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Protein

Isopentenyl-diphosphate Delta-isomerase

Gene

idi

Organism
Mycobacterium bovis (strain BCG / Pasteur 1173P2)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

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

Catalytic activityi

Isopentenyl diphosphate = dimethylallyl diphosphate.UniRule annotation

Cofactori

Protein has several cofactor binding sites:
  • Mg2+UniRule annotationNote: Binds 1 Mg2+ ion per subunit. The magnesium ion binds only when substrate is bound.UniRule annotation
  • Mn2+UniRule annotationNote: Binds 1 Mn2+ ion per subunit.UniRule annotation

Pathwayi: dimethylallyl diphosphate biosynthesis

This protein is involved in step 1 of the subpathway that synthesizes dimethylallyl diphosphate from isopentenyl diphosphate.UniRule annotation
Proteins known to be involved in this subpathway in this organism are:
  1. Isopentenyl-diphosphate Delta-isomerase (idi)
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
Metal bindingi33ManganeseUniRule annotation1
Metal bindingi40ManganeseUniRule annotation1
Active sitei75UniRule annotation1
Metal bindingi77ManganeseUniRule annotation1
Metal bindingi95MagnesiumUniRule annotation1
Metal bindingi122ManganeseUniRule annotation1
Active sitei124UniRule annotation1
Metal bindingi124ManganeseUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Isomerase

Keywords - Biological processi

Isoprene biosynthesis

Keywords - Ligandi

Magnesium, Manganese, Metal-binding

Enzyme and pathway databases

UniPathwayiUPA00059; UER00104.

Names & Taxonomyi

Protein namesi
Recommended name:
Isopentenyl-diphosphate Delta-isomeraseUniRule annotation (EC:5.3.3.2UniRule annotation)
Short name:
IPP isomeraseUniRule annotation
Alternative name(s):
IPP:DMAPP isomeraseUniRule annotation
Isopentenyl pyrophosphate isomeraseUniRule annotation
Gene namesi
Name:idiUniRule annotation
Ordered Locus Names:BCG_1784c
OrganismiMycobacterium bovis (strain BCG / Pasteur 1173P2)
Taxonomic identifieri410289 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaCorynebacterialesMycobacteriaceaeMycobacteriumMycobacterium tuberculosis complex
Proteomesi
  • UP000001472 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_10000121741 – 176Isopentenyl-diphosphate Delta-isomeraseAdd BLAST176

Structurei

3D structure databases

ProteinModelPortaliA1KJG2.
SMRiA1KJG2.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini38 – 172Nudix hydrolaseAdd BLAST135

Sequence similaritiesi

Belongs to the IPP isomerase type 1 family.UniRule annotation
Contains 1 nudix hydrolase domain.Curated

Phylogenomic databases

HOGENOMiHOG000274107.
KOiK01823.
OMAiRFEYKRY.

Family and domain databases

CDDicd02885. IPP_Isomerase. 1 hit.
Gene3Di3.90.79.10. 1 hit.
HAMAPiMF_00202. Idi. 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.

A1KJG2-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTRSYRPAPP IERVVLLNDR GDATGVADKA TVHTGDTPLH LAFSSYVFDL
60 70 80 90 100
HDQLLITRRA ATKRTWPAVW TNSCCGHPLP GESLPGAIRR RLAAELGLTP
110 120 130 140 150
DRVDLILPGF RYRAAMADGT VENEICPVYR VQVDQQPRPN SDEVDAIRWL
160 170
SWEQFVRDVT AGVIAPVSPW CRSQLG
Length:176
Mass (Da):19,585
Last modified:February 6, 2007 - v1
Checksum:iEB21D6701F12D32D
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AM408590 Genomic DNA. Translation: CAL71771.1.
RefSeqiWP_011799212.1. NC_008769.1.

Genome annotation databases

EnsemblBacteriaiCAL71771; CAL71771; BCG_1784c.
KEGGimbb:BCG_1784c.
PATRICi18014374. VBIMycBov80988_1947.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AM408590 Genomic DNA. Translation: CAL71771.1.
RefSeqiWP_011799212.1. NC_008769.1.

3D structure databases

ProteinModelPortaliA1KJG2.
SMRiA1KJG2.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiCAL71771; CAL71771; BCG_1784c.
KEGGimbb:BCG_1784c.
PATRICi18014374. VBIMycBov80988_1947.

Phylogenomic databases

HOGENOMiHOG000274107.
KOiK01823.
OMAiRFEYKRY.

Enzyme and pathway databases

UniPathwayiUPA00059; UER00104.

Family and domain databases

CDDicd02885. IPP_Isomerase. 1 hit.
Gene3Di3.90.79.10. 1 hit.
HAMAPiMF_00202. Idi. 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 nameiIDI_MYCBP
AccessioniPrimary (citable) accession number: A1KJG2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: February 6, 2007
Last modified: November 2, 2016
This is version 72 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. 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.