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Protein

Isopentenyl-diphosphate Delta-isomerase

Gene

idi

Organism
Arthrobacter aurescens (strain TC1)
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)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi26 – 261ManganeseUniRule annotation
Metal bindingi33 – 331ManganeseUniRule annotation
Active sitei68 – 681UniRule annotation
Metal bindingi70 – 701ManganeseUniRule annotation
Metal bindingi88 – 881MagnesiumUniRule annotation
Metal bindingi115 – 1151ManganeseUniRule annotation
Active sitei117 – 1171UniRule annotation
Metal bindingi117 – 1171ManganeseUniRule annotation

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

BioCyciAAUR290340:GI59-321-MONOMER.
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:AAur_0321
OrganismiArthrobacter aurescens (strain TC1)
Taxonomic identifieri290340 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaMicrococcalesMicrococcaceaePaenarthrobacter
Proteomesi
  • UP000000637 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 184184Isopentenyl-diphosphate Delta-isomerasePRO_1000077739Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi290340.AAur_0321.

Structurei

3D structure databases

ProteinModelPortaliA1R1M6.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini31 – 165135Nudix hydrolaseAdd
BLAST

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiENOG4108ZEY. Bacteria.
COG1443. LUCA.
HOGENOMiHOG000274107.
KOiK01823.
OMAiRFEYKRY.
OrthoDBiPOG091H03FW.

Family and domain databases

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.

A1R1M6-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNATEMVVLL DDAGTPIGEA PKAGVHTLDT PLHLAFSCYL INDVGEVLLT
60 70 80 90 100
RRSPEKKTWP GVWTNSFCGH PGPGEEFEDA ILRRAQFELG VDANKIELVL
110 120 130 140 150
PHFRYRAIDP TGIVENEVCP VYVARITGVL NPNPAEVADW AWISPALLAD
160 170 180
ALEHTPSAFS PWLGLQFPQL LEANALPLQA GAEA
Length:184
Mass (Da):20,003
Last modified:February 6, 2007 - v1
Checksum:iAC7DC704A9A9DCE0
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000474 Genomic DNA. Translation: ABM06566.1.
RefSeqiWP_011773086.1. NC_008711.1.

Genome annotation databases

EnsemblBacteriaiABM06566; ABM06566; AAur_0321.
KEGGiaau:AAur_0321.
PATRICi20975934. VBIArtAur67810_0324.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000474 Genomic DNA. Translation: ABM06566.1.
RefSeqiWP_011773086.1. NC_008711.1.

3D structure databases

ProteinModelPortaliA1R1M6.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi290340.AAur_0321.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABM06566; ABM06566; AAur_0321.
KEGGiaau:AAur_0321.
PATRICi20975934. VBIArtAur67810_0324.

Phylogenomic databases

eggNOGiENOG4108ZEY. Bacteria.
COG1443. LUCA.
HOGENOMiHOG000274107.
KOiK01823.
OMAiRFEYKRY.
OrthoDBiPOG091H03FW.

Enzyme and pathway databases

UniPathwayiUPA00059; UER00104.
BioCyciAAUR290340:GI59-321-MONOMER.

Family and domain databases

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_ARTAT
AccessioniPrimary (citable) accession number: A1R1M6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 20, 2008
Last sequence update: February 6, 2007
Last modified: September 7, 2016
This is version 73 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, Reference 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.