binds 1 magnesium ion per subunit
Subunit: Monomer
Subcellular location: Peroxisome
PDB structures from and Proteopedia :
2DHO (3D)    2I6K (3D)    2ICJ (3D)    2ICK (3D)    
Secondary accessions: Q32Q13 Q53GQ6 Q86U81 Q8WUX8 Q96IZ4 Q9BQ74

REFSEQ proteins: NP_004499.2  

ENSEMBL proteins: 
ENSP00000370748 


Human Recombinant Proteins 
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Browse recombinant and purified proteins available from Enzo Life Sciences
Recombinant Proteins from Abcam (IDI1)
Human Recombinant Proteins from Abnova (IDI1)
                Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 

2 Gene Ontology (GO) cellular component terms (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0005777 peroxisome TAS8188698
GO:0005829 cytosol EXP8806705
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Antibodies for IDI1: 
Browse Antibodies Central at Invitrogen
Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
Sigma-Aldrich Antibodies for IDI1
Browse R&D Systems for Antibodies
Antibodies from Abcam (IDI1), each with their AbpromiseSM
Monoclonal and Polyclonal Antibodies from Abnova (IDI1)
Novus Biologicals Antibodies for IDI1

Assays for IDI1: 
Browse Invitrogen for biochemical assays
Browse Kits and Assays available from Millipore
Browse R&D Systems for biochemical assays
Browse biochemical assays available from Enzo Life Sciences

(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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2 InterPro domains/families:
 IPR011876 IsopentenylPP_isomerase_typ1
 IPR000086 NUDIX_hydrolase_core


   GeneDecks  IDI1 for the domains selected above  
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Graphical View of Domain Structure for InterPro Entry Q13907

ProtoNet protein and cluster: Q13907

2 Blocks protein families:
IPB000086 NUDIX hydrolase
IPB002667 Isopentenyl-diphosphate delta-isomerase


UniProtKB/Swiss-Prot: IDI1_HUMAN, Q13907
Similarity: Belongs to the IPP isomerase type 1 family

(According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
About This Section

Inhib.
RNA:
Invitrogen RNAi Products for gene knock-down (IDI1)
Browse for Gene Knock-down Tools from Millipore
Abnova Chimera RNAi Products for Gene knock-down (IDI1)
              OriGene 29mer shRNA kit in GFP-retroviral vector: NM_004508

              Applied Biosystems Silencer® siRNAs for IDI1

              Sigma-Aldrich siRNA and siRNA Panels for IDI1  
                     Sigma-Aldrich shRNA for IDI1  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Clones:Invitrogen Clones for IDI1
Browse Clones for the Expression of Recombinant Proteins Available from Millipore
              OriGene GFP tagged cDNA clone in CMV expression vector: NM_004508
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_004508
                                 untagged cDNA clones in CMV expression vector (see all 3): NM_004508 

Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
              OriGene genome-wide validated SYBR primer pairs: NM_004508

UniProtKB/Swiss-Prot: IDI1_HUMAN, Q13907
Function: Catalyzes the 1,3-allylic rearrangement of the homoallylic substrate isopentenyl (IPP) to
its highly electrophilic allylic isomer, dimethylallyl diphosphate (DMAPP)
Catalytic activity: Isopentenyl diphosphate = dimethylallyl diphosphate
Enzyme Number (IUBMB): EC 5.3.3.2 

4 Gene Ontology (GO) molecular function terms (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0000287 magnesium ion binding IEA--
GO:0004452 isopentenyl-diphosphate delta-isomerase activity TAS8020941
GO:0016787 hydrolase activity IEA--
GO:0016853 isomerase activity IEA--
About this table

(Pathways according to Invitrogen (maps by GeneGo), Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB,
Sets of similar genes according to GeneDecks, Proteins Network according to SABiosciences, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
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1 Invitrogen iPath™ Online BioAtlas - Pathway for IDI1 (Maps provided by GeneGo):
 Cholesterol metabolism I Cholesterol Biosynthesis

   GeneDecks  IDI1 for the pathways selected above  
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1 Sigma-Aldrich "Your Favorite Gene" Pathway for  IDI1  (Your Favorite Gene powered by Ingenuity) 
 Biosynthesis of Steroids

   GeneDecks  IDI1 for the pathways selected above  
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2 Kegg Pathways  (Kegg details for IDI1):
 hsa00100 Biosynthesis of steroids
 hsa00900 Terpenoid biosynthesis

   GeneDecks  IDI1 for the pathways selected above  
About GeneDecksing
UniProtKB/Swiss-Prot: IDI1_HUMAN, Q13907
Pathway: Isoprenoid biosynthesis; dimethylallyl-PP biosynthesis; dimethylallyl-PP from
isopentenyl-PP: step 1/1


5/7 Interacting proteins for IDI1 (ENSP000003707483) via UniProtKB, MINT, and/or STRING (see all 7 )

InteractantInteraction Details
GeneCardExternal ID(s)
FDPSENSP000003573403STRING (score=.958)
IDI2ENSP000002775173STRING (score=.904)
GGPS1ENSP000002828413STRING (score=.899)
MVDENSP000003010123STRING (score=.899)
IPPENSP000003610903STRING (score=.898)
About this table

3 Gene Ontology (GO) biological process terms (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0006695 cholesterol biosynthetic process IEA--
GO:0008299 isoprenoid biosynthetic process TAS8020941
GO:0016117 carotenoid biosynthetic process IEA--
About this table
(Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
About This Section

Browse drugs & compounds from Enzo Life Sciences
Browse Small Molecules at Sigma-Aldrich

Browse Tocris compounds for IDI1
3 Novoseek chemical compound relationships for IDI1 gene
Compound   Score   Articles   PubMed IDs for Articles with Shared Sentences (# sentences)
isopentenyl diphosphate 91.97 13 8806705 (2), 15381396 (2), 17250851 (2), 7908830 (1) (see all 7)
mevalonate 65.65 4 15206931 (1), 15381396 (1), 8739963 (1)
cholesterol 23.76 7 16020911 (1), 17478552 (1), 8739963 (1)
About this table


(GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 219 Homo sapiens; Jun 2 2009) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView,
non coding RNAs according to RNAdb,
ESTs according to GeneTide,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from Invitrogen, Millipore, and/or Abnova,
siRNAs from Applied Biosystems, Sigma-Aldrich,
shRNA from Sigma-Aldrich, OriGene,
Tagged/untagged cDNA clones from OriGene,
Expression Assays from Applied Biosystems)
About This Section

Inhib.
RNA:
Invitrogen RNAi Products for gene knock-down (IDI1)
Browse for Gene Knock-down Tools from Millipore
Abnova Chimera RNAi Products for Gene knock-down (IDI1)
              OriGene 29mer shRNA kit in GFP-retroviral vector: NM_004508

              Sigma-Aldrich siRNA and siRNA Panels for IDI1  
                     Sigma-Aldrich shRNA for IDI1  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Applied Biosystems Silencer® siRNAs: 

NM_004508  

REFSEQ mRNAs for IDI1 gene: 

NM_004508.2   

Applied Biosystems TaqMan ® Gene Expression Assays: 

NM_004508  

              OriGene GFP tagged cDNA clone in CMV expression vector: NM_004508
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_004508
                                 untagged cDNA clones in CMV expression vector (see all 3): NM_004508 

Additional cDNA sequence: 

AF271720.1 AK222875.1 AK303669.1 AK311110.1 BC005247.2 BC006999.2 BC019227.2 BC022418.2 
BC025375.2 BC057827.1 BC107893.1 BT006761.1 BX537663.1 BX648472.1 CR590015.1 CR591790.1 
CR596142.1 CR596871.1 CR597870.1 CR600177.1 CR602134.1 CR605332.1 CR613243.1 CR613434.1 
CR614669.1 CR620656.1 CR624844.1 CR625468.1 CR625705.1 X17025.1 

24/32 DOTS entries (see all 32 ):

DT.92462703  DT.453773  DT.99994257  DT.91911776  DT.100723192  DT.408305  DT.97838100  DT.100883548 
DT.100883542  DT.95363710  DT.92462695  DT.121257216  DT.100000543  DT.100746628  DT.100883544  DT.100883550 
DT.419678  DT.75101189  DT.100883547  DT.121257271  DT.97860180  DT.121257265  DT.121257275  DT.121257321 

24/719 AceView cDNA sequences (see all 719 ):

AA340633 AW768267 BM854259 AV709829 AI925417 BQ225771 CR596142 AA479182 
H72831 BM827224 AI002408 AA758485 BM977594 AL533574 AW105497 AI799723 
AI189615 CA439039 CR624844 AL558036 CR625705 BQ776340 CR613434 BQ021407 

highest scoring ESTs for IDI1:

AA018738 AL514404 AL695172 AL701325 AW362018 BC057827 BE891119 BF207964 BF210380 BF238776 

Unigene Cluster for IDI1:

Isopentenyl-diphosphate delta isomerase 1
Hs.283652  [show with all ESTs]
Unigene Representative Sequence: BX537663


GeneLoc Exon Structure

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

ExUns: 1a · 1b · 1c ^ 2 ^ 3a · 3b ^ 4 ^ 5a · 5b ^ 6a · 6b
SP1:                    -                                             
SP2:                    -     -     -                                 
SP3:                          -     -                                 
SP4:                                                                  

About this scheme

ECgene alternative splicing isoforms for IDI1

1 Ensembl transcript including schematic representation:
ENST00000381344  
(Experimental results according to 1GeneNote and GNF BioGPS,
probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 219 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
Expression Assays from Applied Biosystems )
About This Section

IDI1 expression in normal and diseased human tissues

 Applied Biosystems TaqMan ® Gene Expression Assays for IDI1

1 / 2 / 3

8 probe-sets matching IDI1 gene


Affymetrix
probe-set
Array  GeneAnnot data GeneNote data GeneTide data
# genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank

36985_at2, 3 U95-A 1 1.00 1.00 0.97 1.03 X17025 0.80 1.00 0.91 1

83019_at2, 3 U95-E 1 1.00 1.00 0.53 0.97 AI632279 0.60 1.00 0.82 1

204615_x_at2, 3 U133-A 1 1.00 1.00 -- -- NM_004508 0.60 1.00 0.82 1

208881_x_at2, 3 U133-A 1 1.00 1.00 -- -- BC005247 0.60 1.00 0.82 1

242065_x_at2, 3 U133-B 1 0.64 1.00 -- -- BG477984 0.40 1.00 0.76 1

204615_x_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

208881_x_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

242065_x_at2 U133Plus2 1 0.64 1.00 -- -- -- -- -- -- --
About this table
Data from (Publications) and GNF BioGPS
    About these images
About these images

CGAP SAGE TAG: --

SOURCE GeneReport for Unigene cluster: Hs.283652

Expression variation in blood from EXPOLDB for IDI1

(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
About This Section


Orthologs for IDI1 gene from 5/19 species (see all 19 )
Organism Gene Locus Description Human
Similarity
NCBI accessions
chimpanzee
(Pan troglodytes)
IDI11   -- isopentenyl-diphosphate delta isomerase 1 98.74(n)
98.58(a)
450263  XM_507622.2  XP_507622.2 
cow
(Bos taurus)
IDI11   -- isopentenyl-diphosphate delta isomerase 1 77(n)
76.41(a)
514293  NM_001075659.1  NP_001069127.1 
rat
(Rattus norvegicus)
Idi11   -- isopentenyl-diphosphate delta isomerase 1 84.14(n)
86.34(a)
89784  NM_053539.1  NP_445991.1 
mouse
(Mus musculus)
Idi11, 5 135
isopentenyl-diphosphate delta isomerase1, 5 85.02(n)1
86.78(a)1
3195541  NM_177960.31  NP_808875.11 
 AA7169635  AK0293025  (see all 13)
chicken
(Gallus gallus)
IDI11   -- isopentenyl-diphosphate delta isomerase 1 69.88(n)
72.5(a)
420459  XM_418561.2  XP_418561.2 
About this table        Species with no ortholog for IDI1

ENSEMBL Gene Tree for IDI1
(Paralogs according to 1HomoloGene
and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
About This Section

Paralogs for IDI1 gene
IDI22  

(According to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
About This Section


10/66 NCBI SNPs in IDI1 are shown (see all 66 )
(Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 54)
ABGenomic DataTranscription DataAllele Frequencies
SNP IDValidChr 10 posSequenceRecsAA
Chg
TypeMoreRecsAllele
freq
PopTotal
sample
More
------------
rs48807581,2
A,C,F,H1075572(+) CCTTAC/GATTTT 1 -- ng5112Minor allele frequency- G:0.12EU EA WA NA 1046
--
rs12851,2
A,C,F,H1076116(+) ATACAC/TATTCC 1 -- ut31 ese35Minor allele frequency- T:0.16MN EU EA WA 596
--
rs115567921,2
H1079968(-) GAAGAA/TTTGTC 1 N/I mis14Minor allele frequency- T:0.00EU EA WA 404
rs112502381,2
A,C,F,H1079616(+) GCACAC/TGCTTC 1 -- int18Minor allele frequency- T:0.04EU EA WA 838
rs11354161,2
A,C,F,H1081308(-) ATTATA/TATTCA 1 -- int14Minor allele frequency- T:0.08EU EA WA 408
rs70751411,2
A,C,F,H1081195(+) TATCTA/GTATCC 1 -- int121Minor allele frequency- G:0.26EU EA WA NS NA 1512
--
rs70725541,2
C,F,H1080988(+) CCATCC/TGTTTA 1 -- int14Minor allele frequency- T:0.13EU EA WA 418
rs127687461,2
C,F,H1077551(+) ATAGTT/CTTAGG 1 -- int115Minor allele frequency- C:0.43EU EA WA NA 1342
rs70751881,2
C,F,H1078746(+) CAAAGT/GAGGTC 1 -- int112Minor allele frequency- G:0.14EU EA WA 1254
rs70748801,2
F,H1078565(+) AGAGCT/CGGTTA 1 -- int14Minor allele frequency- C:0.06EU EA WA 420
About this table

HapMap Linkage Disequilibrium images for IDI1 (up to first 250kb)

(in which this Gene is Involved, According to OMIM, UniProtKB, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, HGMD, GAD, HuGE Navigator, BCGD, and/or TGDB.)
About This Section

OMIM: 604055

1 PharmGKB disease relationship for IDI1 gene
Disease PharmGKB Relations PubMed IDs for articles supporting these relationships
Leukemia, Lymphocytic, Acute, L1FA  GN  12086872 12730115
About this table

Human Genome Epidemiology Navigator: IDI1 (1 document)

(Possibly Related Articles in Doctor's Guide)
About This Section

  --

(in PubMed. Associations of this gene to articles via 1Novoseek, 2HGNC, 3Entrez Gene, 4UniProtKB/Swiss-Prot, 5UniProtKB/TrEMBL, 6GAD, and/or 7PharmGKB)
About This Section

10/26 PubMed articles for IDI1 gene (see all 26 ):
(in PubMed, OMIM, and NCBI Bookshelf)
About This Section

 ANDOR
Aliases
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)
(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, and/or H-InvDB)
About This Section

Entrez Gene: 3422 HGNC: 5387 AceView: IDI1 Ensembl:ENSG00000067064 euGenes: HUgn3422
ECgene: IDI1 H-InvDB: IDI1
(According to HUGE)
About This Section

  --
(According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section

  --
(Available from WIS Yeda, Salk, Tufts)
About This Section

  --
(Reagents available from Applied Biosystems, Antibodies and assays by Cell Signaling Technology, Abcam, Novus Biologicals,
Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich,
Enzo Life Sciences, and/or Tocris Bioscience)
About This Section



Products for IDI1:
 TaqMan ® Gene Expression Assays
 TaqMan ® Genotyping Assays
  Free SNP selection tool



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 Antibodies for IDI1

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