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Protein

Isopentenyl-diphosphate delta-isomerase 2

Gene

IDI2

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

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

Catalytic activityi

Isopentenyl diphosphate = dimethylallyl diphosphate.

Cofactori

Mg2+By similarityNote: Binds 1 Mg2+ ion per subunit.By similarity

Pathwayi: dimethylallyl diphosphate biosynthesis

This protein is involved in step 1 of the subpathway that synthesizes dimethylallyl diphosphate from isopentenyl diphosphate.
Proteins known to be involved in this subpathway in this organism are:
  1. Isopentenyl-diphosphate delta-isomerase 2 (IDI2), Isopentenyl-diphosphate Delta-isomerase 1 (IDI1)
This subpathway is part of the pathway dimethylallyl diphosphate biosynthesis, which is itself part of Isoprenoid biosynthesis.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes dimethylallyl diphosphate from isopentenyl diphosphate, the pathway dimethylallyl diphosphate biosynthesis and in Isoprenoid biosynthesis.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei36SubstrateBy similarity1
Metal bindingi40MagnesiumBy similarity1
Metal bindingi51MagnesiumBy similarity1
Binding sitei70SubstrateBy similarity1
Binding sitei74SubstrateBy similarity1
Active sitei86By similarity1
Binding sitei87SubstrateBy similarity1
Metal bindingi146MagnesiumBy similarity1
Active sitei148By similarity1
Metal bindingi148MagnesiumBy similarity1

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Isomerase

Keywords - Biological processi

Cholesterol biosynthesis, Cholesterol metabolism, Isoprene biosynthesis, Lipid biosynthesis, Lipid metabolism, Steroid biosynthesis, Steroid metabolism, Sterol biosynthesis, Sterol metabolism

Keywords - Ligandi

Magnesium, Metal-binding

Enzyme and pathway databases

BioCyciMetaCyc:HS07522-MONOMER.
ZFISH:HS07522-MONOMER.
ReactomeiR-HSA-191273. Cholesterol biosynthesis.
UniPathwayiUPA00059; UER00104.

Chemistry databases

SwissLipidsiSLP:000001268.

Names & Taxonomyi

Protein namesi
Recommended name:
Isopentenyl-diphosphate delta-isomerase 2 (EC:5.3.3.2)
Alternative name(s):
Isopentenyl pyrophosphate isomerase 2
Short name:
IPP isomerase 2
Short name:
IPPI2
Gene namesi
Name:IDI2
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 10

Organism-specific databases

HGNCiHGNC:23487. IDI2.

Subcellular locationi

GO - Cellular componenti

  • cytosol Source: Reactome
  • peroxisome Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Peroxisome

Pathology & Biotechi

Organism-specific databases

OpenTargetsiENSG00000148377.
PharmGKBiPA134935136.

Polymorphism and mutation databases

BioMutaiIDI2.
DMDMi20978506.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002052281 – 227Isopentenyl-diphosphate delta-isomerase 2Add BLAST227

Proteomic databases

EPDiQ9BXS1.
MaxQBiQ9BXS1.
PaxDbiQ9BXS1.
PeptideAtlasiQ9BXS1.
PRIDEiQ9BXS1.

PTM databases

iPTMnetiQ9BXS1.
PhosphoSitePlusiQ9BXS1.

Expressioni

Tissue specificityi

Detected in skeletal muscle.1 Publication

Gene expression databases

BgeeiENSG00000148377.
CleanExiHS_IDI2.
GenevisibleiQ9BXS1. HS.

Organism-specific databases

HPAiHPA041254.

Interactioni

Protein-protein interaction databases

BioGridi124870. 12 interactors.
IntActiQ9BXS1. 2 interactors.
STRINGi9606.ENSP00000277517.

Structurei

Secondary structure

1227
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi1 – 4Combined sources4
Helixi11 – 16Combined sources6
Beta strandi20 – 24Combined sources5
Beta strandi30 – 35Combined sources6
Helixi36 – 39Combined sources4
Helixi42 – 45Combined sources4
Turni46 – 48Combined sources3
Beta strandi51 – 59Combined sources9
Beta strandi65 – 70Combined sources6
Beta strandi75 – 77Combined sources3
Beta strandi84 – 87Combined sources4
Beta strandi90 – 92Combined sources3
Helixi93 – 96Combined sources4
Helixi99 – 101Combined sources3
Helixi102 – 116Combined sources15
Turni120 – 122Combined sources3
Helixi125 – 127Combined sources3
Beta strandi128 – 156Combined sources29
Turni165 – 167Combined sources3
Beta strandi168 – 174Combined sources7
Helixi176 – 188Combined sources13
Helixi195 – 203Combined sources9
Helixi205 – 208Combined sources4
Helixi209 – 211Combined sources3
Helixi216 – 218Combined sources3

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2PNYX-ray1.81A1-227[»]
ProteinModelPortaliQ9BXS1.
SMRiQ9BXS1.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9BXS1.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini49 – 199Nudix hydrolasePROSITE-ProRule annotationAdd BLAST151

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi225 – 227Microbody targeting signalSequence analysis3

Sequence similaritiesi

Belongs to the IPP isomerase type 1 family.Curated
Contains 1 nudix hydrolase domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiKOG0142. Eukaryota.
COG1443. LUCA.
GeneTreeiENSGT00390000008527.
HOGENOMiHOG000274106.
HOVERGENiHBG002995.
InParanoidiQ9BXS1.
KOiK01823.
OMAiYEHELCH.
OrthoDBiEOG091G0LWP.
PhylomeDBiQ9BXS1.
TreeFamiTF300129.

Family and domain databases

CDDicd02885. IPP_Isomerase. 1 hit.
Gene3Di3.90.79.10. 1 hit.
InterProiIPR011876. IsopentenylPP_isomerase_typ1.
IPR000086. NUDIX_hydrolase_dom.
IPR015797. NUDIX_hydrolase_dom-like.
[Graphical view]
PANTHERiPTHR10885. PTHR10885. 1 hit.
PfamiPF00293. NUDIX. 1 hit.
[Graphical view]
PIRSFiPIRSF018427. Isopntndiph_ism. 1 hit.
SUPFAMiSSF55811. SSF55811. 1 hit.
TIGRFAMsiTIGR02150. IPP_isom_1. 1 hit.
PROSITEiPS51462. NUDIX. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q9BXS1-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSDINLDWVD RRQLQRLEEM LIVVDENDKV IGADTKRNCH LNENIEKGLL
60 70 80 90 100
HRAFSVVLFN TKNRILIQQR SDTKVTFPGY FTDSCSSHPL YNPAELEEKD
110 120 130 140 150
AIGVRRAAQR RLQAELGIPG EQISPEDIVF MTIYHHKAKS DRIWGEHEIC
160 170 180 190 200
YLLLVRKNVT LNPDPSETKS ILYLSQEELW ELLEREARGE VKVTPWLRTI
210 220
AERFLYRWWP HLDDVTPFVE LHKIHRV
Length:227
Mass (Da):26,753
Last modified:June 1, 2001 - v1
Checksum:i2FD79B076D94A7D0
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF291755 Genomic DNA. Translation: AAK29358.1.
AF271729
, AF271726, AF271727, AF271728 Genomic DNA. Translation: AAK49436.1.
AF271725 mRNA. Translation: AAK49437.1.
AK056950 mRNA. Translation: BAB71322.1.
BC017778 mRNA. Translation: AAH17778.1.
CCDSiCCDS7055.1.
RefSeqiNP_150286.1. NM_033261.2.
UniGeneiHs.591325.
Hs.9270.

Genome annotation databases

EnsembliENST00000277517; ENSP00000277517; ENSG00000148377.
GeneIDi91734.
KEGGihsa:91734.
UCSCiuc001ifv.1. human.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF291755 Genomic DNA. Translation: AAK29358.1.
AF271729
, AF271726, AF271727, AF271728 Genomic DNA. Translation: AAK49436.1.
AF271725 mRNA. Translation: AAK49437.1.
AK056950 mRNA. Translation: BAB71322.1.
BC017778 mRNA. Translation: AAH17778.1.
CCDSiCCDS7055.1.
RefSeqiNP_150286.1. NM_033261.2.
UniGeneiHs.591325.
Hs.9270.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2PNYX-ray1.81A1-227[»]
ProteinModelPortaliQ9BXS1.
SMRiQ9BXS1.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi124870. 12 interactors.
IntActiQ9BXS1. 2 interactors.
STRINGi9606.ENSP00000277517.

Chemistry databases

SwissLipidsiSLP:000001268.

PTM databases

iPTMnetiQ9BXS1.
PhosphoSitePlusiQ9BXS1.

Polymorphism and mutation databases

BioMutaiIDI2.
DMDMi20978506.

Proteomic databases

EPDiQ9BXS1.
MaxQBiQ9BXS1.
PaxDbiQ9BXS1.
PeptideAtlasiQ9BXS1.
PRIDEiQ9BXS1.

Protocols and materials databases

DNASUi91734.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000277517; ENSP00000277517; ENSG00000148377.
GeneIDi91734.
KEGGihsa:91734.
UCSCiuc001ifv.1. human.

Organism-specific databases

CTDi91734.
GeneCardsiIDI2.
H-InvDBHIX0127248.
HGNCiHGNC:23487. IDI2.
HPAiHPA041254.
MIMi615389. gene.
neXtProtiNX_Q9BXS1.
OpenTargetsiENSG00000148377.
PharmGKBiPA134935136.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG0142. Eukaryota.
COG1443. LUCA.
GeneTreeiENSGT00390000008527.
HOGENOMiHOG000274106.
HOVERGENiHBG002995.
InParanoidiQ9BXS1.
KOiK01823.
OMAiYEHELCH.
OrthoDBiEOG091G0LWP.
PhylomeDBiQ9BXS1.
TreeFamiTF300129.

Enzyme and pathway databases

UniPathwayiUPA00059; UER00104.
BioCyciMetaCyc:HS07522-MONOMER.
ZFISH:HS07522-MONOMER.
ReactomeiR-HSA-191273. Cholesterol biosynthesis.

Miscellaneous databases

EvolutionaryTraceiQ9BXS1.
GenomeRNAii91734.
PROiQ9BXS1.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000148377.
CleanExiHS_IDI2.
GenevisibleiQ9BXS1. HS.

Family and domain databases

CDDicd02885. IPP_Isomerase. 1 hit.
Gene3Di3.90.79.10. 1 hit.
InterProiIPR011876. IsopentenylPP_isomerase_typ1.
IPR000086. NUDIX_hydrolase_dom.
IPR015797. NUDIX_hydrolase_dom-like.
[Graphical view]
PANTHERiPTHR10885. PTHR10885. 1 hit.
PfamiPF00293. NUDIX. 1 hit.
[Graphical view]
PIRSFiPIRSF018427. Isopntndiph_ism. 1 hit.
SUPFAMiSSF55811. SSF55811. 1 hit.
TIGRFAMsiTIGR02150. IPP_isom_1. 1 hit.
PROSITEiPS51462. NUDIX. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiIDI2_HUMAN
AccessioniPrimary (citable) accession number: Q9BXS1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 15, 2002
Last sequence update: June 1, 2001
Last modified: November 30, 2016
This is version 143 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Human chromosome 10
    Human chromosome 10: entries, gene names and cross-references to MIM
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  3. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  4. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  5. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.