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Protein

Isopentenyl-diphosphate delta-isomerase

Gene

fni

Organism
Rickettsia prowazekii (strain Madrid E)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Protein inferred from homologyi

Functioni

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

Catalytic activityi

Isopentenyl diphosphate = dimethylallyl diphosphate.UniRule annotation

Cofactori

Protein has several cofactor binding sites:
  • FMNUniRule annotation
  • NADPHUniRule annotation
  • Mg2+UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei68 – 681FMNUniRule annotation
Binding sitei99 – 991FMN; via amide nitrogenUniRule annotation
Binding sitei127 – 1271FMNUniRule annotation
Metal bindingi163 – 1631MagnesiumUniRule annotation
Binding sitei194 – 1941FMNUniRule annotation
Binding sitei224 – 2241FMN; via amide nitrogenUniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi69 – 713FMNUniRule annotation
Nucleotide bindingi295 – 2962FMNUniRule annotation

GO - Molecular functioni

  1. FMN binding Source: UniProtKB-HAMAP
  2. isopentenyl-diphosphate delta-isomerase activity Source: UniProtKB-HAMAP
  3. magnesium ion binding Source: UniProtKB-HAMAP
  4. NADPH binding Source: UniProtKB-HAMAP
  5. oxidoreductase activity Source: InterPro

GO - Biological processi

  1. isoprenoid biosynthetic process Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Molecular functioni

Isomerase

Keywords - Biological processi

Isoprene biosynthesis

Keywords - Ligandi

Flavoprotein, FMN, Magnesium, Metal-binding, NADP

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):
Isopentenyl diphosphate:dimethylallyl diphosphate isomeraseUniRule annotation
Isopentenyl pyrophosphate isomeraseUniRule annotation
Type 2 isopentenyl diphosphate isomeraseUniRule annotation
Short name:
IDI-2UniRule annotation
Gene namesi
Name:fniUniRule annotation
Ordered Locus Names:RP452
OrganismiRickettsia prowazekii (strain Madrid E)
Taxonomic identifieri272947 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRickettsialesRickettsiaceaeRickettsieaeRickettsiatyphus group
ProteomesiUP000002480: Chromosome

Subcellular locationi

Cytoplasm UniRule annotation

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 342342Isopentenyl-diphosphate delta-isomerasePRO_0000134419Add
BLAST

Interactioni

Subunit structurei

Homooctamer. Dimer of tetramers.UniRule annotation

Protein-protein interaction databases

STRINGi272947.RP452.

Structurei

3D structure databases

ProteinModelPortaliQ9ZD90.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni11 – 122Substrate bindingUniRule annotation
Regioni99 – 1013Substrate bindingUniRule annotation

Sequence similaritiesi

Belongs to the IPP isomerase type 2 family.UniRule annotation

Phylogenomic databases

eggNOGiCOG1304.
HOGENOMiHOG000072126.
KOiK01823.
OMAiWDWGIPT.
OrthoDBiEOG62C9GJ.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_00354. Idi_2.
InterProiIPR013785. Aldolase_TIM.
IPR000262. FMN-dep_DH.
IPR011179. IPdP_isomerase.
[Graphical view]
PANTHERiPTHR10578:SF3. PTHR10578:SF3. 1 hit.
PfamiPF01070. FMN_dh. 1 hit.
[Graphical view]
PIRSFiPIRSF003314. IPP_isomerase. 1 hit.
TIGRFAMsiTIGR02151. IPP_isom_2. 1 hit.

Sequencei

Sequence statusi: Complete.

Q9ZD90-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MPKEQNLDIE RKQEHIEINL KQNVNSTLKS GLESIKFIHN ALPEINYDSI
60 70 80 90 100
DTTTTFLGKD MKAPILISSM TGGTARARDI NYRLAQAAQK SGIAMGLGSM
110 120 130 140 150
RILLTKPDTI KTFTVRHVAP DIPLLANIGA VQLNYGVTPK ECQYLIDTIK
160 170 180 190 200
ADALILHLNV LHELTQPEGN KNWENLLPKI KEVINYLSVP VIVKEVGYGL
210 220 230 240 250
SKQVAKKLIK AGVKVLDIAG SGGTSWSQVE AYRAKNSMQN RIASSFINWG
260 270 280 290 300
ITTLDSLKML QEISKDITII ASGGLQSGID GAKAIRMGAN IFGLAGKLLK
310 320 330 340
AADIAESLVL EEIQVIIEQL KITMLCTGSC TLKDLAKAEI MW
Length:342
Mass (Da):37,364
Last modified:May 1, 1999 - v1
Checksum:iFE452A843CA1B950
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ235271 Genomic DNA. Translation: CAA14909.1.
PIRiC71704.
RefSeqiNP_220833.1. NC_000963.1.

Genome annotation databases

EnsemblBacteriaiCAA14909; CAA14909; CAA14909.
GeneIDi883361.
KEGGirpr:RP452.
PATRICi17901685. VBIRicPro72556_0465.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ235271 Genomic DNA. Translation: CAA14909.1.
PIRiC71704.
RefSeqiNP_220833.1. NC_000963.1.

3D structure databases

ProteinModelPortaliQ9ZD90.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi272947.RP452.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiCAA14909; CAA14909; CAA14909.
GeneIDi883361.
KEGGirpr:RP452.
PATRICi17901685. VBIRicPro72556_0465.

Phylogenomic databases

eggNOGiCOG1304.
HOGENOMiHOG000072126.
KOiK01823.
OMAiWDWGIPT.
OrthoDBiEOG62C9GJ.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_00354. Idi_2.
InterProiIPR013785. Aldolase_TIM.
IPR000262. FMN-dep_DH.
IPR011179. IPdP_isomerase.
[Graphical view]
PANTHERiPTHR10578:SF3. PTHR10578:SF3. 1 hit.
PfamiPF01070. FMN_dh. 1 hit.
[Graphical view]
PIRSFiPIRSF003314. IPP_isomerase. 1 hit.
TIGRFAMsiTIGR02151. IPP_isom_2. 1 hit.
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Madrid E.

Entry informationi

Entry nameiIDI2_RICPR
AccessioniPrimary (citable) accession number: Q9ZD90
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 27, 2001
Last sequence update: May 1, 1999
Last modified: February 4, 2015
This is version 88 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. Rickettsia prowazekii
    Rickettsia prowazekii (strain Madrid E): entries and gene names
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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 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.