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  • kinetics  (17)
  • molecular recognition  (16)
  • 1
    ISSN: 0947-6539
    Keywords: kinetics ; peroxyl radicals ; pulse radiolysis ; radicals ; superoxide radicals ; Chemistry ; General Chemistry
    Source: Wiley InterScience Backfile Collection 1832-2000
    Topics: Chemistry and Pharmacology
    Notes: Hydroxyl radicals were generated radiolytically and reacted with a number of benzene derivatives (PhH). In the presence of oxygen, the hydroxycyclohexadienyl radicals thus formed were converted into their corresponding peroxyl radicals. Pulse radiolysis has shown the oxygen addition (forward reaction, f) to be reversible (reverse reaction, r) [Eq. (1)]. The peroxyl radicals can eliminate HO2· to yield phenols, alongside some ring-fragmentation products (product-forming reaction, p). The rate constants for the forward and reverse reactions (kf and kr) and the corresponding stability constants K (= kf/kr) were determined for the hydroxy-cyclohexadienyl radicals derived from anisole, toluene, fluorobenzene, benzene, chlorobenzene, benzyl chloride, benzoate ion, phenylalanine, and terephthalate ion. The constants kf lie between 8 × 108 (anisole) and 1.6 × 107 dm3 mol-1 s-1 (terephthalate ion), and kr between 7.5 × 104 (toluene) and 3.4 × 103 s-1 (terephthalate ion). The stability constants lie between 2.6 × 104 (benzene) and 3.3 × 103 dm3 mol-1 (phenylalanine). The rate constants for the product-forming reactions kp are between 5.5 × 103 (anisole) and 3.4 × 102 s-1 (benzoate). For the peroxyl radical derived from phenylalanine, a bond dissociation energy of 5.5 kcal mol-1 has been derived. A number of hydroxy-cyclohexadienyl radicals (e.g., those derived from benzoic acid, ethylbenzoate, benzonitrile, and nitrobenzene) react too slowly to allow the equilibrium constant to be determined by means of pulse radiolysis. These reactions have rate constants kf in the order of 5 × 106 dm3 mol-1 s-1, except for nitrobenzene where the reaction is too slow for measurement. The rate constants kr are below 500 s-1, and the product-forming reaction is too slow to be detected by pulse radiolysis. γ-Radiolysis of N2O/O2(4:1)-saturated aqueous solutions of benzonitrile gave dimeric compounds (e.g., dicyanobiphenyls) in low yield, alongside the three isomeric phenols; this again proves the low reactivity of its hydroxycyclohexadienyl radical toward oxygen.
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  • 2
    ISSN: 0947-6539
    Keywords: exchange processes ; kinetics ; NMR spectroscopy ; zirconium complexes ; Chemistry ; General Chemistry
    Source: Wiley InterScience Backfile Collection 1832-2000
    Topics: Chemistry and Pharmacology
    Notes: We have shown that it is possible to inhibit the transfer of magnetization in a system with several exchanging sites in dynamic equilibrium, as in a mixture of cis- and trans-ZrCl4L2 with excess free ligand L (L = (CH3O)3PO). The forward and backward reaction rates involving two selected sites can be studied while the effect of competing exchange processes is “quenched”. This can be achieved either by selective inversion of the magnetization of the two chosen sites in the course of the reaction interval, or alternatively by inversion of the magnetization of all other sites in the exchange network. The rate of exchange from the free to the cis site was determined to be kcis←free = 0.018 s-1. In the usual methods, this process would tend to be overshadowed by the almost two hundred times faster competing exchange process from the cis to the trans site (Ktrans←cis = 3.32 s-1).
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  • 3
    ISSN: 0947-6539
    Keywords: copper proteins ; cross-reactions ; electron-transfer reactions ; kinetics ; metalloproteins ; Chemistry ; General Chemistry
    Source: Wiley InterScience Backfile Collection 1832-2000
    Topics: Chemistry and Pharmacology
    Notes: The electron self-exchange rate constant for the Type 1 blue copper protein umecyanin from horseradish roots has been determined as 6.1 × 103 M-1 S-1 at pH 7.5, I = 0.100 M, 25°C by an NMR line-broadening method. The value obtained is one of the lower self-exchange rate constants determined for this class of protein; this is attributed to the presence of positively charged residues near to the electron-transfer site. The self-exchange rate constants calculated by means of a Marcus analysis of data for the cross-reactions (25°C) of umecyanin with azurin and cytochrome c551 (both from Pseudomonas aeruginosa) are substantially less at 8.0M-1 S-1 and 13.9M-1S-1, respectively, and are independent of pH in the range 7.0-8.0, I = 0.100M. The discrepancy between the self-exchange rate constants obtained by these two different methods can be rationalised if it is assumed that umecyanin reacts with the two proteins employed in the cross-reaction studies through the same site, but that this site is different from that used for the self-exchange process. A comparison of the primary structure of umecyanin with those of other Type 1 copper proteins has revealed that a glutamine rather than a methionine is likely as the fourth ligand of Cu at the active site. Other comparisons are made with stellacyanin, and the electron-transfer reactivity of the two proteins is discussed.
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  • 4
    ISSN: 0947-6539
    Keywords: hydrogen bonds ; molecular recognition ; polyelectrolyte multilayers ; surface chemistry ; thin films ; Chemistry ; General Chemistry
    Source: Wiley InterScience Backfile Collection 1832-2000
    Topics: Chemistry and Pharmacology
    Notes: Functional polyanions were prepared by copolymerization of sulfopropyl acrylate and sulfopropyl methacrylate with monomers bearing triaminopyrimidine or barbituric acid functionalities, respectively. Functionalized polyelectrolyte multilayers were assembled from these copolymers by stepwise alternating adsorption with poly(choline methacrylate). These multilayers are suited for molecular recognition of substrates that are complementary to the functional groups incorporated. Thus, multilayers containing triaminopyrimidine moieties selectively bind barbituric acid, and vice versa, when exposed to solutions of the 1:1 complex of barbituric acid and triaminopyrimidine. The molecular recognition process was monitored by UV/Vis spectroscopy, time-of-flight secondary ion mass spectroscopy (ToF-SIMS), and photoelectron spectroscopy (XPS). Remarkably, after successful recognition and binding of the complementary substrates to the multilayers, the stepwise layering could be continued.
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  • 5
    ISSN: 0947-6539
    Keywords: cobalt ; cytochrome c ; electron transfer ; kinetics ; volume profile ; Chemistry ; General Chemistry
    Source: Wiley InterScience Backfile Collection 1832-2000
    Topics: Chemistry and Pharmacology
    Notes: The Kinetics and Thermodynamics of the Reversible Outer-Sphere Electron-Transfer Reactions between Horse Heart Cytochrome cII/III and [Co(phen)3]3+/2+ and [Co(bpy)3]3+/2+ were studied in detail, in particular as a function of temperature and pressure. It was possible to construct a volume profile for both reactions from the pressure data. The transition state was found to be halfway between the reactant and product states on a volume basis in all studied systems. This is in agreement with the λ≠ parameter estimated from the Marcus theory. For all the systems investigated, the differences in the activation volumes are in good agreement with the reaction volumes determined from spectrophotometric and electrochemical measurements at elevated pressure, and from the difference in the partial molar volumes of the metal complexes. The activation and reaction volumes of the bipyridine system are significantly smaller than those of the corresponding phenanthroline and terpyridine systems. A detailed mechanistic analysis is presented. The results show that the different kinetic and thermodynamic techniques employed complement one another.
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  • 6
    ISSN: 0947-6539
    Keywords: electron transfer ; indene ; kinetics ; rhodium ; Chemistry ; General Chemistry
    Source: Wiley InterScience Backfile Collection 1832-2000
    Topics: Chemistry and Pharmacology
    Notes: The reduction of the indenyl complex [Rh(η5-C9H7)(η4-cod)] has been investigated in the context of structural effects induced by the transfer of one electron. The reduction of this complex occurs in two steps, leading first to the radical anion and then to the highly frangible dianion. Both species eliminate the indenyl anion. In the presence of free cyclooctadiene, the related cleavage leading to the indenyl anion and bis-cyclooctadiene rhodium fragments now follows a Michaelis-Menten-type mechanism involving precoordination of one extra COD ligand to the initial radical anion. These results suggest the modification of the hapticity of the indenyl ligand in connection with 17- and 19-electron metalcentered intermediates.
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  • 7
    ISSN: 0947-6539
    Keywords: hydrogen bonds ; LFER ; molecular recognition ; NMR spectroscopy ; nucleobases ; thermodynamics ; Chemistry ; General Chemistry
    Source: Wiley InterScience Backfile Collection 1832-2000
    Topics: Chemistry and Pharmacology
    Notes: Association energies ΔGt in chloroform, in part also in carbon tetrachloride, were determined by NMR titrations of suitably substituted nucleosides and several synthetic analogues. Based on these and on many literature data, two simple free energy increments were derived describing the ΔGt values of 58 complexes within 1.8 kJ mol-1. With chloroform as solvent the increment for the primary interaction between donor and acceptor is 7.9 kJ mol-1, for the secondary one 2.9 kJ mol-1, irrespective of whether the latter is attractive or repulsive. Addition of only 1% methanol to CCl4 led to a decrease in association constants by a factor of 25. Calorimetric titrations of G-C nucleoside derivatives in CCl4 showed substantial contributions from G dimers, in line with NMR titrations, and surprisingly small decreases in entropy. Preliminary NOE measurements allowed us to single out some of the possible association modes; they are also in line with expected self- and triple-association modes of the nucleobases. These modes are generally in accord with nucleobase associations predicted by MM calculations in the literature, which in turn agree with predictions based solely on the increments derived in the present work.
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  • 8
    ISSN: 0947-6539
    Keywords: chemoselectivity ; enzyme inhibitors ; glycosidases ; kinetics ; pyridazines ; Chemistry ; General Chemistry
    Source: Wiley InterScience Backfile Collection 1832-2000
    Topics: Chemistry and Pharmacology
    Notes: (3,4-trans-4,5-trans)-4,5-dihydroxy-3-hydroxymethylhexahydropyrida-zine (16) was synthesized in four steps from 2,4-pentadienol (22) and 4-phenyl-triazolin-3,5-dione (18) in an overall yield of 32%. In the first step a Diels-Alder reaction between 18 and 22 gave (π)-2-hydroxymethyl-8-phenyl-1,6,8-triazabicyclo[4.3.0]non-3-ene-7,9-dione (23c) in 88% yield. Epoxidation of 23c with trifluoromethyl(methyl)dioxirane, generated in situ, gave the trans epoxide 24c in 62% yield. Hydrolysis of the epoxide with perchloric acid gave stereoselectively (2,3-trans-3,4-trans)-3,4-dihydroxy-2-hydroxy-methyl-8-phenyl-1,6,8-triazabicyclo[4.3.0]-nonane-7,9-dione (26) in 73% yield. In the fourth and final step, hydrazinolysis of 26 gave 16 in 84% yield. Pyridazine 16 was found to be a potent inhibitor of α-and β-glucosidase, isomaltase and glyco-gen phosphorylase, while galactosidases and α-mannosidase were not inhibited. The inhibition of β-glucosidase is independent of pH, and was found to be due to unprotonated 16.
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  • 9
    ISSN: 0947-6539
    Keywords: autocatalysis ; coiled coil ; kinetics ; peptides ; self-replication ; Chemistry ; General Chemistry
    Source: Wiley InterScience Backfile Collection 1832-2000
    Topics: Chemistry and Pharmacology
    Notes: A 32-residue α-helical peptide with a sequence similiar to that of the GCN4 leucine zipper region is shown to catalyze its own formation by accelerating the amide bond formation of a 17-residue peptide, preactivated as a thiobenzyl ester, and a 15-residue peptide with a N-terminal cysteine. The self-replication process displays parabolic growth characteristics as revealed by a detailed kinetic analysis. Control reactions with single-mutant peptides strongly support a mechanism in which a ternary and/or quaternary complex of the product with both peptide fragments act(s) as the catalytically active intermediate(s). Furthermore, these experiments reveal a remarkable sequence selectivity, as evidenced by the loss of autocatalytic activity as a result of a single replacement of leucine or valine residues with an alanine at the recognition interface.
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  • 10
    ISSN: 0947-6539
    Keywords: boronic acids ; heme proteins ; molecular recognition ; myoglobin ; saccharides ; Chemistry ; General Chemistry
    Source: Wiley InterScience Backfile Collection 1832-2000
    Topics: Chemistry and Pharmacology
    Notes: Phenylboronic acid groups as sugar recognition sites were successfully introduced into native myoglobin by a cofactor-reconstitution method. Spectrophotometric pH titration demonstrated the sugar-induced pKa shift of the H2O coordinated to the heme center of the semisynthetic myoglobin bearing phenyl-boronic acids (met-Mb(PhBOH)2). By means of circular dichroism (CD) and paramagnetic 1H NMR spectroscopies, it was proven that sugars that were bound to phenylboronic acid sites induced the rearrangement of the heme crevice to reinforce the heme cofactor-apoprotein interactions. The structural changes that were induced by the binding of sugars subsequently enhanced the dioxygen storage activity of Mb(PhBOH)2. Such sugar-induced structural and functional changes did not occur for other modified Mbs that had no sugar-recognition units. Interestingly, a randomly modified Mb with phenylboronic acid units did not show any sugar response. In Mb(PhBOH)2, the information from the sugar-binding event was efficiently transmitted to the active center, so that the activity was efficiently altered upon sugar binding. In conclusion, the active site specific incorporation of molecular recognition units as nonnatural functional molecules can provide a novel strategy for the design of stimuli-responsive semisynthetic proteins.
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