UniProtKB - Q39FB9 (ISPF_BURL3)
Protein
2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase
Gene
ispF
Organism
Burkholderia lata (strain ATCC 17760 / DSM 23089 / LMG 22485 / NCIMB 9086 / R18194 / 383)
Status
Functioni
Involved in the biosynthesis of isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP), two major building blocks of isoprenoid compounds. Catalyzes the conversion of 4-diphosphocytidyl-2-C-methyl-D-erythritol 2-phosphate (CDP-ME2P) to 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (ME-CPP) with a corresponding release of cytidine 5-monophosphate (CMP).UniRule annotation
Catalytic activityi
- 4-CDP-2-C-methyl-D-erythritol 2-phosphate = 2-C-methyl-D-erythritol 2,4-cyclic diphosphate + CMPUniRule annotationEC:4.6.1.12UniRule annotation
Cofactori
a divalent metal cationUniRule annotationNote: Binds 1 divalent metal cation per subunit.UniRule annotation
: isopentenyl diphosphate biosynthesis via DXP pathway Pathwayi
This protein is involved in step 4 of the subpathway that synthesizes isopentenyl diphosphate from 1-deoxy-D-xylulose 5-phosphate.UniRule annotationProteins known to be involved in the 6 steps of the subpathway in this organism are:
- 1-deoxy-D-xylulose 5-phosphate reductoisomerase (dxr), 1-deoxy-D-xylulose 5-phosphate reductoisomerase (dxr), 1-deoxy-D-xylulose 5-phosphate reductoisomerase (dxr), 1-deoxy-D-xylulose 5-phosphate reductoisomerase (dxr), 1-deoxy-D-xylulose 5-phosphate reductoisomerase (dxr), 1-deoxy-D-xylulose 5-phosphate reductoisomerase (dxr), 1-deoxy-D-xylulose 5-phosphate reductoisomerase (dxr), 1-deoxy-D-xylulose 5-phosphate reductoisomerase (dxr), 1-deoxy-D-xylulose 5-phosphate reductoisomerase (dxr), 1-deoxy-D-xylulose 5-phosphate reductoisomerase (dxr), 1-deoxy-D-xylulose 5-phosphate reductoisomerase (dxr), 1-deoxy-D-xylulose 5-phosphate reductoisomerase (dxr), 1-deoxy-D-xylulose 5-phosphate reductoisomerase (dxr), 1-deoxy-D-xylulose 5-phosphate reductoisomerase (dxr)
- 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase (ispD), 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase (ispD), 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase (ispD), 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase (ispD), 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase (ispD), 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase (ispD), 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase (ispD), 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase (ispD)
- 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase (ispE), 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase (ispE), 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase (ispE), 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase (ispE), 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase (ispE), 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase (ispE), 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase (ispE), 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase (ispE), 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase (ispE), 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase (ispE), 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase (ispE), 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase (ispE), 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase (ispE), 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase (ispE)
- 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase (ispF), 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase (ispF), 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase (ispF), 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase (ispF), 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase (ispF), 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase (ispF), 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase (ispF), 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase (ispF), 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase (ispF), 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase (ispF), 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase (ispF)
- 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase (flavodoxin) (ispG), 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase (flavodoxin) (ispG), 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase (flavodoxin) (ispG), 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase (flavodoxin) (ispG), 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase (flavodoxin) (ispG), 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase (flavodoxin) (ispG)
- 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (ispH), 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (ispH), 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (ispH), 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (ispH), 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (ispH), 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (ispH)
View all proteins of this organism that are known to be involved in the subpathway that synthesizes isopentenyl diphosphate from 1-deoxy-D-xylulose 5-phosphate, the pathway isopentenyl diphosphate biosynthesis via DXP pathway and in Isoprenoid biosynthesis.
Sites
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Metal bindingi | 10 | Divalent metal cationUniRule annotation | 1 | |
Metal bindingi | 12 | Divalent metal cationUniRule annotation | 1 | |
Sitei | 36 | Transition state stabilizerUniRule annotation | 1 | |
Metal bindingi | 44 | Divalent metal cationUniRule annotation | 1 | |
Binding sitei | 67 | Substrate; via carbonyl oxygenUniRule annotation | 1 | |
Sitei | 135 | Transition state stabilizerUniRule annotation | 1 | |
Binding sitei | 144 | SubstrateUniRule annotation | 1 |
GO - Molecular functioni
- 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity Source: UniProtKB-UniRule
- metal ion binding Source: UniProtKB-KW
GO - Biological processi
- isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway Source: UniProtKB-UniPathway
- terpenoid biosynthetic process Source: UniProtKB-UniRule
Keywordsi
Molecular function | Lyase |
Biological process | Isoprene biosynthesis |
Ligand | Metal-binding |
Enzyme and pathway databases
UniPathwayi | UPA00056;UER00095 |
Names & Taxonomyi
Protein namesi | Recommended name: 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthaseUniRule annotation (EC:4.6.1.12UniRule annotation)Short name: MECDP-synthaseUniRule annotation Short name: MECPP-synthaseUniRule annotation Short name: MECPSUniRule annotation |
Gene namesi | Name:ispFUniRule annotation Ordered Locus Names:Bcep18194_A5253 |
Organismi | Burkholderia lata (strain ATCC 17760 / DSM 23089 / LMG 22485 / NCIMB 9086 / R18194 / 383) |
Taxonomic identifieri | 482957 [NCBI] |
Taxonomic lineagei | Bacteria › Proteobacteria › Betaproteobacteria › Burkholderiales › Burkholderiaceae › Burkholderia › Burkholderia cepacia complex |
Proteomesi |
|
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000237711 | 1 – 161 | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthaseAdd BLAST | 161 |
Interactioni
Subunit structurei
Homotrimer.
UniRule annotationFamily & Domainsi
Region
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Regioni | 10 – 12 | Substrate bindingUniRule annotation | 3 | |
Regioni | 36 – 37 | Substrate bindingUniRule annotation | 2 | |
Regioni | 40 – 48 | Substrate bindingUniRule annotation | 9 | |
Regioni | 58 – 60 | Substrate bindingUniRule annotation | 3 | |
Regioni | 63 – 67 | Substrate bindingUniRule annotation | 5 |
Sequence similaritiesi
Belongs to the IspF family.UniRule annotation
Phylogenomic databases
HOGENOMi | CLU_084630_2_0_4 |
OMAi | PEWSGAS |
OrthoDBi | 1716560at2 |
Family and domain databases
CDDi | cd00554, MECDP_synthase, 1 hit |
Gene3Di | 3.30.1330.50, 1 hit |
HAMAPi | MF_00107, IspF, 1 hit |
InterProi | View protein in InterPro IPR003526, MECDP_synthase IPR020555, MECDP_synthase_CS IPR036571, MECDP_synthase_sf |
Pfami | View protein in Pfam PF02542, YgbB, 1 hit |
SUPFAMi | SSF69765, SSF69765, 1 hit |
TIGRFAMsi | TIGR00151, ispF, 1 hit |
PROSITEi | View protein in PROSITE PS01350, ISPF, 1 hit |
i Sequence
Sequence statusi: Complete.
Q39FB9-1 [UniParc]FASTAAdd to basket
10 20 30 40 50
MDFRIGQGYD VHQLVEGRPL IIGGVTIPYE RGLLGHSDAD VLLHAITDAL
60 70 80 90 100
FGAAALGDIG RHFSDTDAAF KGADSRVLLR ECVARINAAG FTIQNVDSTV
110 120 130 140 150
IAQAPKLAPH IDGMRANIAA DLGLPLDRVN VKAKTNEKLG YLGRGEGIEA
160
QAAALLVKQG G
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | CP000151 Genomic DNA Translation: ABB08847.1 |
RefSeqi | WP_011352389.1, NZ_CADFCT010000008.1 |
Genome annotation databases
EnsemblBacteriai | ABB08847; ABB08847; Bcep18194_A5253 |
GeneIDi | 45095130 |
KEGGi | bur:Bcep18194_A5253 |
PATRICi | fig|482957.22.peg.2199 |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | CP000151 Genomic DNA Translation: ABB08847.1 |
RefSeqi | WP_011352389.1, NZ_CADFCT010000008.1 |
3D structure databases
SMRi | Q39FB9 |
ModBasei | Search... |
Genome annotation databases
EnsemblBacteriai | ABB08847; ABB08847; Bcep18194_A5253 |
GeneIDi | 45095130 |
KEGGi | bur:Bcep18194_A5253 |
PATRICi | fig|482957.22.peg.2199 |
Phylogenomic databases
HOGENOMi | CLU_084630_2_0_4 |
OMAi | PEWSGAS |
OrthoDBi | 1716560at2 |
Enzyme and pathway databases
UniPathwayi | UPA00056;UER00095 |
Family and domain databases
CDDi | cd00554, MECDP_synthase, 1 hit |
Gene3Di | 3.30.1330.50, 1 hit |
HAMAPi | MF_00107, IspF, 1 hit |
InterProi | View protein in InterPro IPR003526, MECDP_synthase IPR020555, MECDP_synthase_CS IPR036571, MECDP_synthase_sf |
Pfami | View protein in Pfam PF02542, YgbB, 1 hit |
SUPFAMi | SSF69765, SSF69765, 1 hit |
TIGRFAMsi | TIGR00151, ispF, 1 hit |
PROSITEi | View protein in PROSITE PS01350, ISPF, 1 hit |
ProtoNeti | Search... |
MobiDBi | Search... |
Entry informationi
Entry namei | ISPF_BURL3 | |
Accessioni | Q39FB9Primary (citable) accession number: Q39FB9 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | May 30, 2006 |
Last sequence update: | November 22, 2005 | |
Last modified: | February 10, 2021 | |
This is version 86 of the entry and version 1 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Prokaryotic Protein Annotation Program |
Miscellaneousi
Documents
- PATHWAY comments
Index of metabolic and biosynthesis pathways - SIMILARITY comments
Index of protein domains and families