- A raison d'être for two distinct pathways in the early steps of plant isoprenoid biosynthesis?
Institut de Biologie Moléculaire des Plantes du Centre National de la Recherche Scientifique, IBMP CNRS UPR2357, Universite de Strasbourg, 28 rue Goethe, F 67083 Strasbourg cedex, France
Prog Lipid Res 51:95-148. 2012
..This latter aspect still requires more work and present conclusions are preliminary, although some general features seem to exist...
- Inhibitors of the nonmevalonate pathway of isoprenoid biosynthesis as antimalarial drugs
Institute of Biochemistry, Academic Hospital Centre, Justus Liebig University, Friedrichstrasse 24, D 35392 Giessen, Germany
Science 285:1573-6. 1999
..Both drugs suppressed the in vitro growth of multidrug-resistant P. falciparum strains. After therapy with these drugs, mice infected with the rodent malaria parasite P. vinckei were cured...
- Identification of a thiamin-dependent synthase in Escherichia coli required for the formation of the 1-deoxy-D-xylulose 5-phosphate precursor to isoprenoids, thiamin, and pyridoxol
G A Sprenger
Institut für Biotechnologie 1 des Forschungszentrums Jülich, Germany
Proc Natl Acad Sci U S A 94:12857-62. 1997
- Cloning and characterization of a gene from Escherichia coli encoding a transketolase-like enzyme that catalyzes the synthesis of D-1-deoxyxylulose 5-phosphate, a common precursor for isoprenoid, thiamin, and pyridoxol biosynthesis
L M Lois
Departament de Bioquimica i Biologia Molecular, Facultat de Quimica, Universitat de Barcelona, Marti i Franques 1, 08028 Barcelona, Spain
Proc Natl Acad Sci U S A 95:2105-10. 1998
..D-1-Deoxyxylulose-5-phosphate synthase belongs to a family of transketolase-like proteins that are highly conserved in evolution...
- A 1-deoxy-D-xylulose 5-phosphate reductoisomerase catalyzing the formation of 2-C-methyl-D-erythritol 4-phosphate in an alternative nonmevalonate pathway for terpenoid biosynthesis
Institute of Molecular and Cellular Biosciences, University of Tokyo, Bunkyo ku, Tokyo 113 0032, Japan
Proc Natl Acad Sci U S A 95:9879-84. 1998
- A mutant pyruvate dehydrogenase E1 subunit allows survival of Escherichia coli strains defective in 1-deoxy-D-xylulose 5-phosphate synthase
Departament de Bioquimica i Biologia Molecular, Facultat de Biologia, Universitat de Barcelona Av Diagonal 645, 08028 Barcelona, Spain
FEBS Lett 580:736-40. 2006
- A new family of enzymes catalyzing the first committed step of the methylerythritol 4-phosphate (MEP) pathway for isoprenoid biosynthesis in bacteria
Felix J Sangari
Departamento de Biologia Molecular, Universidad de Cantabria and Instituto de Biomedicina y Biotecnología de Cantabria IBBTEC, CSIC UC IDICAN, 39011 Santander, Spain
Proc Natl Acad Sci U S A 107:14081-6. 2010
- 1-Deoxy-D-xylulose 5-phosphate reductoisomerase (IspC) from Mycobacterium tuberculosis: towards understanding mycobacterial resistance to fosmidomycin
Rakesh K Dhiman
Department of Microbiology, Immunology and Pathology, Colorado State University, Fort Collins, CO 80523, USA
J Bacteriol 187:8395-402. 2005
..Thus, M. tuberculosis resistance to fosmidomycin is not due to intrinsic properties of Rv2870c, and the enzyme appears to be a valid drug target in this pathogen...
- Structural basis of fosmidomycin action revealed by the complex with 2-C-methyl-D-erythritol 4-phosphate synthase (IspC). Implications for the catalytic mechanism and anti-malaria drug development
Max Planck Institut fur Biochemie, Abteilung für Strukturforschung, Am Klopferspitz 18a, D 82152 Martinsried, Germany
J Biol Chem 278:18401-7. 2003
..Both sites are connected by a spacer of three methylene groups. The substrate molecule, 1-d-deoxyxylulose 5-phosphate, can be superimposed onto fosmidomycin, explaining the stereochemical course of the reaction...
- Chlorophyta exclusively use the 1-deoxyxylulose 5-phosphate/2-C-methylerythritol 4-phosphate pathway for the biosynthesis of isoprenoids
Botanisches Institut, Lehrstuhl II, , Germany
Planta 212:416-23. 2001
- Isoprenoid biosynthesis in Synechocystis sp. strain PCC6803 is stimulated by compounds of the pentose phosphate cycle but not by pyruvate or deoxyxylulose-5-phosphate
Yuri V Ershov
Department of Cell Biology and Molecular Genetics, University of Maryland, College Park, Maryland 20742, USA
J Bacteriol 184:5045-51. 2002
..strain PCC6803. Our data support alternative routes of entry of pentose phosphate cycle substrates derived from photosynthesis...
- Catalytic by-product formation and ligand binding by ribulose bisphosphate carboxylases from different phylogenies
F Grant Pearce
School of Biological Sciences, University of Canterbury, Private Bag 4800, Christchurch 8020, New Zealand
Biochem J 399:525-34. 2006
..Our observations also illustrate the phylogenetic diversity of mechanisms for regulating Rubisco and raise questions about whether an activase-like mechanism should be expected outside the green-algal/higher-plant lineage...
- The metabolic significance of octulose phosphates in the photosynthetic carbon reduction cycle in spinach
John F Williams
Research School of Chemistry, Australian National University, Canberra, A C T, 0200, Australia
Photosynth Res 90:125-48. 2006
- Possible direct involvement of the active-site [4Fe-4S] cluster of the GcpE enzyme from Thermus thermophilus in the conversion of MEcPP
Department of Chemistry and Biochemistry, Auburn University, 179 Chemistry Building, Auburn, AL 36849, USA
FEBS Lett 581:279-83. 2007
..Similarity of this EPR signal to that detected in ferredoxin:thioredoxin reductase indicates that during the reaction an intermediate is directly bound to the active-site cluster...
- Two methods for determination of transketolase activity
I A Sevostyanova
Belozersky Institute of Physico Chemical Biology, Lomonosov Moscow State University, Moscow, Russia
Biochemistry (Mosc) 71:560-2. 2006
..It is not needed in the second method. The range of transketolase concentration in the activity assay is 0.036-0.144 U/ml for the first method and 1.8-6.8 U/ml for the second one...
- Profiling of pentose phosphate pathway intermediates in blood spots by tandem mass spectrometry: application to transaldolase deficiency
Jojanneke H J Huck
Department of Pediatrics, VU University Medical Centre, De Boelelaan 1117, 1081 HV Amsterdam, The Netherlands
Clin Chem 49:1375-80. 2003
..We hypothesized that they are derived from sugar phosphate intermediates of the pentose phosphate pathway (PPP), and we developed a semiquantitative method for profiling of pentose phosphate pathway intermediates...
- Binding of 5-phospho-D-arabinonohydroxamate and 5-phospho-D-arabinonate inhibitors to zinc phosphomannose isomerase from Candida albicans studied by polarizable molecular mechanics and quantum mechanics
Laboratoire de Chimie Bioorganique et Bioinorganique, CNRS UMR 8182, Institut de Chimie Moleculaire et des Materiaux d Orsay, Batiment 420, Universite Paris Sud XI, 15 rue Georges Clemenceau, 91405 Orsay, France
J Comput Chem 28:938-57. 2007
- Structures of Aquifex aeolicus KDO8P synthase in complex with R5P and PEP, and with a bisubstrate inhibitor: role of active site water in catalysis
Department of Biochemistry and Molecular Biology, Wayne State University School of Medicine, Detroit, Michigan 48201, USA
Biochemistry 40:15676-83. 2001
..Overall, the process can be described as a syn addition of water and A5P to the si side of PEP...
- E. coli MEP synthase: steady-state kinetic analysis and substrate binding
Andrew T Koppisch
Department of Chemistry, University of Utah, Salt Lake City, Utah 84112, USA
Biochemistry 41:236-43. 2002
..Fosmidomycin was an uncompetitive inhibitor against NADPH and gave a pattern representative of slow, tight-binding competitive inhibition against DXP. These results are consistent with an ordered mechanism where NADPH binds before DXP...
- Early steps of deoxyxylulose phosphate pathway in chromoplasts of higher plants
Biozentrum der Universität Halle, Weinbergweg 22, D 06120 Halle, Germany
Phytochemistry 64:199-207. 2003
- A novel NADH-linked l-xylulose reductase in the l-arabinose catabolic pathway of yeast
VTT Biotechnology, P O Box 1500, FIN 02044 VTT, Finland
J Biol Chem 279:14746-51. 2004
..It also has no activity with C-6 sugars or sugar alcohols. The K(m) values for l-xylulose and d-ribulose are 9.6 and 4.7 mm, respectively. To our knowledge this is the first report of an NADH-linked l-xylulose reductase...
- The methylerythritol phosphate pathway is functionally active in all intraerythrocytic stages of Plasmodium falciparum
Maria B Cassera
Department of Parasitology, Institute of Biomedical Sciences, University of Sao Paulo, 05508 900 Sao Paulo, Brazil
J Biol Chem 279:51749-59. 2004
..falciparum, and de novo biosynthesis of pyridoxal in a protozoan is reported. Its absence in the human host makes both pathways very attractive as potential new targets for antimalarial drug development...
- Detection of novel enzyme intermediates in PEP-utilizing enzymes
Karen S Anderson
Department of Pharmacology, SHM B350B, Yale University School of Medicine, 333 Cedar Street New Haven, CT 06520, USA
Arch Biochem Biophys 433:47-58. 2005
..A novel application of this approach using time-resolved electrospray mass spectrometry to detect chemically labile enzyme intermediates is also discussed...
- Biochemical and genetic characterization of a novel enzyme of pentitol metabolism: D-arabitol-phosphate dehydrogenase
Danisco Cultor Innovation, Sokeritehtaantie 20, Kantvik 02460, Finland
Biochem J 371:191-7. 2003
..Their apparent biological role is to participate in arabitol catabolism via the 'arabitol phosphate route', similar to the ribitol and xylitol catabolic routes described previously...
- Multistate binding in pyridoxine 5'-phosphate synthase: 1.96 A crystal structure in complex with 1-deoxy-D-xylulose phosphate
Joanne I Yeh
Molecular Biology, Cell Biology, and Biochemistry Department, Brown University, Box G J2, Providence, RI 02912 9108, USA
Biochemistry 41:11649-57. 2002
- Isoprenoid biosynthesis via the methylerythritol phosphate pathway. Mechanistic investigations of the 1-deoxy-D-xylulose 5-phosphate reductoisomerase
Jean François Hoeffler
Université Louis Pasteur CNRS, Institut Le Bel, Strasbourg, France
Eur J Biochem 269:4446-57. 2002
..The equilibrium was, however, largely displaced in favour of the formation of MEP. The reduction step required the presence of a divalent cation such as Mg(2+) or Mn(2+)...
- Pools of 14C-malic acid as a substrate for pyruvate production for the DOXP/MEP pathway of biosynthesis of carotenoids in chloroplasts
V S Saakov
Sechenov Institute of Evolutionary Physiology and Biochemistry, Russian Academy of Sciences, St Petersburg, 194223 Russia
Dokl Biochem Biophys 400:7-13. 2005
- Crystal structure of 1-deoxy-D-xylulose 5-phosphate reductoisomerase complexed with cofactors: implications of a flexible loop movement upon substrate binding
Department of Bioscience, Tokyo University of Agriculture, Setagaya Ku, Tokyo 156 8502, Japan
J Biochem 131:313-7. 2002
..A flexible loop covering the substrate binding site plays an important role in the enzymatic reaction and the determination of substrate specificity...
- Cloning and characterization of the gene encoding phosphoketolase in Leuconostoc mesenteroides isolated from kimchi
Jung Min Lee
School of Agricultural Biotechnology, Seoul National University, Republic of Korea
Biotechnol Lett 27:853-8. 2005
..coli BL21 and E. coli EC101 harboring xfp were 0.28 and 0.14 units/mg, respectively. They both exhibited a 1.5-fold increase in the production of acetic acid from acetyl phosphate compared with their corresponding original strain...
- Synthesis and evaluation of 1-deoxy-D-xylulose 5-phosphate analogues as chelation-based inhibitors of methylerythritol phosphate synthase
Joel R Walker
Department of Chemistry, University of Utah, Salt Lake City, Utah 84112, USA
J Org Chem 70:9955-9. 2005
..The carboxylate (1), methyl ester (3), amide (4), and alcohol (5) analogues were inhibitors with IC50's ranging from 0.25 to 1.0 mM. The hydroxamic acid (2) and amino (6) analogues did not inhibit the enzyme...
- Binding of the natural substrates and products to KDO8P synthase: 31P and 13C solution NMR characterization
Department of Chemistry, Institute of Catalysis Science and Technology, Technion Israel Institute of Technology, 32000, Haifa, Israel
Bioorg Chem 31:306-21. 2003
..Since both the substrate A5P and the product KDO8P exhibit multiple anomeric forms in solution, evidence for the preference of recognition and binding of particular forms is sought...
- 3-Deoxy-D-manno-octulosonate-8-phosphate synthase from Escherichia coli. Model of binding of phosphoenolpyruvate and D-arabinose-5-phosphate
Department of Biology, University of Virginia, Charlottesville, VA, 22903 2477, USA
J Mol Biol 301:233-8. 2000
..Based on the precedent of the d-erythrose-4-phosphate (E4P) modeled in the active site of DAHPS, we have modeled PEP and A5P in KDOPS and compared the coordination of PEP and A5P in KDOPS with that of PEP and E4P in DAHPS...
- Regulated in vitro synthesis of the enzymes of the deo operon of Escerichia coli. properties of the DNA directed system
B A Svenningsen
Mol Gen Genet 137:289-304. 1975
..The sequential appearance of active enzymes has confirmed the direction of transcription as being dra-tpp-drm-pup and has indicated that the four genes are transcribed into a single tetracistronic message...
- Cooperative binding of substrates to transketolase from Saccharomyces cerevisiae
I A Sevostyanova
Belozersky Institute of Physico Chemical Biology, Lomonosov Moscow State University, Moscow, 119991, Russia
Biochemistry (Mosc) 74:789-92. 2009
..In the presence of Mg2+, nonequivalence of the active sites is not observed...
- Metabolomic effects of xylitol and fluoride on plaque biofilm in vivo
Division of Oral Ecology and Biochemistry, Department of Oral Biology, Tohoku University Graduate School of Dentistry, 4 1 Seiryo machi, Aoba ku, Sendai 980 8575, Japan
J Dent Res 90:1463-8. 2011
..Metabolome analyses of plaque biofilm can be applied for monitoring the efficacy of dietary components and medicines for plaque biofilm, leading to the development of effective plaque control...
- Rubisco activity: effects of drought stress
Martin A J Parry
CPI, IACR Rothamsted, Harpenden, Herts, UK
Ann Bot 89:833-9. 2002
..Alternative explanations for the difference between maximal and total activities are discussed...
- Crystal structure of rice Rubisco and implications for activation induced by positive effectors NADPH and 6-phosphogluconate
Department of Applied Chemistry, Graduate School of Engineering, Osaka University, 2 1, Yamadaoka, Suita, Osaka 565 0871, Japan
J Mol Biol 422:75-86. 2012
- Mutations in Escherichia coli aceE and ribB genes allow survival of strains defective in the first step of the isoprenoid biosynthesis pathway
Centre for Research in Agricultural Genomics CRAG CSIC IRTA UAB UB, Campus UAB Bellaterra, Barcelona, Spain
PLoS ONE 7:e43775. 2012
..Together, this work unveils the diversity of mechanisms that can evolve in bacteria to circumvent a blockage of the first step of the MEP pathway...
- Vitamin B6 biosynthesis in higher plants
Institute of Plant Sciences, Swiss Federal Institute of Technology ETH, Universitatstrasse 2, CH 8092 Zurich, Switzerland
Proc Natl Acad Sci U S A 102:13687-92. 2005
..Furthermore, and contrary to what was inferred previously, we show that the pathway appears to be cytosolic and is not localized to the plastid. Last, we report that the single PDX2 homolog is essential for plant viability...
- Function of His185 in Aquifex aeolicus 3-deoxy-D-manno-octulosonate 8-phosphate synthase
Department of Biochemistry and Molecular Biology, Wayne State University School of Medicine, Detroit, MI 48201, USA
J Mol Biol 324:205-14. 2002
..aeolicus KDO8PS is to orient PEP in the active site of the enzyme in such a way that a water molecule on the sinister (si) side of PEP can be activated by direct coordination to the metal ion...
- Functional and evolutionary analysis of DXL1, a non-essential gene encoding a 1-deoxy-D-xylulose 5-phosphate synthase like protein in Arabidopsis thaliana
Departament de Bioquimica i Biologia Molecular, Facultat de Biologia, Universitat de Barcelona, Avda Diagonal 643, 08028 Barcelona, Spain
Gene 524:40-53. 2013
..Our results provide with the first evidences of functional specialization at both the regulatory and biochemical level within the plant DXS family...
- Structure and function of human xylulokinase, an enzyme with important roles in carbohydrate metabolism
Richard D Bunker
Maurice Wilkins Centre for Molecular Biodiscovery and School of Biological Sciences, University of Auckland, Private Bag 92019, Auckland 1142, New Zealand
J Biol Chem 288:1643-52. 2013
..The hXK structure provides a basis for the design of specific inhibitors with which to probe its roles in sugar metabolism and metabolic disease...
- Inhibition of nicotinamide phosphoribosyltransferase by pyridine nucleotides
L S Dietrich
Biochemistry 11:1691-5. 1972
- Substrate antagonism in the kinetic mechanism of E. coli phosphofructokinase-1
Laboratoire d Enzymologie du CNRS, Gif sur Yvette, France
FEBS Lett 290:173-6. 1991
..The antagonism between ATP and fructose-6-phosphate shows that a negative interaction occurs during the reaction with E. coli phosphofructokinase-1 which must be considered in addition to its allosteric properties...
- Biosynthesis of sesquiterpenes in grape berry exocarp of Vitis vinifera L.: evidence for a transport of farnesyl diphosphate precursors from plastids to the cytosol
University of Bonn, Department of Nutrition and Food Sciences, Bioanalytics, Endenicher Allee 11 13, D 53115 Bonn, Germany
Phytochemistry 95:135-44. 2013
..This observation was subsequently confirmed by enantioselective GC-MS analysis demonstrating the exclusive presence of (R)-germacrene D, and not the (S)-enantiomer, in grape berries. ..
- Sedimentation behaviour of phosphoribosyladenosine triphosphate synthetase. Effects of substrates and modifiers
Biochim Biophys Acta 227:327-36. 1971
- Efficacy of human hyperimmune globulin in prevention of Haemophilus influenzae type b disease in infant rats
Infect Immun 39:709-14. 1983
..001) in rats with less than 50 ng of anti-PRP antibody per ml. We conclude that studies of the pharmacology and efficacy of hyperimmune globulin are warranted in high-risk children unable to respond to active immunization...
- Combinatorial engineering of 1-deoxy-D-xylulose 5-phosphate pathway using cross-lapping in vitro assembly (CLIVA) method
Chemical and Pharmaceutical Engineering, Singapore MIT Alliance, Singapore, Singapore
PLoS ONE 8:e79557. 2013
..This study demonstrated the utility of CLIVA in the assembly of multiple fragments of DNA into a plasmid which enabled the rapid exploration of biological pathways. ..
- 13C and deuterium isotope effects suggest an aldol cleavage mechanism for L-ribulose-5-phosphate 4-epimerase
L V Lee
Institute for Enzyme Research, Department of Biochemistry, University of Wisconsin, Madison, Wisconsin 53705, USA
Biochemistry 39:4808-20. 2000
..94 and 8.24. The CD spectra of L-ribulose 5-phosphate and D-xylulose 5-phosphate differ sufficiently that the epimerization reaction can be followed at 300 nm...
- Observation of a chemically labile, noncovalent enzyme intermediate in the reaction of metal-dependent Aquifex pyrophilus KDO8PS by time-resolved mass spectrometry
Department of Pharmacology, Yale University School of Medicine, New Haven, CT 06510, USA
Rapid Commun Mass Spectrom 24:1919-24. 2010
..This represents the first direct detection of the intermediate with a native metal-dependent KDO8PS, and further demonstrates that time-resolved mass spectrometry is a useful tool in mechanistic studies of enzymatic reactions...
- The non-mevalonate isoprenoid biosynthesis of plants as a test system for new herbicides and drugs against pathogenic bacteria and the malaria parasite
H K Lichtenthaler
Botanisches Institut II, Universitat Karlsruhe, Germany
Z Naturforsch C 55:305-13. 2000
..falciparum, and cures malaria-infected mice. This is the first successful application of a herbicide of the novel isoprenoid pathway as a possible drug against malaria...
- Construction and characterization of Escherichia coli disruptants defective in the yaeM gene
Institute of Molecular and Cellular Biosciences, University of Tokyo, Japan
Biosci Biotechnol Biochem 63:776-8. 1999
..This result clearly shows that the yaeM gene is indeed involved in this pathway in E. coli...
- Quantitative determination of the main glucose metabolic fluxes in human erythrocytes by 13C- and 1H-MR spectroscopy
Istituto di Chimica e Chimica Clinica, Facolta di Medicina e Chirurgia, Universita Cattolica, Roma, Italy
J Biochem Biophys Methods 39:63-84. 1999
- Synthesis and antibacterial activity of mechanism-based inhibitors of KDO8P synthase and DAH7P synthase
Laboratoire de Chimie Organique Biomoléculaire, UMR CNRS 7565, Institut Nancéien de Chimie Moléculaire, Universite Henri Poincare, Nancy 1, BP 239, F 54506 Vandoeuvre Les Nancy, France
Carbohydr Res 340:529-37. 2005
..The synthesis of new inhibitors closely related to the supposed tetrahedral intermediate substrates for the enzymes is described. The examination of the antibacterial activity of these derivatives is reported...
- Activation of a cryptic gene encoding a kinase for L-xylulose opens a new pathway for the utilization of L-lyxose by Escherichia coli
J C Sanchez
Department of Biochemistry, School of Pharmacy, University of Barcelona, Spain
J Biol Chem 269:29665-9. 1994
- Transketolase in Trypanosoma brucei
Sabine A Stoffel
Pevion Biotech AG, Worblentalstrasse 32, CH 3063 Ittigen BE, Switzerland
Mol Biochem Parasitol 179:1-7. 2011
..Metabolite profiling to compare wild type and TKT null mutants revealed substantial increases in transketolase substrate metabolites coupled to loss of sedoheptulose 7-phosphate, a principal product of the transketolase reaction...
- Transaldolase B of Escherichia coli K-12: cloning of its gene, talB, and characterization of the enzyme from recombinant strains
G A Sprenger
Institut für Biotechnologie 1, Forschungszentrum Julich GmbH, Julich, Germany
J Bacteriol 177:5930-6. 1995
..Fructose acted as a C(3) donor at a high apparent K(m) (>/=M) and with a V(rel) of 12%. The enzyme was inhibited by Tris-HCl, phosphate, or sugars with the L configuration at C(2) (L-glyceraldehyde, D-arabinose-5-phosphate)...
- Probing catalysis by Escherichia coli dTDP-glucose-4,6-dehydratase: identification and preliminary characterization of functional amino acid residues at the active site
A D Hegeman
Department of Biochemistry, University of Wisconsin Madison, 53705, USA
Biochemistry 40:6598-610. 2001
..Additional steady-state techniques were employed in an attempt to further limit the assignment of rate limitation. The results are discussed within the context of the 4,6-dehydratase active site model and chemical mechanism...
- Enhancement of xylose uptake in 2-deoxyglucose tolerant mutant of Saccharomyces cerevisiae
Asian Center for Environmental Research, Meisei University, Tokyo, Japan
J Biosci Bioeng 111:557-63. 2011
..To our knowledge, this study is the first report verifying that the mutation technique successfully enhances the xylose uptake by S. cerevisiae, particularly under the presence of glucose...
- Interaction of transketolase from human tissues with substrates
L E Meshalkina
Belozersky Institute of Physico Chemical Biology, Lomonosov Moscow State University, Russia
Biochemistry (Mosc) 76:1061-4. 2011
..It is shown that K(m) values determined by other authors are significantly overestimated and explained why this is so...
- Rapid and flexible synthesis of 1-deoxy-D-xylulose-5-phosphate, the substrate for 1-deoxy-D-xylulose-5-phosphate reductoisomerase
Russell J Cox
School of Chemistry, University of Bristol, Cantock s Close, Bristol, UK BS8 1TS
Org Biomol Chem 1:3173-7. 2003
..DXP-R was produced by rapid cloning of the dxr gene from Escherichia coli through controlled expression and ion exchange chromatography. The synthetic DXP was fully active in enzyme assays catalysed by recombinant DXP-R...
- Nudix hydrolases that degrade dinucleoside and diphosphoinositol polyphosphates also have 5-phosphoribosyl 1-pyrophosphate (PRPP) pyrophosphatase activity that generates the glycolytic activator ribose 1,5-bisphosphate
David I Fisher
Cell Regulation and Signalling Group, School of Biological Sciences, University of Liverpool, Liverpool L69 7ZB, United Kingdom
J Biol Chem 277:47313-7. 2002
..radiodurans DR2356 enzyme and for the DIPP subfamily. In the latter case, generation of the glycolytic activator ribose 1,5-bisphosphate may be a new function for these enzymes...
- 2-Carboxy-D-arabinitol 1-phosphate (CA1P) phosphatase: evidence for a wider role in plant Rubisco regulation
Paul John Andralojc
Department of Plant Sciences, Rothamsted Research, Harpenden, UK
Biochem J 442:733-42. 2012
..The substrate specificity of the expressed protein indicates a role for CA1Pase in the removal of 'misfire' products of Rubisco...
- Utilization of D-ribitol by Lactobacillus casei BL23 requires a mannose-type phosphotransferase system and three catabolic enzymes
INRA, Microbiologie de l Alimentation au service de la Santé Humaine MICALIS, UMR1319, Jouy en Josas, France
J Bacteriol 195:2652-61. 2013
..casei strain 64H but not in BL23, because one of the BL23 genes carries a frameshift mutation...
- Metabolic engineering of Corynebacterium glutamicum for production of 1,5-diaminopentane from hemicellulose
Institute of Biochemical Engineering, Technische Universitat, Braunschweig, Germany
Biotechnol J 6:306-17. 2011
..glutamicum strain. This now opens a future avenue towards bio-based 1,5-diaminopentane and bio-polyamides thereof from non-food raw materials...
- 1-methylthio-D-xylulose 5-phosphate methylsulfurylase: a novel route to 1-deoxy-D-xylulose 5-phosphate in Rhodospirillum rubrum
Benjamin P Warlick
Department of Biochemistry, University of Illinois at Urbana Champaign, Urbana, IL 61801, USA
Biochemistry 51:8324-6. 2012
..et al. (2012) Nat. Chem. Biol., in press]. Dethiomethylation, a novel route to DXP, is catalyzed by MTXu 5-P methylsulfurylase. An active site Cys displaces the enolate of DXP from MTXu 5-P, generating a methyl disulfide intermediate...
- Acetate-dependent photoheterotrophic growth and the differential requirement for the Calvin-Benson-Bassham reductive pentose phosphate cycle in Rhodobacter sphaeroides and Rhodopseudomonas palustris
Department of Microbiology, The Ohio State University, 484 West 12th Avenue, Columbus, OH 43210, USA
Arch Microbiol 193:151-4. 2011
..Each pathway, therefore, also dictates at what point, CO(2) and reductant are consumed, thereby determining the requirement for the Calvin-Benson-Bassham reductive pentose phosphate cycle...
- Synthesis and evaluation of 1-deoxy-D-xylulose 5-phosphoric acid analogues as alternate substrates for methylerythritol phosphate synthase
David T Fox
Department of Chemistry, University of Utah, Salt Lake City, Utah 84112, USA
J Org Chem 70:1978-85. 2005
..These results are consistent with a retro-aldol/aldol mechanism rather than an alpha-ketol rearrangement for the enzyme-catalyzed conversion of DXP to MEP...
- Vitamin B6 biosynthesis: formation of pyridoxine 5'-phosphate from 4-(phosphohydroxy)-L-threonine and 1-deoxy-D-xylulose-5-phosphate by PdxA and PdxJ protein
Hoechst Schering AgrEvo GmbH, Biochemical Research, Frankfurt am Main, Germany
FEBS Lett 449:45-8. 1999
..The sugar used as substrate by PdxJ is 1-deoxy-D-xylulose-5-phosphate rather than the previously assumed 1-deoxy-D-xylulose. The first vitamin B6 vitamer synthesised is PNP, and not pyridoxine...
- Thymineless mutants of Escherichia coli with deficiencies in deoxyribomutase and deoxyriboaldolase
Biochim Biophys Acta 161:279-82. 1968
- Substrate and metal complexes of 3-deoxy-D-manno-octulosonate-8-phosphate synthase from Aquifex aeolicus at 1.9-A resolution. Implications for the condensation mechanism
H S Duewel
The Interdepartmental Program in Medicinal Chemistry, College of Pharmacy, University of Michigan, Ann Arbor, Michigan 48109, USA
J Biol Chem 276:8393-402. 2001
..Abstraction of a proton from either of these water molecules by a protein group is expected to elicit a nucleophilic attack of the resulting hydroxide ion on the nearby C-2(PEP), thus triggering the beginning of the catalytic cycle...
- Separation of anthranilate synthetase components I and II of Escherichia coli, Salmonella typhimurium, and Serratia marcescens and determination of their amino-terminal sequences by automatic Edman degradation
S L Li
Biochemistry 13:1736-44. 1974
- Dynamic, ligand-dependent conformational change triggers reaction of ribose-1,5-bisphosphate isomerase from Thermococcus kodakarensis KOD1
Department of Chemistry, Graduate School of Science, Kyoto University, Sakyo ku, Kyoto 606 8502, Japan
J Biol Chem 287:20784-96. 2012
..The structural features of the substrate-binding form and biochemical evidence lead us to propose that the isomerase reaction proceeds via a cis-phosphoenolate intermediate...
- Potent inhibition of the C-P lyase nucleosidase PhnI by Immucillin-A triphosphate
Siddhesh S Kamat
Department of Chemistry, Texas A and M University, College Station, Texas 77840, United States
Biochemistry 52:7366-8. 2013
..Here we describe the synthesis of Immucillin-A triphosphate, a mimic of the transition state structure for the nucleosidase reaction catalyzed by PhnI. This compound inhibits PhnI with a dissociation constant of 20 nM at pH 7.5. ..
- The multiple activities of Escherichia coli endonuclease IV and the extreme lability of 5'-terminal base-free deoxyribose 5-phosphates
Biochimie, Faculte des Sciences, Universite de Liege, Belgium
Biochem J 259:761-8. 1989
..The 3'-phosphatase activity of E. coli endonuclease VI/exonuclease III and E. coli endonuclease IV can also be useful when the AP site has been excised by a beta delta-elimination reaction...
- Mechanistic insights into 1-deoxy-D-xylulose 5-phosphate reductoisomerase, a key enzyme of the MEP terpenoid biosynthetic pathway
Key Laboratory of Resource Biology and Biotechnology in Western China Ministry of Education, College of Life Sciences, Northwest University, Xi an, China
FEBS J 280:5896-905. 2013
- Role of thiamine status and genetic variability in transketolase and other pentose phosphate cycle enzymes in the progression of diabetic nephropathy
Department of Pathophysiology, Masaryk University, Brno, Czech Republic
Nephrol Dial Transplant 26:1229-36. 2011
- Identification and quantitation of phosphorus metabolites in yeast neutral pH extracts by nuclear magnetic resonance spectroscopy
VTT Chemical Technology, Espoo, Finland
Anal Biochem 272:71-9. 1999
..No such accumulation occurred when the cells were grown in yeast-peptone-dextrose medium. Trimetaphosphate (intracellular concentration about 0.2 mM) was detected in both cold methanol-chloroform and perchloric acid extracts...
- Conversion of D-ribulose 5-phosphate to D-xylulose 5-phosphate: new insights from structural and biochemical studies on human RPE
National Laboratory of Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing 100101, China
FASEB J 25:497-504. 2011
..The binary complexes of hRPE reported here will aid in the design of small molecules for modulating the activity of the enzyme and altering flux through the PPP...
- Optimized enzymatic preparation of 1-deoxy-d-xylulose 5-phosphate
Yue Fei Zhou
National Engineering Research Center for Miniaturized Detection Systems, Northwest University, Xi an, Shaanxi, PR China
Bioorg Chem 38:120-3. 2010
..The procedure can also be employed to synthesize isotope labeled 1-deoxy-d-xylulose 5-phosphate by using isotope labeled starting materials...
- Functional and biochemical characterization of a recombinant 3-Deoxy-D-manno-octulosonic acid 8-phosphate synthase from the hyperthermophilic bacterium Aquifex aeolicus
H S Duewel
Interdepartmental Program in Medicinal Chemistry, University of Michigan, Ann Arbor, Michigan, 48109 1065, USA
Biochem Biophys Res Commun 263:346-51. 1999
..5 h (90 degrees C), 8.1 h (80 degrees C), and 30.3 h (70 degrees C). KdsA appeared to follow Michaelis-Menton kinetics with K(A5-P)(m) = 8 - 74 microM, K(PEP)(m) = 43-28 microM, and k(cat) = 0.4-2.0 s(-1) between 60 and 90 degrees C...
- Conformational dynamics of the flexible catalytic loop in Mycobacterium tuberculosis 1-deoxy-D-xylulose 5-phosphate reductoisomerase
Sarah L Williams
Department of Chemistry and Biochemistry, University of California San Diego, La Jolla, CA 92093 0365, USA
Chem Biol Drug Des 73:26-38. 2009
..The substantial fluctuations observed suggest that 1-deoxy-D-xylulose 5-phosphate reductoisomerase may be a promising target for computer-aided drug discovery through the relaxed complex method...
- Structure of L-xylulose-5-Phosphate 3-epimerase (UlaE) from the anaerobic L-ascorbate utilization pathway of Escherichia coli: identification of a novel phosphate binding motif within a TIM barrel fold
Department of Biochemistry, McGill University, Montreal, Quebec, Canada
J Bacteriol 190:8137-44. 2008
..Mutation and activity measurements for structurally equivalent residues in related epimerases supported this mechanistic proposal...
- Kinetic and mechanistic analysis of the Escherichia coli ribD-encoded bifunctional deaminase-reductase involved in riboflavin biosynthesis
Maria L B Magalhaes
Department of Biochemistry, Albert Einstein College of Medicine, 1300 Morris Park Avenue, Bronx, New York 10461, USA
Biochemistry 47:6499-507. 2008
..coli RibD. On the basis of the observed patterns of inhibition versus the two substrates, we propose that the RibD-catalyzed reduction step follows a kinetic scheme similar to that of its structural homologue, DHFR...
- A novel assay system for the measurement of transketolase activity using xylulokinase from Saccharomyces cerevisiae
Jin Young Lee
Institute of Biotechnological Industry, Inha University, Incheon, 402 751, Korea
Biotechnol Lett 30:899-904. 2008
..The new coupling assay gave reproducible results with E. coli TKT and had a detection limit up to 5 x 10(-4)unit/mg protein. A reliable result was also achieved for the incorporation of XK and TKT into a single reaction...
- Strain and near attack conformers in enzymic thiamin catalysis: X-ray crystallographic snapshots of bacterial transketolase in covalent complex with donor ketoses xylulose 5-phosphate and fructose 6-phosphate, and in noncovalent complex with acceptor aldo
Institut für Biochemie Biotechnologie, Martin Luther University Halle Wittenberg, Kurt Mothes Strasse 3, 06120 Halle Saale, Germany
Biochemistry 46:12037-52. 2007
- Glucose phosphorylation is required for insulin-dependent mTOR signalling in the heart
Division of Cardiology, The University of Texas Houston Medical School, Houston, Texas 77030, USA
Cardiovasc Res 76:71-80. 2007
..We postulated that mTOR signalling in the heart requires the metabolism of glucose...
- Quantifying the amount and activity of Rubisco in leaves
David S Kubien
Department of Biology, University of New Brunswick, Fredericton, NB, Canada
Methods Mol Biol 684:349-62. 2011
..The required calculations are included. We discuss problems that commonly arise during the extraction and assay of Rubisco...
- Structural and genetic relationships between the O-antigens of Escherichia coli O118 and O151
TEDA School of Biological Sciences and Biotechnology, Nankai University, TEDA, Tianjin, China
FEMS Immunol Med Microbiol 60:199-207. 2010
..coli O118 and O151. It was suggested that the OGCs of the three bacteria studied originated from a common ancestor...
- Two mechanisms for growth inhibition by elevated transport of sugar phosphates in Escherichia coli
R J Kadner
Department of Microbiology, School of Medicine, University of Virginia, Charlottesville 22908
J Gen Microbiol 138:2007-14. 1992
..It is likely that the control of uhpT transcription by catabolite repression exists to limit the level of UhpT transport activity and thereby prevent the toxic events that result from elevated uptake of its substrates...
- Regulation of purine synthesis de novo in human fibroblasts by purine nucleotides and phosphoribosylpyrophosphate
M A Becker
Department of Medicine, University of Chicago Pritzker School of Medicine, Illinois 60637
J Biol Chem 262:14531-7. 1987
..3) Activation of amido PRT by PP-Rib-P is nearly maximal at base line in fibroblasts with regulatory defects in PP-Rib-P synthetase...
- Studies on the quaternary structure of the first enzyme for histidine biosynthesis
A R Tebar
Experientia 29:1477-9. 1973
- Glucose metabolism in 6 phosphogluconolactonase mutants of Escherichia coli
S R Kupor
J Biol Chem 247:1904-10. 1972
- Mutants constitutive for nucleoside-catabolizing enzymes in Escherichia coli K12. Isolation, charactrization and mapping
Eur J Biochem 27:208-15. 1972
- Ribulose diphosphate carboxylase from autotrophic microorganisms
B A McFadden
J Bacteriol 110:633-42. 1972
..Ribulose diphosphate carboxylase in extracts of H. eutropha, H. facilis, Chromatium D, Rhodospirillum rubrum, and Chlorella pyrenoidosa were also inhibited to varying extents by cyanide and antiserum to the H. eutropha enzyme...
- An extended β7α7 substrate-binding loop is essential for efficient catalysis by 3-deoxy-D-manno-octulosonate 8-phosphate synthase
Timothy M Allison
Biomolecular Interaction Centre and Department of Chemistry, University of Canterbury, Christchurch, New Zealand
Biochemistry 50:9318-27. 2011
..Therefore, the presence of the entire extended β7α7 loop is important for efficient catalysis by KDO8P synthase, with the loop acting to promote efficient and productive binding of A5P...
- Deoxyribonucleoside catabolism and thymine incorporation in mutants of Escherichia coli lacking deoxyriboaldolase
Eur J Biochem 15:191-202. 1970
- Apicoplast isoprenoid precursor synthesis and the molecular basis of fosmidomycin resistance in Toxoplasma gondii
Sethu C Nair
Department of Cellular Biology, University of Georgia, Athens, GA 30602, USA
J Exp Med 208:1547-59. 2011
..We propose that the varied extent of metabolite exchange between host and parasite is a crucial determinator of drug susceptibility and a predictor of future resistance...
- Pentose phosphate pathway mutants of yeast
Mol Gen Genet 185:367-8. 1982
..A lesion in the latter enzyme alone leaves growth practically unaffected. The mutations define the respective structural genes...
- Structure of an effector-induced inactivated state of ribulose 1,5-bisphosphate carboxylase/oxygenase: the binary complex between enzyme and xylulose 1,5-bisphosphate
Department of Molecular Biology, Biomedical Centre, Uppsala, Sweden
Structure 2:495-502. 1994
..We have used one of these, xylulose 1,5-bisphosphate as an analogue of the natural substrate and co-crystallized it with the enzyme...
- Haemophilus influenzae type b-specific antibody in infants after maternal immunization
J A Englund
Department of Microbiology and Immunology, Baylor College of Medicine, Houston, TX 77030, USA
Pediatr Infect Dis J 16:1122-30. 1997
..To study the kinetics of Haemophilus influenzae type b (Hib)-specific antibody in infants born to mothers immunized with an Hib polysaccharide or one of two Hib conjugate vaccines...