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Information on EC 2.5.1.85 - all-trans-nonaprenyl diphosphate synthase [geranylgeranyl-diphosphate specific] and Organism(s) Arabidopsis thaliana and UniProt Accession Q8S948

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IUBMB Comments
Geranylgeranyl diphosphate is preferred over farnesyl diphosphate as allylic substrate . The plant Arabidopsis thaliana has two different enzymes that catalyse this reaction. SPS1 contributes to the biosynthesis of the ubiquinone side-chain while SPS2 supplies the precursor of the plastoquinone side-chains .
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This record set is specific for:
Arabidopsis thaliana
UNIPROT: Q8S948
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Word Map
The taxonomic range for the selected organisms is: Arabidopsis thaliana
The expected taxonomic range for this enzyme is: Eukaryota, Bacteria
Synonyms
slsps, atsps2, tcspps, tbspps, at-sps1, at-sps2, atsps1, long-chain prenyl diphosphate synthase, long-chain solanesyl diphosphate synthase, more
SYNONYM
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
solanesyl diphosphate synthase
-
solanesyl-diphosphate synthase
-
solanesyl-diphosphate synthase 1
-
solanesyl diphosphate synthase
-
solanesyl-diphosphate synthase
-
SYSTEMATIC NAME
IUBMB Comments
geranylgeranyl-diphosphate:isopentenyl-diphosphate transtransferase (adding 5 isopentenyl units)
Geranylgeranyl diphosphate is preferred over farnesyl diphosphate as allylic substrate [1]. The plant Arabidopsis thaliana has two different enzymes that catalyse this reaction. SPS1 contributes to the biosynthesis of the ubiquinone side-chain while SPS2 supplies the precursor of the plastoquinone side-chains [2].
CAS REGISTRY NUMBER
COMMENTARY hide
83745-07-7
-
SUBSTRATE
PRODUCT                       
REACTION DIAGRAM
ORGANISM
UNIPROT
COMMENTARY
(Substrate) hide
LITERATURE
(Substrate)
COMMENTARY
(Product) hide
LITERATURE
(Product)
Reversibility
r=reversible
ir=irreversible
?=not specified
(2E,6E)-farnesyl diphosphate + 6 isopentenyl diphosphate
6 diphosphate + all-trans-nonaprenyl diphosphate
show the reaction diagram
geranylgeranyl diphosphate is preferred over farnesyl diphosphate as allylic substrate
the main product is nonaprenyl diphosphate, considerable amounts of geranylgeranyl diphosphate are formed
-
?
dimethylallyl diphosphate + 8 isopentenyl diphosphate
8 diphosphate + all-trans-nonaprenyl diphosphate
show the reaction diagram
-
-
-
?
geranylgeranyl diphosphate + 5 isopentenyl diphosphate
5 diphosphate + all-trans-nonaprenyl diphosphate
show the reaction diagram
(2E,6E)-farnesyl diphosphate + 6 isopentenyl diphosphate
6 diphosphate + all-trans-nonaprenyl diphosphate
show the reaction diagram
At-SPS2 prefers geranylgeranyl diphosphate to farnesyl diphosphate as the allylic substrate
the main product is nonaprenyl diphosphate, considerable amounts of intermediates, such as geranylgeranyl diphosphate are formed
-
?
dimethylallyl diphosphate + 8 isopentenyl diphosphate
8 diphosphate + all-trans-nonaprenyl diphosphate
show the reaction diagram
-
-
-
?
geranylgeranyl diphosphate + 5 isopentenyl diphosphate
5 diphosphate + all-trans-nonaprenyl diphosphate
show the reaction diagram
additional information
?
-
NATURAL SUBSTRATE
NATURAL PRODUCT
REACTION DIAGRAM
ORGANISM
UNIPROT
COMMENTARY
(Substrate) hide
LITERATURE
(Substrate)
COMMENTARY
(Product) hide
LITERATURE
(Product)
REVERSIBILITY
r=reversible
ir=irreversible
?=not specified
dimethylallyl diphosphate + 8 isopentenyl diphosphate
8 diphosphate + all-trans-nonaprenyl diphosphate
show the reaction diagram
-
-
-
?
geranylgeranyl diphosphate + 5 isopentenyl diphosphate
5 diphosphate + all-trans-nonaprenyl diphosphate
show the reaction diagram
dimethylallyl diphosphate + 8 isopentenyl diphosphate
8 diphosphate + all-trans-nonaprenyl diphosphate
show the reaction diagram
-
-
-
?
geranylgeranyl diphosphate + 5 isopentenyl diphosphate
5 diphosphate + all-trans-nonaprenyl diphosphate
show the reaction diagram
INHIBITOR
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
IMAGE
ACTIVATING COMPOUND
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
IMAGE
fibrillin 5B
FBN5-B, fibrillin 5B specifically interacts with solanesyl diphosphate synthase 1, which biosynthesize the solanesyl moiety of plastoquinone-9. Plants containing defective FBN5-B accumulate less plastoquinone-9 and its cyclized product, plastochromanol-8, but the levels of tocopherols are not affected. Homozygous mutations in FBN5 are seedling-lethal. FBN5-B is required for PQ-9 biosynthesis through its interaction with enzyme SPS. FBN5 binding to the hydrophobic solanesyl moiety, which is generated by SPS1, in FBN5 B/SPS homodimeric complexes stimulates the enzyme activity of SPS1
-
fibrillin 5B
FBN5-B, fibrillin 5B specifically interacts with solanesyl diphosphate synthase 2, which biosynthesize the solanesyl moiety of plastoquinone-9. Plants containing defective FBN5-B accumulate less plastoquinone-9 and its cyclized product, plastochromanol-8, but the levels of tocopherols are not affected. Homozygous mutations in FBN5 are seedling-lethal. FBN5-B is required for PQ-9 biosynthesis through its interaction with enzyme SPS. FBN5 binding to the hydrophobic solanesyl moiety, which is generated by SPS2, in FBN5 B/SPS homodimeric complexes stimulates the enzyme activity of SPS2
-
KM VALUE [mM]
SUBSTRATE
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
IMAGE
5.73
(2E,6E)-farnesyl diphosphate
pH 8.0, 30°C
1.61
geranylgeranyl diphosphate
pH 8.0, 30°C
20 - 151
isopentenyl diphosphate
0.00689
(2E,6E)-farnesyl diphosphate
pH 8.0, 30°C, truncated from of At-SPS2 (At-SPS2DELTA, in which the 30 N-terminal residues of the putative signal-peptide are removed and, instead the His6 tag is attached to the N-terminus)
0.00512
farnesyl diphosphate
pH 8.0, 30°C, His6-tagged At-SPS2 fusion protein
0.000565 - 0.000843
geranylgeranyl diphosphate
0.0289 - 0.248
isopentenyl diphosphate
TURNOVER NUMBER [1/s]
SUBSTRATE
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
IMAGE
29.7
farnesyl diphosphate
pH 8.0, 30°C
21
geranylgeranyl diphosphate
pH 8.0, 30°C
14.7 - 15
isopentenyl diphosphate
3.77
(2E,6E)-farnesyl diphosphate
pH 8.0, 30°C, truncated from of At-SPS2 (At-SPS2DELTA, in which the 30 N-terminal residues of the putative signal-peptide are removed and, instead the His6 tag is attached to the N-terminus)
2.33
geranylgeranyl diphosphate
pH 8.0, 30°C, truncated from of At-SPS2 (At-SPS2DELTA, in which the 30 N-terminal residues of the putative signal-peptide are removed and, instead the His6 tag is attached to the N-terminus), truncated from of At-SPS2 (At-SPS2DELTA, in which the 30 N-terminal residues of the putative signal-peptide are removed and, instead the His6 tag is attached to the N-terminus)
1.72 - 2.83
isopentenyl diphosphate
kcat/KM VALUE [1/mMs-1]
SUBSTRATE
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
IMAGE
5.19
(2E,6E)-farnesyl diphosphate
pH 8.0, 30°C
13.1
geranylgeranyl diphosphate
pH 8.0, 30°C
0.0968 - 0.752
isopentenyl diphosphate
547
(2E,6E)-farnesyl diphosphate
pH 8.0, 30°C, truncated from of At-SPS2 (At-SPS2DELTA, in which the 30 N-terminal residues of the putative signal-peptide are removed and, instead the His6 tag is attached to the N-terminus)
2770
geranylgeranyl diphosphate
pH 8.0, 30°C, truncated from of At-SPS2 (At-SPS2DELTA, in which the 30 N-terminal residues of the putative signal-peptide are removed and, instead the His6 tag is attached to the N-terminus), truncated from of At-SPS2 (At-SPS2DELTA, in which the 30 N-terminal residues of the putative signal-peptide are removed and, instead the His6 tag is attached to the N-terminus)
15.5 - 595
isopentenyl diphosphate
pH OPTIMUM
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
ORGANISM
COMMENTARY hide
LITERATURE
UNIPROT
SEQUENCE DB
SOURCE
SOURCE TISSUE
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
SOURCE
mRNA level is 11fold higher in leaf than in root
Manually annotated by BRENDA team
mRNA level is 5fold higher in leaf than in root
Manually annotated by BRENDA team
GENERAL INFORMATION
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
evolution
co-expression network of the Arabidopsis thaliana solanesyl-diphosphate synthase family
malfunction
metabolism
physiological function
evolution
co-expression network of the Arabidopsis thaliana solanesyl-diphosphate synthase family
malfunction
metabolism
physiological function
UNIPROT
ENTRY NAME
ORGANISM
NO. OF AA
NO. OF TRANSM. HELICES
MOLECULAR WEIGHT[Da]
SOURCE
SEQUENCE
LOCALIZATION PREDICTION?
SPS1_ARATH
406
0
44468
Swiss-Prot
Chloroplast (Reliability: 5)
MOLECULAR WEIGHT
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
108000
gel filtration
46600
2 * 46600, His6-tagged protein, calculated from sequence
46044
x * 46044, calculated from sequence
SUBUNIT
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
dimer
2 * 46600, His6-tagged protein, calculated from sequence
?
x * 46044, calculated from sequence
PROTEIN VARIANTS
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
additional information
TEMPERATURE STABILITY
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
40
pH 8.0, 10 minm, stable below
PURIFICATION (Commentary)
ORGANISM
UNIPROT
LITERATURE
recombinant His6-tagged At-SPS2 fusion protein partially purified to about 10% purity, truncated from of At-SPS2 (At-SPS2DELTA, in which the 30 N-terminal residues of the putative signal-peptide are removed and, instead the His6 tag is attached to the N-terminus) is purified to about 90% purity
CLONED (Commentary)
ORGANISM
UNIPROT
LITERATURE
gene AtSPS1, overexpressing of the plastoquinone-9 biosynthesis gene SPS1 in Arabidopsis thaliana generating plants that specifically accumulate plastoquinone-9 and its derivative plastochromanol-8
gene AtSPS1, phylogenetic analysis, recombinant expression of N-terminally GST-tagged enzyme in Nicotiana benthamiana epidermis cell endoplasmic reticulum using Agrobacterium tumefaciens strain C58C1 for transfection
heterologous expression of SPS1 allows the generation of UQ-9 in a decaprenyl diphosphate synthase-defective strain of fission yeast and also in wild-type Escherichia coli
heterologously expressed in Escherichia coli as as His6-tagged fusion protein
expression in Escherichia coli, His6-tagged At-SPS2 fusion protein and the truncated from of At-SPS2 (At-SPS2DELTA, in which the 30 N-terminal residues of the putative signal-peptide are removed and, instead the His6 tag is attached to the N-terminus)
gene AtSPS2, phylogenetic analysis, recombinant expression of N-terminally GST-tagged enzyme in Nicotiana benthamiana leaf chloroplasts using Agrobacterium tumefaciens strain C58C1 for transfection
heterologous expression of either SPS1 allows the generation of UQ-9 in a decaprenyl diphosphate synthase-defective strain of fission yeast and also in wild-type Escherichia coli
REF.
AUTHORS
TITLE
JOURNAL
VOL.
PAGES
YEAR
ORGANISM (UNIPROT)
PUBMED ID
SOURCE
Hirooka, K.; Bamba, T.; Fukusaki, E.I.; Kobayashi, A.
Cloning and kinetic characterization of Arabidopsis thaliana solanesyl diphosphate synthase
Biochem. J.
370
679-686
2003
Arabidopsis thaliana (Q8S948)
Manually annotated by BRENDA team
Hirooka, K.; Izumi, Y.; An, C.I.; Nakazawa, Y.; Fukusaki, E.; Kobayashi, A.
Functional analysis of two solanesyl diphosphate synthases from Arabidopsis thaliana
Biosci. Biotechnol. Biochem.
69
592-601
2005
Arabidopsis thaliana (Q76FS5), Arabidopsis thaliana (Q8S948), Arabidopsis thaliana
Manually annotated by BRENDA team
Jun, L.; Saiki, R.; Tatsumi, K.; Nakagawa, T.; Kawamukai, M.
Identification and subcellular localization of two solanesyl diphosphate synthases from Arabidopsis thaliana
Plant Cell Physiol.
45
1882-1888
2004
Arabidopsis thaliana (Q76FS5), Arabidopsis thaliana (Q8S948)
Manually annotated by BRENDA team
Block, A.; Fristedt, R.; Rogers, S.; Kumar, J.; Barnes, B.; Barnes, J.; Elowsky, C.G.; Wamboldt, Y.; Mackenzie, S.A.; Redding, K.; Merchant, S.S.; Basset, G.J.
Functional modeling identifies paralogous solanesyl-diphosphate synthases that assemble the side chain of plastoquinone-9 in plastids
J. Biol. Chem.
288
27594-27606
2013
Arabidopsis thaliana (Q76FS5), Arabidopsis thaliana (Q8S948)
Manually annotated by BRENDA team
Yan, N.; Liu, Y.; Gong, D.; Du, Y.; Zhang, H.; Zhang, Z.
Solanesol: a review of its resources, derivatives, bioactivities, medicinal applications, and biosynthesis
Phytochem. Rev.
14
403-417
2015
Solanum lycopersicum, Arabidopsis thaliana (Q76FS5), Arabidopsis thaliana (Q8S948)
-
Manually annotated by BRENDA team
Kim, E.H.; Lee, Y.; Kim, H.U.
Fibrillin 5 is essential for plastoquinone-9 biosynthesis by binding to solanesyl diphosphate synthases in Arabidopsis
Plant Cell
27
2956-2971
2015
Arabidopsis thaliana (Q76FS5), Arabidopsis thaliana (Q8S948), Arabidopsis thaliana Col-0 (Q76FS5), Arabidopsis thaliana Col-0 (Q8S948)
Manually annotated by BRENDA team
Ksas, B.; Becuwe, N.; Chevalier, A.; Havaux, M.
Plant tolerance to excess light energy and photooxidative damage relies on plastoquinone biosynthesis
Sci. Rep.
5
10919
2015
Arabidopsis thaliana (Q8S948), Arabidopsis thaliana Col-0 (Q8S948)
Manually annotated by BRENDA team
Kim, E.H.; Lee, D.W.; Lee, K.R.; Jung, S.J.; Jeon, J.S.; Kim, H.U.
Conserved function of fibrillin5 in the plastoquinone-9 biosynthetic pathway in Arabidopsis and rice
Front. Plant Sci.
8
1197
2017
Arabidopsis thaliana (Q76FS5), Arabidopsis thaliana (Q8S948)
Manually annotated by BRENDA team
Kahlau, S.; Schroeder, F.; Freigang, J.; Laber, B.; Lange, G.; Passon, D.; Kleessen, S.; Lohse, M.; Schulz, A.; von Koskull-Doering, P.; Klie, S.; Gille, S.
Aclonifen targets solanesyl diphosphate synthase, representing a novel mode of action for herbicides
Pest Manag. Sci.
76
3377-3388
2020
Arabidopsis thaliana (Q76FS5), Arabidopsis thaliana (Q8S948)
Manually annotated by BRENDA team