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Isopentenyl-diphosphate delta-isomerase (IPP isomerase) (EC 5.3.3.2) (Isopentenyl diphosphate:dimethylallyl diphosphate isomerase) (Isopentenyl pyrophosphate isomerase) (Type 2 isopentenyl diphosphate isomerase) (IDI-2)

 A0A0P9F204_9CHLR        Unreviewed;       344 AA.
A0A0P9F204;
20-JAN-2016, integrated into UniProtKB/TrEMBL.
20-JAN-2016, sequence version 1.
16-JAN-2019, entry version 15.
RecName: Full=Isopentenyl-diphosphate delta-isomerase {ECO:0000256|HAMAP-Rule:MF_00354};
Short=IPP isomerase {ECO:0000256|HAMAP-Rule:MF_00354};
EC=5.3.3.2 {ECO:0000256|HAMAP-Rule:MF_00354};
AltName: Full=Isopentenyl diphosphate:dimethylallyl diphosphate isomerase {ECO:0000256|HAMAP-Rule:MF_00354};
AltName: Full=Isopentenyl pyrophosphate isomerase {ECO:0000256|HAMAP-Rule:MF_00354};
AltName: Full=Type 2 isopentenyl diphosphate isomerase {ECO:0000256|HAMAP-Rule:MF_00354};
Short=IDI-2 {ECO:0000256|HAMAP-Rule:MF_00354};
Name=fni {ECO:0000256|HAMAP-Rule:MF_00354};
ORFNames=SE17_26690 {ECO:0000313|EMBL:KPV50482.1};
Kouleothrix aurantiaca.
Bacteria; Chloroflexi; Chloroflexia; Chloroflexales; Roseiflexineae;
Roseiflexaceae; Kouleothrix.
NCBI_TaxID=186479 {ECO:0000313|EMBL:KPV50482.1};
[1] {ECO:0000313|EMBL:KPV50482.1}
NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
STRAIN=COM-B {ECO:0000313|EMBL:KPV50482.1};
Hemp J.;
"Draft genome sequence of Kouleothrix aurantiaca JCM 19913.";
Submitted (SEP-2015) to the EMBL/GenBank/DDBJ databases.
-!- FUNCTION: 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). {ECO:0000256|HAMAP-Rule:MF_00354}.
-!- CATALYTIC ACTIVITY:
Reaction=isopentenyl diphosphate = dimethylallyl diphosphate;
Xref=Rhea:RHEA:23284, ChEBI:CHEBI:57623, ChEBI:CHEBI:128769;
EC=5.3.3.2; Evidence={ECO:0000256|HAMAP-Rule:MF_00354};
-!- COFACTOR:
Name=FMN; Xref=ChEBI:CHEBI:58210;
Evidence={ECO:0000256|HAMAP-Rule:MF_00354};
-!- COFACTOR:
Name=Mg(2+); Xref=ChEBI:CHEBI:18420;
Evidence={ECO:0000256|HAMAP-Rule:MF_00354};
-!- COFACTOR:
Name=NADPH; Xref=ChEBI:CHEBI:57783;
Evidence={ECO:0000256|HAMAP-Rule:MF_00354};
-!- SUBUNIT: Homooctamer. Dimer of tetramers. {ECO:0000256|HAMAP-
Rule:MF_00354}.
-!- SUBCELLULAR LOCATION: Cytoplasm {ECO:0000256|HAMAP-Rule:MF_00354}.
-!- SIMILARITY: Belongs to the IPP isomerase type 2 family.
{ECO:0000256|HAMAP-Rule:MF_00354}.
-!- CAUTION: Lacks conserved residue(s) required for the propagation
of feature annotation. {ECO:0000256|HAMAP-Rule:MF_00354}.
-!- CAUTION: The sequence shown here is derived from an
EMBL/GenBank/DDBJ whole genome shotgun (WGS) entry which is
preliminary data. {ECO:0000313|EMBL:KPV50482.1}.
-----------------------------------------------------------------------
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Distributed under the Creative Commons Attribution (CC BY 4.0) License
-----------------------------------------------------------------------
EMBL; LJCR01001368; KPV50482.1; -; Genomic_DNA.
EnsemblBacteria; KPV50482; KPV50482; SE17_26690.
PATRIC; fig|186479.3.peg.1538; -.
GO; GO:0005737; C:cytoplasm; IEA:UniProtKB-SubCell.
GO; GO:0010181; F:FMN binding; IEA:UniProtKB-UniRule.
GO; GO:0004452; F:isopentenyl-diphosphate delta-isomerase activity; IEA:UniProtKB-UniRule.
GO; GO:0000287; F:magnesium ion binding; IEA:UniProtKB-UniRule.
GO; GO:0070402; F:NADPH binding; IEA:UniProtKB-UniRule.
GO; GO:0016491; F:oxidoreductase activity; IEA:InterPro.
GO; GO:0008299; P:isoprenoid biosynthetic process; IEA:UniProtKB-UniRule.
CDD; cd02811; IDI-2_FMN; 1.
Gene3D; 3.20.20.70; -; 1.
HAMAP; MF_00354; Idi_2; 1.
InterPro; IPR013785; Aldolase_TIM.
InterPro; IPR000262; FMN-dep_DH.
InterPro; IPR011179; IPdP_isomerase.
PANTHER; PTHR43665; PTHR43665; 1.
Pfam; PF01070; FMN_dh; 2.
PIRSF; PIRSF003314; IPP_isomerase; 1.
TIGRFAMs; TIGR02151; IPP_isom_2; 1.
3: Inferred from homology;
Cytoplasm {ECO:0000256|HAMAP-Rule:MF_00354};
Flavoprotein {ECO:0000256|HAMAP-Rule:MF_00354};
FMN {ECO:0000256|HAMAP-Rule:MF_00354};
Isomerase {ECO:0000256|HAMAP-Rule:MF_00354,
ECO:0000313|EMBL:KPV50482.1};
Isoprene biosynthesis {ECO:0000256|HAMAP-Rule:MF_00354};
Magnesium {ECO:0000256|HAMAP-Rule:MF_00354};
Metal-binding {ECO:0000256|HAMAP-Rule:MF_00354};
NADP {ECO:0000256|HAMAP-Rule:MF_00354}.
DOMAIN 10 102 FMN_dh. {ECO:0000259|Pfam:PF01070}.
DOMAIN 179 337 FMN_dh. {ECO:0000259|Pfam:PF01070}.
NP_BIND 69 71 FMN. {ECO:0000256|HAMAP-Rule:MF_00354}.
NP_BIND 274 276 FMN. {ECO:0000256|HAMAP-Rule:MF_00354}.
NP_BIND 295 296 FMN. {ECO:0000256|HAMAP-Rule:MF_00354}.
REGION 10 11 Substrate binding. {ECO:0000256|HAMAP-
Rule:MF_00354}.
REGION 99 101 Substrate binding. {ECO:0000256|HAMAP-
Rule:MF_00354}.
METAL 163 163 Magnesium. {ECO:0000256|HAMAP-
Rule:MF_00354}.
BINDING 68 68 FMN. {ECO:0000256|HAMAP-Rule:MF_00354}.
BINDING 99 99 FMN; via amide nitrogen.
{ECO:0000256|HAMAP-Rule:MF_00354}.
BINDING 127 127 FMN. {ECO:0000256|HAMAP-Rule:MF_00354}.
BINDING 162 162 Substrate. {ECO:0000256|HAMAP-
Rule:MF_00354}.
BINDING 194 194 FMN. {ECO:0000256|HAMAP-Rule:MF_00354}.
BINDING 224 224 FMN; via amide nitrogen.
{ECO:0000256|HAMAP-Rule:MF_00354}.
SEQUENCE 344 AA; 35983 MW; 2E9E3999D7A3BE71 CRC64;
MIENDPTSSR KLDHVRIVLG EDVAAKGVYT GFAAYRLPHD ALPDLDLAEI DTCTTFLGKT
MRAPLLISSM TGGAHDVARI NLALAEAAQT LGLALGVGSQ RSAIRDERLA YTYQVRKVAP
SIPLLANLGA VQLNYGYGVD ECRRAVEMIE ADALILHFNP LQEAVQPEGN TNFKGLLGKI
AQVCRALPVP VIAKEVGNGI SAAAAKRLVE AGVWGIDVAG AGGTSWSEVE RFRHTTAQGG
RVAGAFAGWG LPTTEAIRQV RAALPDVPLI GSGGVRSGVD IAKAIALGAD LGATAKPALE
PANTGNTEAV IAGLQAYIDE LRVAMFCSGC GTLQALRALP LERM


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Kits Elisa; taq POLYMERASE

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Pathways :
WP305: Glucocorticoid Metabolism
WP1493: Carbon assimilation C4 pathway
WP1684: Pentose phosphate pathway
WP1708: Terpenoid backbone biosynthesis
WP1946: Cori Cycle
WP2211: Geranylgeranyldiphosphate biosynthesis II (plastidic)
WP2248: anthocyanin biosynthesis
WP253: Glycolysis
WP174: Hexaprenyl Diphosphate Biosynthesis
WP677: Momilactone biosynthesis
WP1017: Type II interferon signaling (IFNG)
WP1064: Delta-Notch Signaling Pathway
WP1136: Type II interferon signaling (IFNG)
WP1180: Delta-Notch Signaling Pathway
WP1204: Mismatch repair
WP1205: Homologous recombination
WP1253: Type II interferon signaling (IFNG)
WP1289: Type II interferon signaling (IFNG)
WP1350: Type II interferon signaling (IFNG)
WP1382: Delta-Notch Signaling Pathway
WP1584: Type II diabetes mellitus
WP1644: DNA replication
WP1663: Homologous recombination
WP1672: Mismatch repair
WP1693: Purine metabolism

Related Genes :
[fni fni1 VNG_5084G H0660; fni2 VNG_5213G H1696; fni3 VNG_6081G; fni4 VNG_6445G] Isopentenyl-diphosphate delta-isomerase (IPP isomerase) (EC 5.3.3.2) (Isopentenyl diphosphate:dimethylallyl diphosphate isomerase) (Isopentenyl pyrophosphate isomerase) (Type 2 isopentenyl diphosphate isomerase) (IDI-2)
[IDI1 QtrA-12624] Isopentenyl-diphosphate Delta-isomerase 1 (EC 5.3.3.2) (Isopentenyl pyrophosphate isomerase 1) (IPP isomerase 1) (IPPI1)
[fni MSMEI_1025 MSMEI_2277] Isopentenyl-diphosphate delta-isomerase (IPP isomerase) (EC 5.3.3.2) (Isopentenyl diphosphate:dimethylallyl diphosphate isomerase) (Isopentenyl pyrophosphate isomerase) (Type 2 isopentenyl diphosphate isomerase) (IDI-2)
[idi fni] Isopentenyl-diphosphate delta-isomerase (IPP isomerase) (EC 5.3.3.2) (Isopentenyl diphosphate:dimethylallyl diphosphate isomerase) (Isopentenyl pyrophosphate isomerase) (Type 2 isopentenyl diphosphate isomerase) (IDI-2)
[fni Loa_02633] Isopentenyl-diphosphate delta-isomerase (IPP isomerase) (EC 5.3.3.2) (Isopentenyl diphosphate:dimethylallyl diphosphate isomerase) (Isopentenyl pyrophosphate isomerase) (Type 2 isopentenyl diphosphate isomerase) (IDI-2)
[fni B5K03_29810] Isopentenyl-diphosphate delta-isomerase (IPP isomerase) (EC 5.3.3.2) (Isopentenyl diphosphate:dimethylallyl diphosphate isomerase) (Isopentenyl pyrophosphate isomerase) (Type 2 isopentenyl diphosphate isomerase) (IDI-2)
[fni TAM4_226] Isopentenyl-diphosphate delta-isomerase (IPP isomerase) (EC 5.3.3.2) (Isopentenyl diphosphate:dimethylallyl diphosphate isomerase) (Isopentenyl pyrophosphate isomerase) (Type 2 isopentenyl diphosphate isomerase) (IDI-2)
[fni PYWP30_00053] Isopentenyl-diphosphate delta-isomerase (IPP isomerase) (EC 5.3.3.2) (Isopentenyl diphosphate:dimethylallyl diphosphate isomerase) (Isopentenyl pyrophosphate isomerase) (Type 2 isopentenyl diphosphate isomerase) (IDI-2)
[al-3 B8P8.010 NCU01427] Geranylgeranyl pyrophosphate synthase (GGPP synthase) (GGPPSase) (EC 2.5.1.-) ((2E,6E)-farnesyl diphosphate synthase) (Albino-3 protein) (Dimethylallyltranstransferase) (EC 2.5.1.1) (Farnesyl diphosphate synthase) (Farnesyltranstransferase) (EC 2.5.1.29) (Geranylgeranyl diphosphate synthase) (Geranyltranstransferase) (EC 2.5.1.10)
[BTS1 YPL069C] Geranylgeranyl pyrophosphate synthase (GGPP synthase) (GGPPSase) (EC 2.5.1.-) ((2E,6E)-farnesyl diphosphate synthase) (BET2 suppressor protein 1) (Dimethylallyltranstransferase) (EC 2.5.1.1) (Farnesyl diphosphate synthase) (Farnesyltranstransferase) (EC 2.5.1.29) (Geranylgeranyl diphosphate synthase) (Geranyltranstransferase) (EC 2.5.1.10)
[GGPP3 At3g14550 MIE1.5] Geranylgeranyl pyrophosphate synthase 3, chloroplastic (GGPP synthase 3) (GGPS3) (EC 2.5.1.-) ((2E,6E)-farnesyl diphosphate synthase 3) (Dimethylallyltranstransferase 3) (EC 2.5.1.1) (Farnesyl diphosphate synthase 3) (Farnesyltranstransferase 3) (EC 2.5.1.29) (Geranyltranstransferase 3) (EC 2.5.1.10)
[GGPS1] Geranylgeranyl pyrophosphate synthase (GGPP synthase) (GGPPSase) (EC 2.5.1.-) ((2E,6E)-farnesyl diphosphate synthase) (Dimethylallyltranstransferase) (EC 2.5.1.1) (Farnesyl diphosphate synthase) (Farnesyltranstransferase) (EC 2.5.1.29) (Geranylgeranyl diphosphate synthase) (Geranyltranstransferase) (EC 2.5.1.10)
[GGPP6 At1g49530 F13F21.3] Geranylgeranyl pyrophosphate synthase 6, mitochondrial (GGPP synthase 6) (GGPS6) (EC 2.5.1.-) ((2E,6E)-farnesyl diphosphate synthase 6) (Dimethylallyltranstransferase 6) (EC 2.5.1.1) (Farnesyl diphosphate synthase 6) (Farnesyltranstransferase 6) (EC 2.5.1.29) (Geranyltranstransferase 6) (EC 2.5.1.10)
[spo9 SPBC36.06c] Geranylgeranyl pyrophosphate synthase (GGPP synthase) (GGPPSase) (EC 2.5.1.-) ((2E,6E)-farnesyl diphosphate synthase) (Dimethylallyltranstransferase) (EC 2.5.1.1) (Farnesyl diphosphate synthase) (Farnesyltranstransferase) (EC 2.5.1.29) (Geranylgeranyl diphosphate synthase) (Geranyltranstransferase) (EC 2.5.1.10) (Sporulation-specific protein 9)
[Ggps1] Geranylgeranyl pyrophosphate synthase (GGPP synthase) (GGPPSase) (EC 2.5.1.-) ((2E,6E)-farnesyl diphosphate synthase) (Dimethylallyltranstransferase) (EC 2.5.1.1) (Farnesyl diphosphate synthase) (Farnesyltranstransferase) (EC 2.5.1.29) (Geranylgeranyl diphosphate synthase) (Geranyltranstransferase) (EC 2.5.1.10)
[Ggps1] Geranylgeranyl pyrophosphate synthase (GGPP synthase) (GGPPSase) (EC 2.5.1.-) ((2E,6E)-farnesyl diphosphate synthase) (Dimethylallyltranstransferase) (EC 2.5.1.1) (Farnesyl diphosphate synthase) (Farnesyltranstransferase) (EC 2.5.1.29) (Geranylgeranyl diphosphate synthase) (Geranyltranstransferase) (EC 2.5.1.10)
[GGPS1] Geranylgeranyl pyrophosphate synthase (GGPP synthase) (GGPPSase) (EC 2.5.1.-) ((2E,6E)-farnesyl diphosphate synthase) (Dimethylallyltranstransferase) (EC 2.5.1.1) (Farnesyl diphosphate synthase) (Farnesyltranstransferase) (EC 2.5.1.29) (Geranylgeranyl diphosphate synthase) (Geranyltranstransferase) (EC 2.5.1.10)
[GGPPS2 GGPP5 GGPS2 At2g23800 F27L4.2] Heterodimeric geranylgeranyl pyrophosphate synthase large subunit 2 (GGPP synthase 2) (GGPS2) (EC 2.5.1.-) ((2E,6E)-farnesyl diphosphate synthase 2) (Dimethylallyltranstransferase 2) (EC 2.5.1.1) (Farnesyl diphosphate synthase 2) (Farnesyltranstransferase 2) (EC 2.5.1.29) (Geranyltranstransferase 2) (EC 2.5.1.10)
[carG] Geranylgeranyl pyrophosphate synthase (GGPP synthase) (GGPPSase) (EC 2.5.1.-) ((2E,6E)-farnesyl diphosphate synthase) (Dimethylallyltranstransferase) (EC 2.5.1.1) (Farnesyl diphosphate synthase) (Farnesyltranstransferase) (EC 2.5.1.29) (Geranylgeranyl diphosphate synthase) (Geranyltranstransferase) (EC 2.5.1.10)
[GGPPS9 GGPPS6 At3g14530 MIE1.3] Geranylgeranyl pyrophosphate synthase 9, chloroplastic (GGPP synthase 9) (GGPS9) (EC 2.5.1.-) ((2E,6E)-farnesyl diphosphate synthase 9) (Dimethylallyltranstransferase 9) (EC 2.5.1.1) (Farnesyl diphosphate synthase 9) (Farnesyltranstransferase 9) (EC 2.5.1.29) (Geranyltranstransferase 9) (EC 2.5.1.10)
[GGPPS1 GGPPS11 GGPS1 At4g36810 C7A10.550] Heterodimeric geranylgeranyl pyrophosphate synthase large subunit 1, chloroplastic (GGPP synthase 1) (GGPS1) (EC 2.5.1.-) ((2E,6E)-farnesyl diphosphate synthase 1) (Dimethylallyltranstransferase 1) (EC 2.5.1.1) (Farnesyl diphosphate synthase 1) (Farnesyltranstransferase 1) (EC 2.5.1.29) (Geranyltranstransferase 1) (EC 2.5.1.10)
[GGPP4 At2g18640 F24H14.2] Geranylgeranyl pyrophosphate synthase 4 (GGPP synthase 4) (GGPS4) (EC 2.5.1.-) ((2E,6E)-farnesyl diphosphate synthase 4) (Dimethylallyltranstransferase 4) (EC 2.5.1.1) (Farnesyl diphosphate synthase 4) (Farnesyltranstransferase 4) (EC 2.5.1.29) (Geranyltranstransferase 4) (EC 2.5.1.10)
[GGPS1] Geranylgeranyl pyrophosphate synthase, chloroplastic (GGPP synthase) (GGPS) (EC 2.5.1.-) ((2E,6E)-farnesyl diphosphate synthase) (Dimethylallyltranstransferase) (EC 2.5.1.1) (Farnesyl diphosphate synthase) (Farnesyltranstransferase) (EC 2.5.1.29) (Geranyltranstransferase) (EC 2.5.1.10)
[GGPS GG GGPPS1] Geranylgeranyl pyrophosphate synthase, chloroplastic (GGPP synthase) (GGPS) (EC 2.5.1.-) ((2E,6E)-farnesyl diphosphate synthase) (Dimethylallyltranstransferase) (EC 2.5.1.1) (Farnesyl diphosphate synthase) (Farnesyltranstransferase) (EC 2.5.1.29) (Geranyltranstransferase) (EC 2.5.1.10)
[GGPS1 GGPS] Geranylgeranyl pyrophosphate synthase, chloroplastic/chromoplastic (GGPP synthase) (GGPS) (EC 2.5.1.-) ((2E,6E)-farnesyl diphosphate synthase) (Dimethylallyltranstransferase) (EC 2.5.1.1) (Farnesyl diphosphate synthase) (Farnesyltranstransferase) (EC 2.5.1.29) (Geranyltranstransferase) (EC 2.5.1.10)
[SPS3 GPS1 At2g34630 T31E10.3] Solanesyl diphosphate synthase 3, chloroplastic/mitochondrial (EC 2.5.1.85) (All-trans-nonaprenyl-diphosphate synthase 3 (geranylgeranyl-diphosphate specific)) (Geranyl diphosphate synthase 1) (Trans-type polyprenyl pyrophosphate synthase) (AtPPPS)
[FDPS FPS KIAA1293] Farnesyl pyrophosphate synthase (FPP synthase) (FPS) (EC 2.5.1.10) ((2E,6E)-farnesyl diphosphate synthase) (Dimethylallyltranstransferase) (EC 2.5.1.1) (Farnesyl diphosphate synthase) (Geranyltranstransferase)
[GGS GGPPS] Geranylgeranyl pyrophosphate synthase (GGPP synthase) (GGPPSase) (EC 2.5.1.-) ((2E,6E)-farnesyl diphosphate synthase) (Dimethylallyltranstransferase) (EC 2.5.1.1) (Farnesyl diphosphate synthase) (Farnesyltranstransferase) (EC 2.5.1.29) (Geranylgeranyl diphosphate synthase) (Geranyltranstransferase) (EC 2.5.1.10)
[Ba71V-074 B318L] Trans-prenyltransferase (EC 2.5.1.-) ((2E,6E)-farnesyl diphosphate synthase) (Dimethylallyltranstransferase) (EC 2.5.1.1) (Farnesyl diphosphate synthase) (Farnesyltranstransferase) (EC 2.5.1.29) (Geranyltranstransferase) (EC 2.5.1.10) (Polyprenyl-diphosphate synthase)
[paxG] Geranylgeranyl pyrophosphate synthase paxG (GGPP synthase) (GGPPSase) (EC 2.5.1.-) ((2E,6E)-farnesyl diphosphate synthase) (Dimethylallyltranstransferase) (EC 2.5.1.1) (Farnesyl diphosphate synthase) (Farnesyltranstransferase) (EC 2.5.1.29) (Geranylgeranyl diphosphate synthase) (Geranyltranstransferase) (EC 2.5.1.10) (Paxilline synthesis protein G)

Bibliography :
[28577910] The type II isopentenyl Diphosphate:Dimethylallyl diphosphate isomerase (IDI-2): A model for acid/base chemistry in flavoenzyme catalysis.
[27379573] Construction of Functional Monomeric Type 2 Isopentenyl Diphosphate:Dimethylallyl Diphosphate Isomerase.
[27003727] Kinetic and Binding Studies of Streptococcus pneumoniae Type 2 Isopentenyl Diphosphate:Dimethylallyl Diphosphate Isomerase.
[24910111] Determination of kinetics and the crystal structure of a novel type 2 isopentenyl diphosphate: dimethylallyl diphosphate isomerase from Streptococcus pneumoniae.
[22158896] Covalent modification of reduced flavin mononucleotide in type-2 isopentenyl diphosphate isomerase by active-site-directed inhibitors.
[22047048] Type-2 isopentenyl diphosphate isomerase: evidence for a stepwise mechanism.
[20593767] Linear free energy relationships demonstrate a catalytic role for the flavin mononucleotide coenzyme of the type II isopentenyl diphosphate:dimethylallyl diphosphate isomerase.
[20560533] Type II isopentenyl diphosphate isomerase: probing the mechanism with alkyne/allene diphosphate substrate analogues.
[18345677] Type II isopentenyl diphosphate isomerase: irreversible inactivation by covalent modification of flavin.
[18229948] Evidence for the involvement of acid/base chemistry in the reaction catalyzed by the type II isopentenyl diphosphate/dimethylallyl diphosphate isomerase from Staphylococcus aureus.
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