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evolution
Bacillus methanolicus wild-type strain MGA3 possesses two putative rpe genes encoded on plasmid pBM19 (rpe1-MGA3) and on the chromosome (rpe2-MGA3). The Rpe2-MGA3 enzyme shows a 2fold lower Vmax and a significantly reduced thermostability compared to the Rpe1 protein
evolution
Bacillus methanolicus wild-type strain PB1 possesses one putative rpe gene encoded on plasmid pBM20 (rpe1-PB1)
evolution
-
Bacillus methanolicus wild-type strain MGA3 possesses two putative rpe genes encoded on plasmid pBM19 (rpe1-MGA3) and on the chromosome (rpe2-MGA3). The Rpe2-MGA3 enzyme shows a 2fold lower Vmax and a significantly reduced thermostability compared to the Rpe1 protein
-
evolution
-
Bacillus methanolicus wild-type strain PB1 possesses one putative rpe gene encoded on plasmid pBM20 (rpe1-PB1)
-
evolution
-
Bacillus methanolicus wild-type strain PB1 possesses one putative rpe gene encoded on plasmid pBM20 (rpe1-PB1)
-
malfunction
deletion of D-ribulose-5-phosphate 3-epimerase (RPE1) induces simultaneous utilization of xylose and glucose in xylose-utilizing Saccharomyces cerevisiae
malfunction
-
deletion of D-ribulose-5-phosphate 3-epimerase (RPE1) induces simultaneous utilization of xylose and glucose in xylose-utilizing Saccharomyces cerevisiae
-
metabolism
-
the growth condition-dependent enzyme is present in the proteomes of wild-type and zwf strains and is downregulated under mixotrophic growth conditions. Twice the amount of xylulose-5-phosphate is synthesized during the Calvin cycle relative to ribose-5-phosphate in mixotrophical growth, and less epimerase is required for maximal conversion of xylulose-5-phosphate to ribulose-5-phosphate, especially during mixotrophic conditions when exogenously added glucose can contribute additional carbon skeletons to the Calvin cycle intermediates
metabolism
D-ribulose-5-P 3-epimerase catalyzes the second step of D-ribitol catabolism. The enzyme is probably involved in an alternative ribitol degradation pathway, which might be functional in Lactobacillus casei strain 64H but not in strain BL23, because one of the BL23 genes carries a frameshift mutation
metabolism
D-ribulose-5-phosphate-3-epimerase (RPE) is involved in the ribulose monophosphate (RuMP) cycle in Bacillus methanolicus. Strains MGA3 and PB1 exert alternative solutions to plasmid-dependent methylotrophy, including genetic organization, regulation, and biochemistry of RuMP cycle enzymes, overview
metabolism
-
D-ribulose-5-phosphate-3-epimerase (RPE) is involved in the ribulose monophosphate (RuMP) cycle in Bacillus methanolicus. Strains MGA3 and PB1 exert alternative solutions to plasmid-dependent methylotrophy, including genetic organization, regulation, and biochemistry of RuMP cycle enzymes, overview
-
metabolism
-
D-ribulose-5-phosphate-3-epimerase (RPE) is involved in the ribulose monophosphate (RuMP) cycle in Bacillus methanolicus. Strains MGA3 and PB1 exert alternative solutions to plasmid-dependent methylotrophy, including genetic organization, regulation, and biochemistry of RuMP cycle enzymes, overview
-
metabolism
-
D-ribulose-5-phosphate-3-epimerase (RPE) is involved in the ribulose monophosphate (RuMP) cycle in Bacillus methanolicus. Strains MGA3 and PB1 exert alternative solutions to plasmid-dependent methylotrophy, including genetic organization, regulation, and biochemistry of RuMP cycle enzymes, overview
-
metabolism
-
D-ribulose-5-P 3-epimerase catalyzes the second step of D-ribitol catabolism. The enzyme is probably involved in an alternative ribitol degradation pathway, which might be functional in Lactobacillus casei strain 64H but not in strain BL23, because one of the BL23 genes carries a frameshift mutation
-
physiological function
Bacillus methanolicus uses the ribulose monophosphate (RuMP) cycle for methanol assimilation involving the enzyme D-ribulose-5-phosphate-3-epimerase (RPE). RPE catalyses the interconversion between D-xylulose-5-phosphate and D-ribulose-5-phosphate, which is the pentose precursor for nucleotide synthesis. In addition to the RuMP cycle, it is involved in the pentose phosphate pathway (PPP). It is presumably not essential for the metabolism of glucose or mannitol
physiological function
-
Bacillus methanolicus uses the ribulose monophosphate (RuMP) cycle for methanol assimilation involving the enzyme D-ribulose-5-phosphate-3-epimerase (RPE). RPE catalyses the interconversion between D-xylulose-5-phosphate and D-ribulose-5-phosphate, which is the pentose precursor for nucleotide synthesis. In addition to the RuMP cycle, it is involved in the pentose phosphate pathway (PPP). It is presumably not essential for the metabolism of glucose or mannitol
-
physiological function
-
Bacillus methanolicus uses the ribulose monophosphate (RuMP) cycle for methanol assimilation involving the enzyme D-ribulose-5-phosphate-3-epimerase (RPE). RPE catalyses the interconversion between D-xylulose-5-phosphate and D-ribulose-5-phosphate, which is the pentose precursor for nucleotide synthesis. In addition to the RuMP cycle, it is involved in the pentose phosphate pathway (PPP). It is presumably not essential for the metabolism of glucose or mannitol
-
physiological function
-
Bacillus methanolicus uses the ribulose monophosphate (RuMP) cycle for methanol assimilation involving the enzyme D-ribulose-5-phosphate-3-epimerase (RPE). RPE catalyses the interconversion between D-xylulose-5-phosphate and D-ribulose-5-phosphate, which is the pentose precursor for nucleotide synthesis. In addition to the RuMP cycle, it is involved in the pentose phosphate pathway (PPP). It is presumably not essential for the metabolism of glucose or mannitol
-
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D37A
the mutation almost abolishes the enzymatic activity
H35A
the mutation almost abolishes the enzymatic activity
H70A
completely insoluble
L12A
the mutation results in more than 50% decrease in the activity
M141A
the mutation results in about 30% decrease in the activity
M39A
the mutation results in about 10% decrease in the activity
M72A
the mutation results in an almost 50% decrease in the activity
S10A
the mutation almost abolishes the enzymatic activity
D186A
KM-value for D-ribulose 5-phosphate is increased 10fold, turnover-number is decreased to less than 0.1% of the wild-type value
D186E
KM-value for D-ribulose 5-phosphate is unaltered, turnover-number is decreased to less than 0.1% of the wild-type value
D186N
KM-value for D-ribulose 5-phosphate is unaltered, turnover-number is decreased to less than 0.1% of the wild-type value
D176A
no detectable activity, substrate= 10 mM D-ribulose 5-phosphate
D36A
no detectable activity, substrate= 10 mM D-ribulose 5-phosphate
H34A
mutant discloses decreased affinity for Zn2+, kcat = 200/sec, substrate = 10 mM D-ribulose 5-phosphate, +10 micromol/l ZnCl2
H67A
mutant discloses decreased affinity for Zn2+, kcat = 270/sec, substrate = 10 mM D-ribulose 5-phosphate, +10 micromol/l ZnCl2
additional information
deletion of D-ribulose-5-phosphate 3-epimerase (RPE1) inducing simultaneous utilization of xylose and glucose in xylose-utilizing Saccharomyces cerevisiae, construction of RPE1 deletion strain, SyBE_Sc17004 (RPE1::TRP1), by one-step gene disruption strategy. To create a xylose-utilizing yeast, XYL1 and XYL2 genes from Scheffersomyces stipitis and XKS1 from Saccharomyces cerevisiae strain L2612 are assembled and inserted into the genome of strain L2612 at the Delta-locus, resulting in strain SyBE_Sc17002. Strain SyBE_Sc17004 is created by deleting RPE1 in SyBE_Sc17002. Triggering xylose consumption by the deletion of RPE1 at the beginning of mixed sugar fermentation
additional information
-
deletion of D-ribulose-5-phosphate 3-epimerase (RPE1) inducing simultaneous utilization of xylose and glucose in xylose-utilizing Saccharomyces cerevisiae, construction of RPE1 deletion strain, SyBE_Sc17004 (RPE1::TRP1), by one-step gene disruption strategy. To create a xylose-utilizing yeast, XYL1 and XYL2 genes from Scheffersomyces stipitis and XKS1 from Saccharomyces cerevisiae strain L2612 are assembled and inserted into the genome of strain L2612 at the Delta-locus, resulting in strain SyBE_Sc17002. Strain SyBE_Sc17004 is created by deleting RPE1 in SyBE_Sc17002. Triggering xylose consumption by the deletion of RPE1 at the beginning of mixed sugar fermentation
additional information
-
deletion of D-ribulose-5-phosphate 3-epimerase (RPE1) inducing simultaneous utilization of xylose and glucose in xylose-utilizing Saccharomyces cerevisiae, construction of RPE1 deletion strain, SyBE_Sc17004 (RPE1::TRP1), by one-step gene disruption strategy. To create a xylose-utilizing yeast, XYL1 and XYL2 genes from Scheffersomyces stipitis and XKS1 from Saccharomyces cerevisiae strain L2612 are assembled and inserted into the genome of strain L2612 at the Delta-locus, resulting in strain SyBE_Sc17002. Strain SyBE_Sc17004 is created by deleting RPE1 in SyBE_Sc17002. Triggering xylose consumption by the deletion of RPE1 at the beginning of mixed sugar fermentation
-
additional information
H34A, D36A, H67A, and D176A mutants are constructed since these His and Asp residues are strictly conserved in all RPEs and are observed to coordinate Zn2+ in the reported structures of the RPE from rice
additional information
-
H34A, D36A, H67A, and D176A mutants are constructed since these His and Asp residues are strictly conserved in all RPEs and are observed to coordinate Zn2+ in the reported structures of the RPE from rice
additional information
increased limonene production by genetic modifications: Two genes in the pentose phosphate pathway, rpi and rpe, are overexpressed in Synechocystis sp. PCC 6803 to divert carbon flux toward limonene production. The Abies grandis geranyl diphosphate synthase GPPS 2, that specifically produce geranyl diphosphate, is expressed to ensure sufficient geranyl diphosphate for limonene production. Codon-optimized limonene synthases from Mentha spicata and Citrus limon are heterologously expressed in Synechocystis sp. PCC 6803 to produce S-limonene and R-limonene, respectively, method overview and computational modeling
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-
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