31 results on '"Fraaije, Marco W."'
Search Results
2. Discovery and structural characterization of a thermostable bacterial monoamine oxidase.
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Santema, Lars L., Basile, Lorenzo, Binda, Claudia, and Fraaije, Marco W.
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MONOAMINE oxidase ,ALIPHATIC amines ,ENZYMES ,ESCHERICHIA coli ,CRYSTAL structure ,OXIDASES - Abstract
Monoamine oxidases (MAOs) are pivotal regulators of neurotransmitters in mammals, while microbial MAOs have been shown to be valuable biocatalysts for enantioselective synthesis of pharmaceutical compounds or precursors thereof. To extend the knowledge of how MAOs function at the molecular level and in order to provide more biocatalytic tools, we set out to identify and study a robust bacterial variant: a MAO from the thermophile Thermoanaerobacterales bacterium (MAO
Tb ). MAOTb is highly thermostable with melting temperatures above 73 °C and is well expressed in Escherichia coli. Substrate screening revealed that the oxidase is most efficient with n-alkylamines with n-heptylamine being the best substrate. Presteady-state kinetic analysis shows that reduced MAOTb rapidly reacts with molecular oxygen, confirming that it is a bona fide oxidase. The crystal structure of MAOTb was resolved at 1.5 °A and showed an exceptionally high similarity with the two human MAOs, MAO A and MAO B. The active site of MAOTb resembles mostly the architecture of human MAO A, including the cysteinyl protein-FAD linkage. Yet, the bacterial MAO lacks a C-terminal extension found in human MAOs, which explains why it is expressed and purified as a soluble protein, while the mammalian counterparts are anchored to the membrane through an a-helix. MAOTb also displays a slightly different active site access tunnel, which may explain the specificity toward long aliphatic amines. Being an easy-to-express, thermostable enzyme, for which a high-resolution structure was elucidated, this bacterial MAO may develop into a valuable biocatalyst for synthetic chemistry or biosensing. [ABSTRACT FROM AUTHOR]- Published
- 2024
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3. Discovery and biochemical characterization of thermostable glycerol oxidases.
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Santema, Lars L., Rotilio, Laura, Xiang, Ruite, Tjallinks, Gwen, Guallar, Victor, Mattevi, Andrea, and Fraaije, Marco W.
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OXIDASES ,FLAVOPROTEINS ,PROTEIN synthesis ,BIOCHEMICAL substrates ,HYDROGEN bonding ,AMINE oxidase - Abstract
Alditol oxidases are promising tools for the biocatalytic oxidation of glycerol to more valuable chemicals. By integrating in silico bioprospecting with cell-free protein synthesis and activity screening, an effective pipeline was developed to rapidly identify enzymes that are active on glycerol. Three thermostable alditol oxidases from Actinobacteria Bacterium, Streptomyces thermoviolaceus, and Thermostaphylospora chromogena active on glycerol were discovered. The characterization of these three flavoenzymes demonstrated their glycerol oxidation activities, preference for alkaline conditions, and excellent thermostabilities with melting temperatures higher than 75 °C. Structural elucidation of the alditol oxidase from Actinobacteria Bacterium highlighted a constellation of side chains that engage the substrate through several hydrogen bonds, a histidine residue covalently bound to the FAD prosthetic group, and a tunnel leading to the active site. Upon computational simulations of substrate binding, a double mutant targeting a residue pair at the tunnel entrance was created and found to display an improved thermal stability and catalytic efficiency for glycerol oxidation. The hereby described alditol oxidases form a valuable panel of oxidative biocatalysts that can perform regioselective oxidation of glycerol and other polyols. Key points: • Rapid pipeline designed to identify putative oxidases • Biochemical and structural characterization of alditol oxidases • Glycerol oxidation to more valuable derivatives [ABSTRACT FROM AUTHOR]
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- 2024
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4. Structure elucidation and characterization of patulin synthase, insights into the formation of a fungal mycotoxin.
- Author
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Tjallinks, Gwen, Boverio, Alessandro, Maric, Ivana, Rozeboom, Henriette, Arentshorst, Mark, Visser, Jaap, Ram, Arthur F. J., Mattevi, Andrea, and Fraaije, Marco W.
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PATULIN ,APPLE blue mold ,ASPERGILLUS niger ,OCHRATOXINS ,CRYSTAL structure ,OXIDASES ,FUNGAL enzymes ,COFACTORS (Biochemistry) - Abstract
Patulin synthase (PatE) from Penicillium expansum is a flavin‐dependent enzyme that catalyses the last step in the biosynthesis of the mycotoxin patulin. This secondary metabolite is often present in fruit and fruit‐derived products, causing postharvest losses. The patE gene was expressed in Aspergillus niger allowing purification and characterization of PatE. This confirmed that PatE is active not only on the proposed patulin precursor ascladiol but also on several aromatic alcohols including 5‐hydroxymethylfurfural. By elucidating its crystal structure, details on its catalytic mechanism were revealed. Several aspects of the active site architecture are reminiscent of that of fungal aryl‐alcohol oxidases. Yet, PatE is most efficient with ascladiol as substrate confirming its dedicated role in biosynthesis of patulin. [ABSTRACT FROM AUTHOR]
- Published
- 2023
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5. Inversion of Stereospecificity of Vanillyl-Alcohol Oxidase
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Fraaije, Marco W., Ferrer, Miriam, and Mattevi, Andrea
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- 2000
6. Structural elucidation and engineering of a bacterial carbohydrate oxidase
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Boverio, Alessandro, Widodo, Wahyu S., Santema, Lars L., Rozeboom, Henriëtte J., Xiang, Ruite, Guallar, Víctor, Mattevi, Andrea, Fraaije, Marco W., Biotechnology, and Barcelona Supercomputing Center
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Informàtica::Aplicacions de la informàtica::Bioinformàtica [Àrees temàtiques de la UPC] ,biocatalyst ,Flavoproteins ,Crystal structure ,enzyme variant ,Carbohydrates ,Peptides and proteins ,trisaccharide maltotriose ,Biochemistry ,enzyme ,enzyme engineering ,NagOx ,flavoprotein ,Flavins ,Simulació per ordinador ,oxidases ,Ralstonia solanacearum ,Protein engineering ,Redox reactions ,biotechnology - Abstract
Flavin-dependent carbohydrate oxidases are valuable tools in biotechnological applications due to their high selectivity in the oxidation of carbohydrates. In this study, we report the biochemical and structural characterization of a recently discovered carbohydrate oxidase from the bacterium Ralstonia solanacearum, which is a member of the vanillyl alcohol oxidase flavoprotein family. Due to its exceptionally high activity toward N-acetyl-d-galactosamine and N-acetyl-d-glucosamine, the enzyme was named N-acetyl-glucosamine oxidase (NagOx). In contrast to most known (fungal) carbohydrate oxidases, NagOx could be overexpressed in a bacterial host, which facilitated detailed biochemical and enzyme engineering studies. Steady state kinetic analyses revealed that non-acetylated hexoses were also accepted as substrates albeit with lower efficiency. Upon determination of the crystal structure, structural insights into NagOx were obtained. A large cavity containing a bicovalently bound FAD, tethered via histidyl and cysteinyl linkages, was observed. Substrate docking highlighted how a single residue (Leu251) plays a key role in the accommodation of N-acetylated sugars in the active site. Upon replacement of Leu251 (L251R mutant), an enzyme variant was generated with a drastically modified substrate acceptance profile, tuned toward non-N-acetylated monosaccharides and disaccharides. Furthermore, the activity toward bulkier substrates such as the trisaccharide maltotriose was introduced by this mutation. Due to its advantage of being overexpressed in a bacterial host, NagOx can be considered a promising alternative engineerable biocatalyst for selective oxidation of monosaccharides and oligosaccharides. W.S.W. was sponsored by a LPDP scholarship from the Ministry of Finance, Republic of Indonesia. A.M. and M.W.F. received funding from Fondazione Cariplo (grant 2020-0894). L.L.S., M.W.F., V.G., and R.X. received funding from the European Union’s Horizon 2020 research and innovation program under Grant Agreement 101000607 (Project OXIPRO)
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- 2022
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7. Multiple Pathways Guide Oxygen Diffusion into Flavoenzyme Active Sites
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Baron, Riccardo, Riley, Conor, Chenprakhon, Pirom, Thotsaporn, Kittisak, Winter, Remko T., Alfieri, Andrea, Forneris, Federico, van Berkels, Willem J. H., Chaiyen, Pimchai, Fraaije, Marco W., Mattevi, Andrea, McCammon, J. Andrew, and Eaton, William A.
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- 2009
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8. Flavoprotein oxidases: classification and applications
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Dijkman, Willem P., de Gonzalo, Gonzalo, Mattevi, Andrea, and Fraaije, Marco W.
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- 2013
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9. Biocatalytic Enantioselective Oxidation of Sec‐Allylic Alcohols with Flavin‐Dependent Oxidases.
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Gandomkar, Somayyeh, Jost, Etta, Loidolt, Doris, Swoboda, Alexander, Pickl, Mathias, Elaily, Wael, Daniel, Bastian, Fraaije, Marco W., Macheroux, Peter, and Kroutil, Wolfgang
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ALCOHOL oxidation ,OXIDASES ,KINETIC resolution ,DIMETHYL sulfoxide ,ALLYL alcohol ,FURFURAL - Abstract
The oxidation of allylic alcohols is challenging to perform in a chemo‐ as well as stereo‐selective fashion at the expense of molecular oxygen using conventional chemical protocols. Here, we report the identification of a library of flavin‐dependent oxidases including variants of the berberine bridge enzyme (BBE) analogue from Arabidopsis thaliana (AtBBE15) and the 5‐(hydroxymethyl)furfural oxidase (HMFO) and its variants (V465T, V465S, V465T/W466H and V367R/W466F) for the enantioselective oxidation of sec‐allylic alcohols. While primary and benzylic alcohols as well as certain sugars are well known to be transformed by flavin‐dependent oxidases, sec‐allylic alcohols have not been studied yet except in a single report. The model substrates investigated were oxidized enantioselectively in a kinetic resolution with an E‐value of up to >200. For instance HMFO V465S/T oxidized the (S)‐enantiomer of (E)‐oct‐3‐en‐2‐ol (1 a) and (E)‐4‐phenylbut‐3‐en‐2‐ol with E>200 giving the remaining (R)‐alcohol with ee>99% at 50% conversion. The enantioselectivity could be decreased if required by medium engineering by the addition of cosolvents (e. g. dimethyl sulfoxide). [ABSTRACT FROM AUTHOR]
- Published
- 2019
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10. Recent Developments in Flavin-Based Catalysis
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Brondani, Patricia B., Fraaije, Marco W., Gonzalo, Gonzalo de, Patel, Ramesh N., and Biotechnology
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chemistry.chemical_classification ,010405 organic chemistry ,Flavin-containing monooxygenases ,Chiral sulfoxides ,Flavin group ,010402 general chemistry ,01 natural sciences ,Combinatorial chemistry ,0104 chemical sciences ,Catalysis ,Artificial flavoenzymes ,Enzyme ,chemistry ,Green chemistry ,Flavoenzymes ,Oxidations ,Baeyer-Villiger monooxygenases ,Oxidases ,Styrene monooxygenases - Abstract
The synthesis of optically active sulfoxides, compounds due to their unique properties, has been a main target for synthetic organic chemistry. Recent efforts in the field of biocatalysis have allowed the preparation of enantiopure sulfoxides starting from the corresponding sulfides while using relatively mild conditions. In fact, several different types of redox biocatalysts have been found that can catalyze enantio- and/or regioselective sulfoxidations. The most promising group of enzymes able to perform selective sulfoxidations is the flavin-containing monooxygenases (FMOs). Enzymes containing a flavin cofactor have already been widely studied and used in organic synthesis, especially in reduction and/or oxidation processes. This chapter highlights the recent efforts in the preparation of chiral sulfoxides catalyzed by different types of flavoenzymes, with special attention to the parameters that can improve their catalytic properties. Novel approaches that allow performing selective sulfoxidations in which modified flavin systems are used are also discussed.
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- 2016
11. Creating a more robust 5‑hydroxymethylfurfural oxidase by combining computational predictions with a novel effective library design.
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Martin, Caterina, Maqueo, Amaury Ovalle, Wijma, Hein J., and Fraaije, Marco W.
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OXIDASES ,OXIDATION ,ENZYMES ,PROTEINS ,GENETIC mutation - Abstract
Background: HMF oxidase (HMFO) from Methylovorus sp. is a recently characterized flavoprotein oxidase. HMFO is a remarkable enzyme as it is able to oxidize 5-hydroxymethylfurfural (HMF) into 2,5-furandicarboxylic acid (FDCA): a catalytic cascade of three oxidation steps. Because HMF can be formed from fructose or other sugars and FDCA is a polymer building block, this enzyme has gained interest as an industrially relevant biocatalyst. Results: To increase the robustness of HMFO, a requirement for biotechnological applications, we decided to enhance its thermostability using the recently developed FRESCO method: a computational approach to identify thermostabilizing mutations in a protein structure. To make this approach even more effective, we now developed a new and facile gene shuffling approach to rapidly combine stabilizing mutations in a one-pot reaction. This allowed the identification of the optimal combination of seven beneficial mutations. The created thermostable HMFO mutant was further studied as a biocatalyst for the production of FDCA from HMF and was shown to perform significantly better than the original HMFO. Conclusions: The described new gene shuffling approach quickly discriminates stable and active multi-site variants. This makes it a very useful addition to FRESCO. The resulting thermostable HMFO variant tolerates the presence of cosolvents and also remained thermotolerant after introduction of additional mutations aimed at improving the catalytic activity. Due to its stability and catalytic efficiency, the final HMFO variant appears to be a promising candidate for industrial scale production of FDCA from HMF. [ABSTRACT FROM AUTHOR]
- Published
- 2018
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12. Rational Engineering of a Flavoprotein Oxidase for Improved Direct Oxidation of Alcohols to Carboxylic Acids.
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Pickl, Mathias, Winkler, Christoph K., Glueck, Silvia M., Fraaije, Marco W., and Faber, Kurt
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FLAVOPROTEINS ,CARBOXYLIC acids ,OXIDASES ,ALCOHOL oxidation ,BIOCATALYSIS - Abstract
The oxidation of alcohols to the corresponding carbonyl or carboxyl compounds represents a convenient strategy for the selective introduction of electrophilic carbon centres into carbohydrate-based starting materials. The O
2 -dependent oxidation of prim-alcohols by flavin-containing alcohol oxidases often yields mixtures of aldehyde and carboxylic acid, which is due to "over-oxidation" of the aldehyde hydrate intermediate. In order to directly convert alcohols into carboxylic acids, rational engineering of 5-(hydroxymethyl)furfural oxidase was performed. In an attempt to improve the binding of the aldehyde hydrate in the active site to boost aldehyde-oxidase activity, two active-site residues were exchanged for hydrogen-bond-donating and -accepting amino acids. Enhanced over-oxidation was demonstrated and Michaelis-Menten kinetics were performed to corroborate these findings. [ABSTRACT FROM AUTHOR]- Published
- 2017
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13. Enzyme-Catalyzed Oxidation of 5-Hydroxymethylfurfural to Furan-2,5-dicarboxylic Acid.
- Author
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Dijkman, Willem P., Groothuis, Daphne E., and Fraaije, Marco W.
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HYDROXYMETHYLFURFURAL ,DICARBOXYLIC acids ,FURANS ,HYDROXYMETHYL compounds ,POLYMERS ,OXIDASES ,ALDEHYDES - Abstract
Furan-2,5-dicarboxylic acid (FDCA) is a biobased platform chemical for the production of polymers. In the past few years, numerous multistep chemical routes have been reported on the synthesis of FDCA by oxidation of 5-hydroxymethylfurfural (HMF). Recently we identified an FAD-dependent enzyme which is active towards HMF and related compounds. This oxidase has the remarkable capability of oxidizing [5-(hydroxymethyl)furan-2-yl]methanol to FDCA, a reaction involving four consecutive oxidations. The oxidase can produce FDCA from HMF with high yield at ambient temperature and pressure. Examination of the underlying mechanism shows that the oxidase acts on alcohol groups only and depends on the hydration of aldehydes for the oxidation reaction required to form FDCA. [ABSTRACT FROM AUTHOR]
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- 2014
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14. Export of functional Streptomyces coelicolor alditol oxidase to the periplasm or cell surface of Escherichia coli and its application in whole-cell biocatalysis.
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Van Bloois, Edwin, T. Winter, Remko, Janssen, Dick B., and Fraaije, Marco W.
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STREPTOMYCES coelicolor ,OXIDASES ,CELL membranes ,ESCHERICHIA coli ,FLAVOPROTEINS ,SORBITOL ,XYLITOL ,ENZYMES ,CATALYSIS ,BIOLOGICAL transport - Abstract
Streptomyces coelicolor A3(2) alditol oxidase (AldO) is a soluble monomeric flavoprotein in which the flavin cofactor is covalently linked to the polypeptide chain. AldO displays high reactivity towards different polyols such as xylitol and sorbitol. These characteristics make AldO industrially relevant, but full biotechnological exploitation of this enzyme is at present restricted by laborious and costly purification steps. To eliminate the need for enzyme purification, this study describes a whole-cell AldO biocatalyst system. To this end, we have directed AldO to the periplasm or cell surface of Escherichia coli. For periplasmic export, AldO was fused to endogenous E. coli signal sequences known to direct their passenger proteins into the SecB, signal recognition particle (SRP), or Twin-arginine translocation (Tat) pathway. In addition, AldO was fused to an ice nucleation protein (INP)-based anchoring motif for surface display. The results show that Tat-exported AldO and INP-surface-displayed AldO are active. The Tat-based system was successfully employed in converting xylitol by whole cells, whereas the use of the INP-based system was most likely restricted by lipopolysaccharide LPS in wild-type cells. It is anticipated that these whole-cell systems will be a valuable tool for further biological and industrial exploitation of AldO and other cofactor-containing enzymes. [ABSTRACT FROM AUTHOR]
- Published
- 2009
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15. Identification of a Gatekeeper Residue That Prevents Dehydrogenases from Acting as Oxidases.
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Leferink, Nicole G. H., Fraaije, Marco W., Joosten, Henk-Jan, Schaap, Peter J., Mattevi, Andrea, and van Berkel, Willem J. H.
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DEHYDROGENASES , *PHOTOSYNTHETIC oxygen evolution , *OXIDASES , *AMINE oxidase , *CYTOCHROMES - Abstract
The oxygen reactivity of flavoproteins is poorly understood. Here we show that a single Ala to Gly substitution in L-galactono-γ-lactone dehydrogenase (GALDH) turns the enzyme into a catalytically competent oxidase. GALDH is an aldonolactone oxidoreductase with a vanillyl-alcohol oxidase (VAO) fold. We found that nearly all oxidases in the VAO family contain either a Gly or a Pro at a structurally conserved position near the C4a locus of the isoalloxazine moiety of the flavin, whereas dehydrogenases prefer another residue at this position. Mutation of the corresponding residue in GALDH (Ala-113 → Gly) resulted in a striking 400-fold increase in oxygen reactivity, whereas the cytochrome c reductase activity is retained. The activity of the A113G variant shows a linear dependence on oxygen concentration (kox = 3.5 × 105 M-1 S-1), similar to most other flavoprotein oxidases. The Ala-113 → Gly replacement does not change the reduction potential of the flavin but creates space for molecular oxygen to react with the reduced flavin. In the wild-type enzyme, Ala-113 acts as a gatekeeper, preventing oxygen from accessing the isoalloxazine nucleus. The presence of such an oxygen access gate seems to be a key factor for the prevention of oxidase activity within the VAO family and is absent in members that act as oxidases. [ABSTRACT FROM AUTHOR]
- Published
- 2009
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16. Covalent flavinylation of vanillyl-alcohol oxidase is an autocatalytic process.
- Author
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Jianfeng Jin, Mazon, Hortense, van den Heuvel, Robert H. H., Heck, Albert J., Janssen, Dick B., and Fraaije, Marco W.
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OXIDASES ,ENZYME analysis ,ESCHERICHIA coli ,ENTEROBACTERIACEAE ,ALCOHOLS (Chemical class) - Abstract
Vanillyl-alcohol oxidase (VAO; EC 1.1.3.38) contains a covalently 8α-histidyl bound FAD, which represents the most frequently encountered covalent flavin–protein linkage. To elucidate the mechanism by which VAO covalently incorporates the FAD cofactor, apo VAO was produced by using a riboflavin auxotrophic Escherichia coli strain. Incubation of apo VAO with FAD resulted in full restoration of enzyme activity. The rate of activity restoration was dependent on FAD concentration, displaying a hyperbolic relationship ( K
FAD = 2.3 μm, kactivation = 0.13 min−1 ). The time-dependent increase in enzyme activity was accompanied by full covalent incorporation of FAD, as determined by SDS/PAGE and ESI-MS analysis. The results obtained show that formation of the covalent flavin–protein bond is an autocatalytic process, which proceeds via a reduced flavin intermediate. Furthermore, ESI-MS experiments revealed that, although apo VAO mainly exists as monomers and dimers, FAD binding promotes the formation of VAO dimers and octamers. Tandem ESI-MS experiments revealed that octamerization is not dependent on full covalent flavinylation. [ABSTRACT FROM AUTHOR]- Published
- 2008
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17. Discovery and characterization of a putrescine oxidase from Rhodococcus erythropolis NCIMB 11540.
- Author
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van Hellemond, Erik W., Van Dijk, Marianne, Heuts, Dominic P. H. M., Janssen, Dick B., and Fraaije, Marco W.
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PUTRESCINE ,OXIDASES ,EXONS (Genetics) ,GENOMES ,ESCHERICHIA coli ,FLAVINS - Abstract
A gene encoding a putrescine oxidase (PuO
Rh , EC 1.4.3.10) was identified from the genome of Rhodococcus erythropolis NCIMB 11540. The gene was cloned in the pBAD vector and overexpressed at high levels in Escherichia coli. The purified enzyme was shown to be a soluble dimeric flavoprotein consisting of subunits of 50 kDa and contains non-covalently bound flavin adenine dinucleotide as a cofactor. From all substrates, the highest catalytic efficiency was found with putrescine ( KM = 8.2 μM, kcat = 26 s−1 ). PuORh accepts longer polyamines, while short diamines and monoamines strongly inhibit activity. PuORh is a reasonably thermostable enzyme with t1/2 at 50°C of 2 h. Based on the crystal structure of human monoamine oxidase B, we constructed a model structure of PuORh , which hinted to a crucial role of Glu324 for substrate binding. Mutation of this residue resulted in a drastic drop (five orders of magnitude) in catalytic efficiency. Interestingly, the mutant enzyme showed activity with monoamines, which are not accepted by wt-PuORh . [ABSTRACT FROM AUTHOR]- Published
- 2008
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18. Changing the substrate specificity of a chitooligosaccharide oxidase from Fusarium graminearum by model-inspired site-directed mutagenesis
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Heuts, Dominic P.H.M., Janssen, Dick B., and Fraaije, Marco W.
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MUTAGENESIS ,OXIDATION ,OXIDASES ,OLIGOSACCHARIDES - Abstract
Abstract: Chitooligosaccharide oxidase (ChitO) catalyzes the oxidation of C1 hydroxyl moieties on chitooligosaccharides and in this way displays a different substrate preference as compared to other known oligosaccharide oxidases. ChitO was identified in the genome of Fusarium graminearum and a structural model revealed that one active site residue (Q268) was likely to be involved in the recognition of the N-acetyl moiety on the chitooligosaccharide substrates. The substrate specificity of wild type ChitO and the Q268R mutant were examined and confirmed that Q268 is indeed involved in N-acetyl recognition. [Copyright &y& Elsevier]
- Published
- 2007
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19. Discovery of a eugenol oxidase from Rhodococcus sp. strain RHA1.
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Jianfeng Jin, Mazon, Hortense, van den Heuvel, Robert H. H., Janssen, Dick B., and Fraaije, Marco W.
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OXIDASES ,AMINO acid sequence ,PENICILLIUM ,ESCHERICHIA coli ,AROMATIC compounds - Abstract
A gene encoding a eugenol oxidase was identified in the genome from Rhodococcus sp. strain RHA1. The bacterial FAD-containing oxidase shares 45% amino acid sequence identity with vanillyl alcohol oxidase from the fungus Penicillium simplicissimum. Eugenol oxidase could be expressed at high levels in Escherichia coli, which allowed purification of 160 mg of eugenol oxidase from 1 L of culture. Gel permeation experiments and macromolecular MS revealed that the enzyme forms homodimers. Eugenol oxidase is partly expressed in the apo form, but can be fully flavinylated by the addition of FAD. Cofactor incorporation involves the formation of a covalent protein–FAD linkage, which is formed autocatalytically. Modeling using the vanillyl alcohol oxidase structure indicates that the FAD cofactor is tethered to His390 in eugenol oxidase. The model also provides a structural explanation for the observation that eugenol oxidase is dimeric whereas vanillyl alcohol oxidase is octameric. The bacterial oxidase efficiently oxidizes eugenol into coniferyl alcohol ( K
M = 1.0 µm, kcat = 3.1 s−1 ). Vanillyl alcohol and 5-indanol are also readily accepted as substrates, whereas other phenolic compounds (vanillylamine, 4-ethylguaiacol) are converted with relatively poor catalytic efficiencies. The catalytic efficiencies with the identified substrates are strikingly different when compared with vanillyl alcohol oxidase. The ability to efficiently convert eugenol may facilitate biotechnological valorization of this natural aromatic compound. [ABSTRACT FROM AUTHOR]- Published
- 2007
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20. Covalent flavinylation enhances the oxidative power of vanillyl-alcohol oxidase
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Fraaije, Marco W., van den Heuvel, Robert H.H., Mattevi, Andrea, and van Berkel, Willem J.H.
- Subjects
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OXIDASES , *FLAVOPROTEINS , *PHENOLS , *SITE-specific mutagenesis - Abstract
Vanillyl-alcohol oxidase (VAO) from Penicillium simplicissimum is an inducible flavoprotein that is active with a wide range of phenolic compounds. The enzyme is the prototype of a newly recognized family of structurally related oxidoreductases, whose members share a conserved FAD-binding domain. The flavin cofactor in VAO is covalently linked to His422 of the cap domain. Studies from His422 variants revealed that deletion of the histidyl–flavin bond does not result in any significant structural change. However, the covalent interaction increases the redox potential of the flavin, facilitating substrate oxidation. His61, located in the FAD-binding domain, is involved in the autocatalytic process of covalent flavinylation. This could be nicely demonstrated by creating the H61T mutant enzyme which binds the flavin in a non-covalently mode. Similar to the noncovalent His422 variants, H61T is 10-fold less active than wild-type VAO. From this and the similar crystal structures of apo and holo H61T it is concluded that the FAD binds to a preorganized binding site where His61 activates His422 for autocatalytic flavinylation. [Copyright &y& Elsevier]
- Published
- 2003
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21. Enigmatic gratuitous induction of the covalent flavoprotein vanillyl-alcohol oxidase in...
- Author
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Fraaije, Marco W. and Pikkemaat, Mariel
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ENZYME induction , *OXIDASES - Abstract
Reports on the vanillyl-alcohol oxidase induction in Penicillium simplicissium. Highest induction during the growth phase; Additional intracellular catalase-peroxidase induction; Inhibitory effect of isoeugenol in P. simplicissium; Biochemical analysis; Essential role of P. simplicissium in methyl ether of p-cresol degradation.
- Published
- 1997
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22. Substrate specificity of flavin-dependent vanillyl-alcohol oxidase from Penicillium simplicissimum.
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Fraaije, Marco W., Veeger, Cees, and Van Berkel, Willem J.H.
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OXIDASES , *PENICILLIUM , *GLYCOLS , *CATECHOLAMINES , *ALCOHOL , *BIOCHEMISTRY - Abstract
Examines substrate specificity of flavin-dependent vanillyl-alcohol oxidase from Penicillium simplicissimum. Interaction of vanillyl-alcohol oxidase with 4-hydroxyphenylglycols and a series of catecholamines.
- Published
- 1995
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23. Kinetic mechanism of vanillyl-alcohol oxidase with short-chain 4-alkylphenols.
- Author
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Fraaije, Marco W., van den Heuvel, Robert H. H., Roelofs, Jules C. A. A., and van Berkel, Willem J. H.
- Subjects
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PHENOLS , *FLAVOPROTEINS , *OXIDASES - Abstract
The kinetic mechanism of vanillyl-alcohol oxidase with 4-methylphenol, 4-ethylphenol, 4-propylphenol and their Cα-deuterated analogs has been studied at pH 7.5 and 25 +C. Conversion of 4-methylphenol is extremely slow (0.005 s-1) while the enzyme is largely in the reduced form during turnover. 4-Ethylphenol and 4-propylphenol are readily converted while the enzyme is mainly in the oxidized form during turnover. The deuterium kinetic isotope effect for overall catalysis ranges between 7-10 whereas the intrinsic deuterium kinetic isotope effect for flavin reduction ranges over 9-10. With all three 4-alkylphenols, flavin reduction appeared to be a reversible process with the rate of reduction being in the same range as the rate for the reverse reaction. During the reductive half-reaction of vanillyl-alcohol oxidase with 4-ethylphenol and 4-propylphenol, a transient intermediate is formed with an absorbance maximum at 330 nm. This intermediate has been tentatively identified as the p-quinone methide of the aromatic substrate in complex with reduced enzyme. It is concluded that vanillyl-alcohol oxidase catalysis with 4ethylphenol and 4-propylphenol favors an ordered sequential binding mechanism in which the rate of flavin reduction determines the turnover rate while the reduced enzyme-p-quinone methide binary complex rapidly reacts with dioxygen. During the reaction of vanillyl-alcohol oxidase with 4-methylphenol, a fluorescent enzyme species is stabilized. Based on its spectal characteristics and crystallographic data [Mattevi, A., Fraaije, M. W., Mozzarelli, A., Olivi, L., Coda, A. & van Berkel, W. J. H. (1997) Structure 5, 907-920], it is proposed that this species represents a covalent 5-(4′-hydroxybenzyl)-FAD adduct. With 4-ethylphenol and 4-propylphenol, similar N5 flavin adducts may be formed but their rate of formation is too slow to be of catalytic relevance. [ABSTRACT FROM AUTHOR]
- Published
- 1998
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24. Positive Impact of Natural Deep Eutectic Solvents on the Biocatalytic Performance of 5-Hydroxymethyl-Furfural Oxidase.
- Author
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de Gonzalo, Gonzalo, Martin, Caterina, and Fraaije, Marco W.
- Subjects
EUTECTICS ,SOLVENTS ,BIOCATALYSIS ,CARBONYL compounds ,CARBOXYLIC acids ,ENZYMES - Abstract
Deep eutectic solvents (DESs) have been applied as cosolvents in various biocatalytic processes during recent years. However, their use in combination with redox enzymes has been limited. In this study, we have explored the beneficial effects of several DES as cosolvents on the performance of 5-hydroxymethylfurfural oxidase (HMFO), a valuable oxidative enzyme for the preparation of furan-2,5-dicarboxylic acid (FDCA), and other compounds, such as carbonyl compounds and carboxylic acids. The use of natural DESs, based on glucose and fructose, was found to have a positive effect. Higher conversions are obtained for the synthesis of several oxidized compounds, including FDCA. Depending on the type of DES, the stability of HMFO could be significantly improved. As the use of DES increases the solubility of many substrates while they only mildly affect dioxygen solubility, this study demonstrates that biocatalysis based on HMFO and other redox biocatalysts can benefit from a carefully selected DES. [ABSTRACT FROM AUTHOR]
- Published
- 2020
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25. Crystallization and preliminary X-ray analysis of an alditol oxidase from Streptomyces coelicolor A3(2).
- Author
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Forneris, Federico, Rovida, Stefano, Heuts, Dominic P. H. M., Fraaije, Marco W., and Mattevi, Andrea
- Subjects
CRYSTALLIZATION ,OXIDASES ,STREPTOMYCES coelicolor ,CRYSTALS ,ENZYMES ,ALDOSE reductase - Abstract
Alditol oxidase is a 45 kDa enzyme containing a covalently bound FAD cofactor. This oxidase efficiently oxidizes a range of alditols to the corresponding aldoses. Owing to its substrate range and regioselectivity, this enzyme is an interesting candidate for biotechnological applications. Crystals of alditol oxidase from Streptomyces coelicolor A3(2) were obtained by the hanging-drop vapour-diffusion method and diffracted to 1.1 Å resolution. The crystals belong to space group C2, with unit-cell parameters a = 107, b = 68, c = 58 Å, β = 94°. Crystals of seleno-l-methionine-labelled alditol oxidase were obtained after seeding the crystallization drops with native microcrystals and showed a diffraction limit of 2.4 Å. [ABSTRACT FROM AUTHOR]
- Published
- 2006
- Full Text
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26. Vanillyl alcohol oxidase from Diplodia corticola: Residues Ala420 and Glu466 allow for efficient catalysis of syringyl derivatives.
- Author
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Eggerichs, Daniel, Weindorf, Nils, Mascotti, Maria Laura, Welzel, Natalie, Fraaije, Marco W., and Tischler, Dirk
- Subjects
- *
BENZYL ethers , *CATALYSIS , *OXIDASES , *ALCOHOL , *ENZYMES - Abstract
Vanillyl alcohol oxidases (VAOs) belong to the 4-phenol oxidases family and are found predominantly in lignindegrading ascomycetes. Systematical investigation of the enzyme family at the sequence level resulted in discovery and characterization of the second recombinantly produced VAO member, DcVAO, from Diplodia corticola. Remarkably high activities for 2,6-substituted substrates like 4-allyl-2,6-dimethoxy-phenol (3.5 ± 0.02 U mg-1) or 4-(hydroxymethyl)- 2,6-dimethoxyphenol (6.3 ± 0.5 U mg-1) were observed, which could be attributed to a Phe to Ala exchange in the catalytic center. In order to rationalize this rare substrate preference among VAOs, we resurrected and characterized three ancestral enzymes and performed mutagenesis analyses. The results indicate that a Cys/Glu exchange was required to retain activity for ?-hydroxylations and shifted the acceptance towards benzyl ethers (up to 4.0 ± 0.1 U mg-1). Our findings contribute to the understanding of the functionality of VAO enzyme group, and with DcVAO, we add a new enzyme to the repertoire of ether cleaving biocatalysts. [ABSTRACT FROM AUTHOR]
- Published
- 2023
- Full Text
- View/download PDF
27. Enantioselective oxidation of secondary alcohols by the flavoprotein alcohol oxidase from Phanerochaete chrysosporium.
- Author
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Tjallinks, Gwen, Martin, Caterina, and Fraaije, Marco W.
- Subjects
- *
PHANEROCHAETE chrysosporium , *STACKING interactions , *ALCOHOL oxidation , *ELECTROPHILES , *KINETIC resolution , *OXIDASES - Abstract
The enantioselective oxidation of secondary alcohols represents a valuable approach for the synthesis of optically pure compounds. Flavoprotein oxidases can catalyse such selective transformations by merely using oxygen as electron acceptor. While many flavoprotein oxidases preferably act on primary alcohols, the FAD-containing alcohol oxidase from Phanerochaete chrysosporium was found to be able to perform kinetic resolutions of several secondary alcohols. By selective oxidation of the (S)-alcohols, the (R)-alcohols were obtained in high enantiopurity. In silico docking studies were carried out in order to substantiate the observed (S)-selectivity. Several hydrophobic and aromatic residues in the substrate binding site create a cavity in which the substrates can comfortably undergo van der Waals and pi-stacking interactions. Consequently, oxidation of the secondary alcohols is restricted to one of the two enantiomers. This study has uncovered the ability of an FAD-containing alcohol oxidase, that is known for oxidizing small primary alcohols, to perform enantioselective oxidations of various secondary alcohols. [ABSTRACT FROM AUTHOR]
- Published
- 2021
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28. Two tyrosine residues, Tyr-108 and Tyr-503, are responsible for the deprotonation of phenolic substrates in vanillyl-alcohol oxidase.
- Author
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Ewing, Tom A., Quoc-Thai Nguyen, Allan, Robert C., Gygli, Gudrun, Romero, Elvira, Binda, Claudia, Fraaije, Marco W., Mattevi, Andrea, and van Berkel, Willem J. H.
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TYROSINE , *PHENOLS , *CATALYSIS synthesis , *BIOCHEMISTRY , *OXIDASES - Abstract
A number of oxidoreductases from the VAO/para-cresol methylhydroxylase flavoprotein family catalyze the oxidation of para-substituted phenols. One of the best-studied is vanillyl-alcohol oxidase (VAO) from the fungus Penicillium simplicissimum. For oxidation of phenols by VAO to occur, they must first be bound in the active site of the enzyme in their phenolate anion form. The crystal structure of VAO reveals that two tyrosine residues, Tyr-108 and Tyr-503, are positioned to facilitate this deprotonation. To investigate their role in catalysis, we created three VAO variants, Y108F, Y503F, and Y108F/Y503F, and studied their biochemical properties. Steady-state kinetics indicated that the presence of at least one of the tyrosine residues is essential for efficient catalysis by VAO. Stopped-flow kinetics revealed that the reduction of VAO by chavicol or vanillyl alcohol occurs at two different rates: kobs1, which corresponds to its reaction with the deprotonated form of the substrate, and kobs2, which corresponds to its reaction with the protonated form of the substrate. In Y108F, Y503F, and Y108F/Y503F, the relative contribution of kobs2 to the reduction is larger than in wild-type VAO, suggesting deprotonation is impaired in these variants. Binding studies disclosed that the competitive inhibitor isoeugenol is predominantly in its deprotonated form when bound to wild-type VAO, but predominantly in its protonated form when bound to the variants. These results indicate that Tyr-108 and Tyr-503 are responsible for the activation of substrates in VAO, providing new insights into the catalytic mechanism of VAO and related enzymes that oxidize para-substituted phenols. [ABSTRACT FROM AUTHOR]
- Published
- 2017
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- View/download PDF
29. Discovery of a Xylooligosaccharide Oxidase from Myceliophthora thermophila C1.
- Author
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Ferrari, Alessandro R., Rozeboom, Henriëtte J., Dobruchowska, Justyna M., van Leeuwen, Sander S., Vugts, Aniek S. C., Koetsier, Martijn J., Visser, Jaap, and Fraaije, Marco W.
- Subjects
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OXIDASES , *ASCOMYCETES , *PROTEOMICS , *PROTEIN expression , *CARBOHYDRATES - Abstract
By inspection of the predicted proteome of the fungus Myceliophthora thermophila C1 for vanillyl-alcohol oxidase (VAO)- type flavoprotein oxidases, a putative oligosaccharide oxidase was identified. By homologous expression and subsequent purification, the respective protein could be obtained. The protein was found to contain a bicovalently bound FAD cofactor. By screening a large number of carbohydrates, several mono- and oligosaccharides could be identified as substrates. The enzyme exhibits a strong substrate preference toward xylooligosaccharides; hence it is named xylooligosaccharide oxidase (XylO). Chemical analyses of the product formed upon oxidation of xylobiose revealed that the oxidation occurs at C1, yielding xylobionate as product. By elucidation of several XylO crystal structures (in complex with a substrate mimic, xylose, and xylobiose), the residues that tune the unique substrate specificity and regioselectivity could be identified. The discovery of this novel oligosaccharide oxidase reveals that the VAO-type flavoprotein family harbors oxidases tuned for specific oligosaccharides. The unique substrate profile of XylO hints at a role in the degradation of xylan-derived oligosaccharides by the fungus M. thermophila C1. [ABSTRACT FROM AUTHOR]
- Published
- 2016
- Full Text
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30. Structure-Based Redesign of Cofactor Binding in Putrescine Oxidase.
- Author
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Kopacz, Malgorzata M., Rovida, Stetano, van Duijn, Esther, Fraaije, Marco W., and Mattevi, Andrea
- Subjects
- *
PUTRESCINE , *OXIDASES , *RHODOCOCCUS , *FLAVOPROTEINS , *COENZYMES , *MONOAMINE oxidase , *STRUCTURAL analysis (Science) - Abstract
Putrescine oxidase (PuO) from Rhodococcus erythropolis is a soluble homodimeric flavoprotein, which oxidizes small aliphatic diamines. In this study, we report the crystal structures and cofactor binding properties of wild-type and mutant enzymes. From a structural viewpoint, PuO closely resembles the sequence-related human monoamine oxidases A and B. This similarity is striking in the flavin-binding site even if PuO does not covalently bind the cofactor as do the monoamine oxidases. A remarkable conserved feature is the cis peptide conformation of the Tyr residue whose conformation is important for substrate recognition in the active site cavity. The structure of PuO in complex with the reaction product reveals that Glu324 is crucial in recognizing the terminal amino group of the diamine substrate and explains the narrow substrate specificity of the enzyme. The structural analysis also provides clues for identification of residues that are responsible for the competitive binding of ADP versus FAD (50% of wild-type PuO monomers isolated are occupied by ADP instead of FAD). By replacing Pro15, which is part of the dinucleotide-binding domain, enzyme preparations were obtained that are almost 100% in the FAD-bound form. Furthermore, mutants have been designed and prepared that form a covalent 8α-S-cysteinyl-FAD linkage. These data provide new insights into the molecular basis for substrate recognition in amine oxidases and demonstrate that engineering of flavoenzymes to introduce covalent linkage with the cofactor is a possible route to develop more stable protein molecules, better suited for biocatalytic purposes. [ABSTRACT FROM AUTHOR]
- Published
- 2011
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- View/download PDF
31. Discovery, Characterization, and Kinetic Analysis of an Alditol Oxidase from Streptomyces coelicolor.
- Author
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Heuts, Dominic P. H. M., van Hellemond, Erik W., Janssen, Dick B., and Fraaije, Marco W.
- Subjects
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OXIDASES , *STREPTOMYCES coelicolor , *GENOMES , *ESCHERICHIA coli , *CARRIER proteins , *MALTOSE - Abstract
A gene encoding an alditol oxidase was found in the genome of Streptomyces coelicolor A3(2). This newly identified oxidase, AldO, was expressed at extremely high levels in Escherichia coli when fused to maltose-binding protein. AldO is a soluble monomeric flavoprotein with subunits of 45.1 kDa, each containing a covalently bound FAD cofactor. From sequence alignments with other flavoprotein oxidases, it was found that AldO contains a conserved histidine (His46) that is typically involved in covalent FAD attachment. Covalent FAD binding is not observed in the H46A AldO mutant, confirming its role in covalent attachment of the flavin cofactor. Steady-state kinetic analyses revealed that wild-type AldO is active with several polyols. The alditols xylitol (Km = 0.32 mMi, κcat = 13 s-1) and sorbitol (Km = 1.4 mM, κcat = 17 s-1) are the preferred substrates. From pre-steady-state kinetic analyses, using xylitol as substrate, it can be concluded that AldO mainly follows a ternary complex kinetic mechanism. Reduction of the flavin cofactor by xylitol occurs at a relatively high rate (99 s-1), after which a second kinetic event is observed, which is proposed to represent ring closure of the formed aldehyde product, yielding the hemiacetal of D-xylose. Reduced AldO readily reacts with molecular oxygen (1.7 × 105 M-1 s-1), which confirms that the enzyme represents a true flavoprotein oxidase. [ABSTRACT FROM AUTHOR]
- Published
- 2007
- Full Text
- View/download PDF
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