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  1. Article ; Online: Interactions of reactive sulfur species with metalloproteins.

    Domán, Andrea / Dóka, Éva / Garai, Dorottya / Bogdándi, Virág / Balla, György / Balla, József / Nagy, Péter

    Redox biology

    2023  Volume 60, Page(s) 102617

    Abstract: Reactive sulfur species (RSS) entail a diverse family of sulfur derivatives that have emerged as important effector molecules in ... ...

    Abstract Reactive sulfur species (RSS) entail a diverse family of sulfur derivatives that have emerged as important effector molecules in H
    MeSH term(s) Hydrogen Sulfide/metabolism ; Metalloproteins ; Hydrogen Peroxide ; Reactive Oxygen Species/metabolism ; Oxygen/metabolism ; Sulfur/metabolism
    Chemical Substances Hydrogen Sulfide (YY9FVM7NSN) ; Metalloproteins ; Hydrogen Peroxide (BBX060AN9V) ; Reactive Oxygen Species ; Oxygen (S88TT14065) ; Sulfur (70FD1KFU70)
    Language English
    Publishing date 2023-01-27
    Publishing country Netherlands
    Document type Review ; Journal Article
    ZDB-ID 2701011-9
    ISSN 2213-2317 ; 2213-2317
    ISSN (online) 2213-2317
    ISSN 2213-2317
    DOI 10.1016/j.redox.2023.102617
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  2. Article ; Online: Measuring Reactive Sulfur Species and Thiol Oxidation States: Challenges and Cautions in Relation to Alkylation-Based Protocols.

    Nagy, Péter / Dóka, Éva / Ida, Tomoaki / Akaike, Takaaki

    Antioxidants & redox signaling

    2020  Volume 33, Issue 16, Page(s) 1174–1189

    Abstract: Significance: ...

    Abstract Significance:
    MeSH term(s) Alkylation ; Cysteine/metabolism ; Humans ; Hydrogen Sulfide/metabolism ; Metabolic Networks and Pathways ; Oxidation-Reduction ; Reactive Oxygen Species/metabolism ; Signal Transduction ; Sulfhydryl Compounds/metabolism ; Sulfur/metabolism
    Chemical Substances Reactive Oxygen Species ; Sulfhydryl Compounds ; Sulfur (70FD1KFU70) ; Cysteine (K848JZ4886) ; Hydrogen Sulfide (YY9FVM7NSN)
    Language English
    Publishing date 2020-07-30
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 1483836-9
    ISSN 1557-7716 ; 1523-0864
    ISSN (online) 1557-7716
    ISSN 1523-0864
    DOI 10.1089/ars.2020.8077
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    In stock of ZB MED Cologne/Königswinter

    Zs.A 5488: Show issues Location:
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  3. Article ; Online: Modeling Studies of Inhomogeneity Effects during Laser Flash Photolysis Experiments: A Reaction-Diffusion Approach.

    Dóka, Éva / Lente, Gábor

    The journal of physical chemistry. A

    2017  Volume 121, Issue 14, Page(s) 2740–2747

    Abstract: This work presents a rigorous mathematical study of the effect of unavoidable inhomogeneities in laser flash photolysis experiments. There are two different kinds of inhomegenities: the first arises from diffusion, whereas the second one has geometric ... ...

    Abstract This work presents a rigorous mathematical study of the effect of unavoidable inhomogeneities in laser flash photolysis experiments. There are two different kinds of inhomegenities: the first arises from diffusion, whereas the second one has geometric origins (the shapes of the excitation and detection light beams). Both of these are taken into account in our reported model, which gives rise to a set of reaction-diffusion type partial differential equations. These equations are solved by a specially developed finite volume method. As an example, the aqueous reaction between the sulfate ion radical and iodide ion is used, for which sufficiently detailed experimental data are available from an earlier publication. The results showed that diffusion itself is in general too slow to influence the kinetic curves on the usual time scales of laser flash photolysis experiments. However, the use of the absorbances measured (e.g., to calculate the molar absorption coefficients of transient species) requires very detailed mathematical consideration and full knowledge of the geometrical shapes of the excitation laser beam and the separate detection light beam. It is also noted that the usual pseudo-first-order approach to evaluating the kinetic traces can be used successfully even if the usual large excess condition is not rigorously met in the reaction cell locally.
    Language English
    Publishing date 2017-04-13
    Publishing country United States
    Document type Journal Article
    ISSN 1520-5215
    ISSN (online) 1520-5215
    DOI 10.1021/acs.jpca.7b00443
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  4. Article ; Online: ProPerDP: A Protein Persulfide Detection Protocol.

    Dóka, Éva / Arnér, Elias S J / Schmidt, Edward E / Nagy, Péter

    Methods in molecular biology (Clifton, N.J.)

    2019  Volume 2007, Page(s) 51–77

    Abstract: Persulfide or polysulfide formation on Cys residues is emerging as an abundant protein posttranslational modification, with important regulatory functions. However, as many other Cys oxidative modifications, per- and polysulfides are relatively labile, ... ...

    Abstract Persulfide or polysulfide formation on Cys residues is emerging as an abundant protein posttranslational modification, with important regulatory functions. However, as many other Cys oxidative modifications, per- and polysulfides are relatively labile, dynamically interchanging species, which makes their intracellular detections challenging. Here we report our recently developed highly selective method, Protein Persulfide Detection Protocol (ProPerDP), which can detect protein per- and polysulfide species in isolated protein systems, in blood plasma, or in cells and tissue samples. The method is easy to use and relatively inexpensive and requires only readily commercially available reagents. The biggest advantage of ProPerDP compared to other previously published persulfide detecting methods is the fact that in this protocol, all thiol and persulfide species are appropriately alkylated before any cell lysis step. This greatly reduces the potential of detecting lysis-induced oxidation-driven artifact persulfide formation.
    MeSH term(s) Humans ; Hydrogen Sulfide/metabolism ; Oxidation-Reduction ; Protein Processing, Post-Translational ; Serum Albumin, Human/analysis ; Serum Albumin, Human/chemistry ; Serum Albumin, Human/metabolism ; Sulfides/analysis ; Sulfides/metabolism
    Chemical Substances Sulfides ; persulfides ; polysulfide (9080-49-3) ; Hydrogen Sulfide (YY9FVM7NSN) ; Serum Albumin, Human (ZIF514RVZR)
    Language English
    Publishing date 2019-05-22
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ISSN 1940-6029
    ISSN (online) 1940-6029
    DOI 10.1007/978-1-4939-9528-8_5
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  5. Article ; Online: Stochastic mapping of the Michaelis-Menten mechanism.

    Dóka, Éva / Lente, Gábor

    The Journal of chemical physics

    2012  Volume 136, Issue 5, Page(s) 54111

    Abstract: The Michaelis-Menten mechanism is an extremely important tool for understanding enzyme-catalyzed transformation of substrates into final products. In this work, a computationally viable, full stochastic description of the Michaelis-Menten kinetic scheme ... ...

    Abstract The Michaelis-Menten mechanism is an extremely important tool for understanding enzyme-catalyzed transformation of substrates into final products. In this work, a computationally viable, full stochastic description of the Michaelis-Menten kinetic scheme is introduced based on a stochastic equivalent of the steady-state assumption. The full solution derived is free of restrictions on amounts of substance or parameter values and is used to create stochastic maps of the Michaelis-Menten mechanism, which show the regions in the parameter space of the scheme where the use of the stochastic kinetic approach is inevitable. The stochastic aspects of recently published examples of single-enzyme kinetic studies are analyzed using these maps.
    MeSH term(s) Algorithms ; Catalysis ; Enzymes ; Kinetics ; Models, Biological
    Chemical Substances Enzymes
    Language English
    Publishing date 2012-02-07
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 3113-6
    ISSN 1089-7690 ; 0021-9606
    ISSN (online) 1089-7690
    ISSN 0021-9606
    DOI 10.1063/1.3681942
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  6. Article ; Online: Kinetic and thermodynamic studies on the disulfide-bond reducing potential of hydrogen sulfide.

    Vasas, Anita / Dóka, Éva / Fábián, István / Nagy, Péter

    Nitric oxide : biology and chemistry

    2015  Volume 46, Page(s) 93–101

    Abstract: The significance of persulfide species in hydrogen sulfide biology is increasingly recognized. However, the molecular mechanisms of their formation remain largely elusive. The obvious pathway of the reduction of biologically abundant disulfide moieties ... ...

    Abstract The significance of persulfide species in hydrogen sulfide biology is increasingly recognized. However, the molecular mechanisms of their formation remain largely elusive. The obvious pathway of the reduction of biologically abundant disulfide moieties by sulfide was challenged on both thermodynamic and kinetic grounds. Using DTNB (5,5'-dithiobis-(2-nitrobenzoic acid), also known as Ellman's reagent) as a model disulfide we conducted a comprehensive kinetic study for its reaction with sulfide. The bimolecular reaction is relatively fast with a second-order rate constant of 889 ± 12 M(-1)s(-1) at pH = 7.4. pH dependence of the rate law revealed that the reaction proceeds via the bisulfide anion species with an initial nucleophilic thiol-disulfide exchange reaction to give 5-thio-2-nitrobenzoic acid (TNB) and TNB-persulfide with a pH independent second-order rate constant of 1090 ± 12 M(-1)s(-1). However, kinetic studies and stoichiometric analyses in a wide range of reactant ratios together with kinetic simulations revealed that it is a multistep process that proceeds via kinetically driven, practically irreversible reactions along the disulfide → persulfide → inorganic polysulfides axis. The kinetic model postulated here, which is fully consistent with the experimental data, suggests that the TNB-persulfide is further reduced by sulfide with a second-order rate constant in the range of 5 × 10(3) - 5 × 10(4) M(-1)s(-1) at pH 7.4 and eventually yields inorganic polysulfides and TNB. The reactions of cystine and GSSG with sulfide were found to be significantly slower and to occur via more complicated reaction schemes. (1)H NMR studies suggest that these reactions also generate Cys-persulfide and inorganic polysulfide species, but in contrast with DTNB, in consecutive equilibrium processes that are sensitive to changes in the reactant and product ratios. Collectively, our results demonstrate that the reaction of disulfides with sulfide is a highly system specific process from both thermodynamic and kinetic aspects, which together with the considerable steady-state concentrations of the reactants in biological systems signifies physiological relevance.
    MeSH term(s) Disulfides/chemistry ; Dithionitrobenzoic Acid/chemistry ; Hydrogen Sulfide/chemistry ; Hydrogen-Ion Concentration ; Kinetics ; Oxidation-Reduction ; Thermodynamics
    Chemical Substances Disulfides ; Dithionitrobenzoic Acid (9BZQ3U62JX) ; Hydrogen Sulfide (YY9FVM7NSN)
    Language English
    Publishing date 2015-04-30
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 1362794-6
    ISSN 1089-8611 ; 1089-8603
    ISSN (online) 1089-8611
    ISSN 1089-8603
    DOI 10.1016/j.niox.2014.12.003
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    In stock of ZB MED Cologne/Königswinter

    Zs.A 4677: Show issues Location:
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  7. Article ; Online: Mechanism-based chemical understanding of chiral symmetry breaking in the Soai reaction. A combined probabilistic and deterministic description of chemical reactions.

    Dóka, Éva / Lente, Gábor

    Journal of the American Chemical Society

    2011  Volume 133, Issue 44, Page(s) 17878–17881

    Abstract: The experimentally observed distribution of enantiomers in the Soai reaction is interpreted in this Article on the basis of a chemical mechanism using a newly developed stochastic kinetic method, accelerated Monte Carlo simulation combined with ... ...

    Abstract The experimentally observed distribution of enantiomers in the Soai reaction is interpreted in this Article on the basis of a chemical mechanism using a newly developed stochastic kinetic method, accelerated Monte Carlo simulation combined with deterministic continuation and symmetrization. The method is in principle suitable for handling large mechanisms with realistic particle numbers and could be useful for any case where the kinetics of a process shows inherent random fluctuations. The mechanism shows how a slow initial reaction combined with efficient and highly enantioselective autocatalysis can give rise to chiral symmetry breaking under completely nonchiral external conditions.
    Language English
    Publishing date 2011-11-09
    Publishing country United States
    Document type Journal Article
    ZDB-ID 3155-0
    ISSN 1520-5126 ; 0002-7863
    ISSN (online) 1520-5126
    ISSN 0002-7863
    DOI 10.1021/ja207408y
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    Z 4' 55/32: Show issues
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  8. Article ; Online: Kinetics of the autoxidation of sulfur(IV) co-catalyzed by peroxodisulfate and silver(I) ions.

    Dóka, Eva / Lente, Gábor / Fábián, István

    Dalton transactions (Cambridge, England : 2003)

    2014  Volume 43, Issue 25, Page(s) 9596–9603

    Abstract: The kinetics and mechanism of the reaction between dissolved oxygen and sulfur(iv) was studied in aqueous acidic medium using co-catalysts peroxodisulfate and silver(i) ions. The presence of both catalysts was required to observe measurable rates in the ... ...

    Abstract The kinetics and mechanism of the reaction between dissolved oxygen and sulfur(iv) was studied in aqueous acidic medium using co-catalysts peroxodisulfate and silver(i) ions. The presence of both catalysts was required to observe measurable rates in the studied process. The reaction rate was determined through following the UV-absorption of hydrated sulfur dioxide, and the trends were determined as a function of pH, reactant and catalyst concentrations. Individual kinetic curves under conditions where dissolved oxygen was the limiting reagent were close to zeroth-order. A chain mechanism with four chain carriers, sulfite, sulfate, peroxomonosulfate ion radical and silver(ii) ion, is proposed to interpret all the kinetic and stoichiometric findings, and an explicit formula was obtained for the rate law. The role of the co-catalysts is to produce chain carriers, whereas silver(i) and silver(ii) ions also participate in chain propagation steps. Further supporting evidence for the proposed mechanism was gained in laser flash photolysis studies, which showed that sulfate ion radical reacts quite rapidly with silver(i) ion.
    Language English
    Publishing date 2014-07-07
    Publishing country England
    Document type Journal Article
    ZDB-ID 1472887-4
    ISSN 1477-9234 ; 1364-5447 ; 0300-9246 ; 1477-9226
    ISSN (online) 1477-9234 ; 1364-5447
    ISSN 0300-9246 ; 1477-9226
    DOI 10.1039/c4dt00900b
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  9. Article ; Online: Aqueous photochemical reactions of chloride, bromide, and iodide ions in a diode-array spectrophotometer. Autoinhibition in the photolysis of iodide ions.

    Kalmár, József / Dóka, Éva / Lente, Gábor / Fábián, István

    Dalton transactions (Cambridge, England : 2003)

    2014  Volume 43, Issue 12, Page(s) 4862–4870

    Abstract: The aqueous photoreactions of three halide ions (chloride, bromide and iodide) were studied using a diode array spectrophotometer to drive and detect the process at the same time. The concentration and pH dependences of the halogen formation rates were ... ...

    Abstract The aqueous photoreactions of three halide ions (chloride, bromide and iodide) were studied using a diode array spectrophotometer to drive and detect the process at the same time. The concentration and pH dependences of the halogen formation rates were studied in detail. The experimental data were interpreted by improving earlier models where the cage complex of a halogen atom and an electron has a central role. The triiodide ion was shown to exert a strong inhibiting effect on the reaction sequence leading to its own formation. An assumed chemical reaction between the triiodide ion and the cage complex interpreted the strong autoinhibition effect. It is shown that there is a real danger of unwanted interference from the photoreactions of halide ions when halide salts are used as supporting electrolytes in spectrophotometric experiments using a relatively high intensity UV light source.
    Language English
    Publishing date 2014-03-28
    Publishing country England
    Document type Journal Article
    ZDB-ID 1472887-4
    ISSN 1477-9234 ; 1364-5447 ; 0300-9246 ; 1477-9226
    ISSN (online) 1477-9234 ; 1364-5447
    ISSN 0300-9246 ; 1477-9226
    DOI 10.1039/c3dt53255k
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  10. Article ; Online: Comment on "Evidence that the ProPerDP method is inadequate for protein persulfidation detection due to lack of specificity".

    Dóka, Éva / Arnér, Elias S J / Schmidt, Edward E / Dick, Tobias P / van der Vliet, Albert / Yang, Jing / Szatmári, Réka / Ditrói, Tamás / Wallace, John L / Cirino, Giuseppe / Olson, Kenneth / Motohashi, Hozumi / Fukuto, Jon M / Pluth, Michael D / Feelisch, Martin / Akaike, Takaaki / Wink, David A / Ignarro, Louis J / Nagy, Péter

    Science advances

    2021  Volume 7, Issue 17

    Abstract: The recent report by ... ...

    Abstract The recent report by Fan
    Language English
    Publishing date 2021-04-21
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't ; Research Support, N.I.H., Extramural
    ZDB-ID 2810933-8
    ISSN 2375-2548 ; 2375-2548
    ISSN (online) 2375-2548
    ISSN 2375-2548
    DOI 10.1126/sciadv.abe7006
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