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Literature summary for 1.3.5.5 extracted from

  • Koschmieder, J.; Fehling-Kaschek, M.; Schaub, P.; Ghisla, S.; Brausemann, A.; Timmer, J.; Beyer, P.
    Plant-type phytoene desaturase functional evaluation of structural implications (2017), PLoS ONE, 12, e0187628 .
    View publication on PubMedView publication on EuropePMC
Search for more literature for 1.3.5.5

Application

Application Comment Organism
agriculture phytoene desaturase is a prominent target of certain inhibitors, such as norflurazon, acting as bleaching herbicides Oryza sativa Indica Group

Cloned(Commentary)

Cloned (Comment) Organism
gene OsI_010044 or PDS1, recombinant expression of wild-type and mutant His6-tagged enzymes OsPDS in Escherichia coli Oryza sativa Indica Group

Protein Variants

Protein Variants Comment Organism
F162V -directed mutagenesis, the mutant shows below 5% activity compared to wild-type enzyme Oryza sativa Indica Group
L538F -directed mutagenesis, the mutant shows below 5% activity compared to wild-type enzyme Oryza sativa Indica Group
L538R -directed mutagenesis, the mutant shows below 5% activity compared to wild-type enzyme Oryza sativa Indica Group
R300S -directed mutagenesis, the mutant shows below 5% activity compared to wild-type enzyme Oryza sativa Indica Group
R300T site-directed mutagenesis, the mutant shows below 5% activity compared to wild-type enzyme Oryza sativa Indica Group
T508V -directed mutagenesis, the mutant shows below 5% activity compared to wild-type enzyme Oryza sativa Indica Group
Y506F -directed mutagenesis, the mutant shows below 5% activity compared to wild-type enzyme Oryza sativa Indica Group

Inhibitors

Inhibitors Comment Organism Structure
norflurazon NFZ, competitive inhibition, inhibition kinetics with enzyme mutant R300S Oryza sativa Indica Group

KM Value [mM]

KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
additional information
-
 additional information Michaelis-Menten kinetics Oryza sativa Indica Group

Natural Substrates/ Products (Substrates)

Natural Substrates Organism Comment (Nat. Sub.) Natural Products Comment (Nat. Pro.) Rev. Reac.
15,9'-dicis-phytofluene + plastoquinone Oryza sativa Indica Group
-
 9,15,9'-tricis-zeta-carotene + plastoquinol
-
 ?
15-cis-phytoene + plastoquinone Oryza sativa Indica Group
-
 15,9'-dicis-phytofluene + plastoquinol
-
 ?

Organism

Organism UniProt Comment Textmining
Oryza sativa Indica Group A2XDA1
-
-

Purification (Commentary)

Purification (Comment) Organism
recombinant wild-type and mutant His6-tagged enzymes OsPDS from Escherichia coli by nickel affinity chromatography Oryza sativa Indica Group

Reaction

Reaction Comment Organism Reaction ID
15-cis-phytoene + 2 plastoquinone = 9,15,9'-tricis-zeta-carotene + 2 plastoquinol overall reaction, ordered ping-pong bi-bi mechanism, both lipophilic substrates are bound inside the same substrate cavity that cannot be occupied by both simultaneously. The central 15-cis configuration of phytoene mediates the regiospecificity in catalysis Oryza sativa Indica Group
a

Substrates and Products (Substrate)

Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
15,9'-dicis-phytofluene + plastoquinone
-
 Oryza sativa Indica Group 9,15,9'-tricis-zeta-carotene + plastoquinol
-
 ?
15-cis-phytoene + plastoquinone
-
 Oryza sativa Indica Group 15,9'-dicis-phytofluene + plastoquinol
-
 ?
15-cis-phytoene + plastoquinone decyl-plastoquinone is used for enzyme assays Oryza sativa Indica Group 15,9'-dicis-phytofluene + plastoquinol
-
 ?
additional information PDS requires plastoquinone as a directly interacting co-substrate to reoxidize the enzyme-bound FADred formed upon desaturation. The enzyme structure has led to the conclusion that both lipophilic substrates are bound inside the same substrate cavity that cannot be occupied by both simultaneously. The central 15-cis configuration of phytoene mediates the regiospecificity in catalysis, overview. LC-MS analysis of PDS desaturation products produced from asymmetric (C35) 15-cis-norphytoene Oryza sativa Indica Group ?
-
-

Synonyms

Synonyms Comment Organism
OsPDS
-
 Oryza sativa Indica Group
PDS
-
 Oryza sativa Indica Group
PDS1
-
 Oryza sativa Indica Group
phytoene desaturase
-
 Oryza sativa Indica Group
plant-type phytoene desaturase
-
 Oryza sativa Indica Group

Temperature Optimum [°C]

Temperature Optimum [°C] Temperature Optimum Maximum [°C] Comment Organism
35
-
-
 Oryza sativa Indica Group

pH Optimum

pH Optimum Minimum pH Optimum Maximum Comment Organism
6.5
-
-
 Oryza sativa Indica Group

Cofactor

Cofactor Comment Organism Structure
FAD PDS requires plastoquinone as a directly interacting co-substrate to reoxidize the enzyme-bound FADred formed upon desaturation Oryza sativa Indica Group

General Information

General Information Comment Organism
additional information using the crystal structure of Oryza sativa PDS in complex with norflurazon, the relevance of homotetrameric assembly of the enzyme observed in crystallo is determined by dynamic mathematical modeling of reaction time courses, substrate channeling occurs of the intermediate phytofluene between individual subunits at membrane surfaces Oryza sativa Indica Group
physiological function phytoene desaturase (PDS) is an essential plant carotenoid biosynthetic enzyme. PDS catalyzes the introduction of two double bonds into 15-cis-phytoene, yielding 9,15,9'-tri-cis-zeta-carotene via the intermediate 9,15-di-cis-phytofluene Oryza sativa Indica Group