The deprotonation and protonation equilibria of a hypericin derivative in aqueous solution

Summary A hypericin derivative ,'-appended at the methyl groups with two polyethylene glycol moieties (about 23 units long) and capped with acetyl groups was synthesized starting from emodin. This derivative proved to be soluble in water and was investigated by means of spectrophotometric titrations and electrophoresis experiments. Deprotonation at thebay-region hydroxyl group was observed atpK _a=1.6. This was followed by a second deprotonation step of aperi-hydroxyl group at apK _a value of 9.4. This derivative could be protonated at the carbonyl group characterized by apK _a value of –5.7. FrompK _a determinations in water-ethanol mixtures the correspondingpK _a values of hypericin itself determined in such mixtures were extrapolated to the aqueous phase. This resulted in estimatedpK _a values of 1.8, 9.2, and –6.

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Deprotonierungs- und Protonierungsgleichgewichte eines Hypericinderivates in wäßriger Lösung

Zusammenfassung Ein an den Methylgruppen von Hypericin mit endständig acetylierten Polyethylenglykolketten (ungefähr 23 Einheiten lang) ,'-disubstituiertes Derivat wurde ausgehend von Emodin synthetisiert. Dieses Derivat ist wasserlöslich, und es wurde mit Hilfe von spektrophotometrischen Titrationen und Elektrophorese untersucht. Die Deprotonierung derbay-Hydroxylgruppe erfolgt beipK _a=1.6. Diese wird von einem zweiten Deprotonierungsschritt an einerperi-Hydroxylgruppe bei einempK _a-Wert von 9.4 gefolgt. Dieses Derivat konnte an der Carbonylgruppe protoniert werden, was durch einenpK _a-Wert von –5.7 charakterisiert ist. Ausgehend vonpK _a-Messungen in Wasser-Ethanol-Mischungen wurden die entsprechendenpK _a-Werte auch für das Hypericin selbst in wäßriger Phase extrapoliert. Dies führte zu geschätztenpK _a-Werten von 1.8, 9.2 und –6.

     

Effect of protonation and deprotonation on the gas-phase reactivity of fluorinated 1,2,4-triazines

Positive and negative electrospray mass spectrometry (MS), in-time and in-space MS(n) experiments, high-resolution and accurate mass measurements obtained with an Orbitrap, together with density functional theory calculations have been used to study the gas-phase ion chemistry of a series of fluorinated 1,2,4-triazines. As a result of low-energy collision-induced dissociations, occurring in an ion trap and in a triple quadrupole, their protonated and deprotonated molecules show interesting features depending on the nature and structure of the precursor ions. The occurrence of elimination/hydration reactions produced by positive ions in the ion trap is noteworthy. Decompositions of deprotonated molecules, initiated by elimination of a hydroxyl radical from [M-H](-), are dominated by radical anions. Theoretical calculations have allowed us to obtain information on atom sites involved in the protonation and deprotonation reactions.     

Protonation, deprotonation, and protonation: conjugated photochemical reactions of ferrocenylazophenol

4-Ferrocenylazophenol (FAP) and 8-(4-ferrocenylazophenoxy)octanyl-1-bromide (FAOB) have been synthesized and their protonation and photochemical behavior have been investigated. FAP showed reversible protonation and deprotonation behavior in the presence of trifluoroacetic acid and potassium tert-butylate, respectively. FAP and FAOB exhibit high photoreactivity, which was induced through excitation of not only the pi-pi* band by UV light but also the d-pi* band by green light. The photoreaction of FAP and FAOB in ethanol or acetonitrile with a trace amount of water afforded phenylhydrazonocyclopentadiene (PHP) derivatives, indicating that hydrolysis of the photoexcited species occurs.     

Distinguishing chromophore structures of photocycle intermediates of the photoreceptor PYP by transient fluorescence and energy transfer

The cinnamoyl chromophore is the light-activated switch of the photoreceptor photoactive yellow protein (PYP) and isomerizes during the functional cycle. The fluorescence of W119, the only tryptophan of PYP, is quenched by energy transfer to the chromophore. This depends on the chromophore's transition dipole moment orientation and spectrum, both of which change during the photocycle. The transient fluorescence of W119 thus serves as a sensitive kinetic monitor of the chromophore's structure and orientation and was used for the first time to investigate the photocycle kinetics. From these data and measurements of the ps-fluorescence decay with background illumination (470 nm) we determined the fluorescence lifetimes of W119 in the I(1) and I (1') intermediates. Two coexisting distinct chromophore structures were proposed for the I(1) photointermediate from time-resolved X-ray diffraction ( Ihee, H., et al. Proc. Natl. Acad. Sci. U.S.A., 2005, 102, 7145 ): one with two hydrogen bonds to E46 and Y42, and a second with only one H-bond to Y42 and a different orientation. Only for the first of these is the calculated fluorescence lifetime of 0.22 ns in good agreement with the observed one of 0.26 ns. The second structure has a predicted lifetime of 0.71 ns. Thus, we conclude that in solution only the first I(1) structure occurs. The high resolution structure of the I(1') intermediate, the decay product of I(1) at alkaline pH, is still unknown. We predict from the observed lifetime of 1.3 ns that the chromophore structure of I(1') is quite similar to that of the I(2) intermediate, and I(1') should thus be considered as the alkaline (deprotonated) form of I(2).     

The impact of protonation and deprotonation of 3-methyl-2'-deoxyadenosine on N-glycosidic bond cleavage

The enzyme-substrate contacts that are believed to be involved in depurination by proton transfer have been modelled by protonation and deprotonation of 3-methyl-2'-deoxyadenosine (3-MDA) using quantum mechanical calculations in the gas-phase and solution media. The change in the charge distribution on the sugar ring and nucleobase that is introduced by the protonation and deprotonation strongly affects the N-glycosidic bond length. The unimolecular cleavage and hydrolysis of the N-glycosidic bond, involving D(N)*A(N) and A(N)D(N) pathways, have been considered at several levels of theory. The trend in the energy barriers is A(N)D(N) > cleavage > D(N)*A(N). All probable proton transfer reactions resulting from enzyme-substrate contacts do not facilitate the N-glycosidic bond cleavage of 3-MDA. The deprotonation of 3-MDA that may result from the interaction between H6 and enzyme do not facilitate bond cleavage. The protonation at N7 induces more positive charge on the sugar ring and further facilitates the depurination relative to the protonation at N1. The changes in the charges calculated on the ribose and nucleobase are in good relationship with the C1'-C2', C1'-O4', and N-glycosidic bond lengths along the cleavage. The change in energy barrier ΔE of glycosidic bond cleavage from the gas-phase to solution media strongly depends on the charge of the species.     

Variable control of the electronic states of a silver nanocluster via protonation/deprotonation of polyoxometalate ligands

The properties of metal nanoclusters depend on both their structures and electronic states. However, in contrast to the significant advances achieved in the synthesis of structurally well-defined metal nanoclusters, systematic control of their electronic states is still challenging. In particular, stimuli-responsive and reversible control of the electronic states of metal nanoclusters is attractive from the viewpoint of their practical applications. Recently, we developed a synthesis method for atomically precise Ag nanoclusters using polyoxometalates (POMs) as inorganic ligands. Herein, we exploited the acid/base nature of POMs to reversibly change the electronic states of an atomically precise {Ag₂₇} nanocluster via protonation/deprotonation of the surrounding POM ligands. We succeeded in systematically controlling the electronic states of the {Ag₂₇} nanocluster by adding an acid or a base (0–6 equivalents), which was accompanied by drastic changes in the ultraviolet-visible absorption spectra of the nanocluster solutions. These results demonstrate the great potential of Ag nanoclusters for unprecedented applications in various fields such as sensing, biolabeling, electronics, and catalysis.

The electronic states of Ag nanoclusters were reversibly controlled driven by protonation/deprotonation of polyoxometalate ligands.     

Spectroscopic studies of the effects of salt addition in the protonation and deprotonation of emeraldine films

Emeraldine base films were treated with HClO₄ solutions of various concentrations, with and without the addition of NaClO₄. The protonation of the films was studied using angle-resolved x-ray photoelectron spectroscopy (XPS), Fourier transform infra-red (FTIR) absorption spectroscopy, and ultraviolet (UV)-visible absorption spectroscopy. The protonation level can be substantially increased by the presence of salt if sufficient time is allowed for the anions to migrate into the bulk of the film. Conversely, in the partial deprotonation of emeraldine salt films, a higher retention of anions is observed in the presence of salt, even though the effect is not as pronounced as in the protonation process. © 1995 John Wiley & Sons, Inc.     

transformation between diphosphinoamines and iminobiphosphines: a reversible P-N-P <--> N=P-P rearrangement triggered by protonation/deprotonation

The protonation of diphosphinoamines attached to pyridine at the ortho-position quantitatively affords the corresponding iminobiphosphine isomers. The starting material can be recovered quantitatively by deprotonation with base. The system represents a new type of molecular switch.     

Oxygen-evolving Mn cluster in photosystem II: the protonation pattern and oxidation state in the high-resolution crystal structure

Extensive quantum chemical DFT calculations were performed on the high-resolution (1.9 ?) crystal structure of photosystem II in order to determine the protonation pattern and the oxidation states of the oxygen-evolving Mn cluster. First, our data suggest that the experimental structure is not in the S(1)-state. Second, a rather complete set of possible protonation patterns is studied, resulting in very few alternative protonation patterns whose relevance is discussed. Finally, we show that the experimental structure is a mixture of states containing highly reduced forms, with the largest contribution (almost 60%) from the S(-3)-state, Mn(II,II,III,III).     

Bimodal fluorescence signaling based on control of the excited-state conformational twisting and the ground-state protonation processes

Amino-based fluoroionophores 1 and 2 can selectively sense alkaline earth metal ions in MeCN under both neutral and acidic conditions by different signaling mechanisms. The fluoroionophoric behavior for the neutral probes is characterized by an ‘off-on’ photoinduced electron transfer (PET)-like fluorescence intensity response due to a switching from a twisted internal charge transfer (TICT) to a planar internal charge transfer (PICT) state. For the protonated probes (i.e., 1/H⁺ and 2/H⁺), the fluorescing species is the localized stilbene fluorophores, but dual fluorescence is induced upon metal-ion recognition through a deprotonation process.     

Total synthesis of colchicine modelled on a biogenetic theory

A five step synthesis of desacetamidocolchiceine (XLVI) is described in which rings A and C are joined by oxidative coupling of the tropolone system. This completes a biogenetic-type total synthesis of colchicine (I).     

NMR titration and molecular model MOPAC calculation of protonation processes of two MRI ligands

The protonation process of two DTPA bis(amide) derivatives,DTPA-BDMA and DTPA-BDEA,was studied by using 1H NMR titration and MOPAC calculation.Their protonation process was proposed in the order of the central amine,the terminal amines,the central carboxyl,the terminal carboxyl,the other terminal carboxyl and central amine.During the protonation of the terminal amine,there existed a large fraction of proton transfer from the central amine to the other terminal amine.     

Control of Cu(II) and Cu(III) states in N-confused porphyrin by protonation/deprotonation at the peripheral nitrogen

The square-planar structure of a diamagnetic Cu(III) complex of tetrakis(pentafluorophenyl)-substituted N-confused porphyrin was elucidated by X-ray diffraction analysis. The facile interconversion between Cu(II) (1) and Cu(III) (2) complexes was achieved by chemical oxidation/reduction, and the Cu(III)/Cu(II) redox potential was controlled by adding anions through the hydrogen-bonding interaction to the peripheral NH.     

Effects of protonation on proton transfer processes in Watson–Crick adenine–thymine base pair

Intermolecular proton transfer processes in the Watson and Crick adenine–thymine neutral and protonated base pairs have been studied using the density functional theory (DFT) with the non-local hybrid B3LYP density functional. Protonated systems subject to study are those resulting from protonation at the main basic sites of the base pair model, namely N₇ and N₃ of adenine and O₂^′ and O₄^′ of thymine. Protonation of adenine induces a strengthening by about 4–5 kcal/mol of the base pair and does not significantly modify the double proton transfer energy profile obtained for the unprotonated system. On the other hand, protonation at the O₄^′ and O₂^′ thymine moiety causes thymine’s N₃ proton to spontaneously transfer to adenine while non-transferred minima disappear at this level of theory. The different behaviour between protonated adenine– thymine and protonated guanine–cytosine is discussed. Electronic Supplementary Material The online version of this article (doi:) contains supplementary material, which is available to authorized users. Contribution to the Fernando Bernardi Memorial Issue.     

Effect of protonation and deprotonation on surface charge density of Nb<Subscript>2</Subscript>O<Subscript>5</Subscript>

The protonation and deprotonation of the Nb₂O₅ surface has been followed in order to understand the reactions of surface of this catalyst. The simultaneous potentiometric and conductometric titrations had been carried by using 50 mL of water suspension of Nb₂O₅ 40 g L⁻¹. The oxide was entirely deprotonated when adding 0.4 mL NaOH 1 mol L⁻¹, and later titrated with 0.1 mol L⁻¹. The titration had supplied K ₁ and K ₂ and the obtained values were 3.24 × 10⁻³ and 4.17 × 10⁻⁸, respectively. The zero point charge was pH_pcz = 4.94. The thermodynamic studies were carried out by using 50 mL of a 40 g/L Nb₂O₅ aqueous suspension with the pH adjusted to pH_PZC value. The suspension was titrated with 0.5 mol/L of HNO₃ or NaOH for protonation or deprotonation studies, respectively, in an isoperibol calorimeter CSC ISC-4300. Thus, the obtained thermodynamic values of the protonation and deprotonation of Nb₂O₅ were Δ_dp G = −37.60 kJ/mol, Δ_dp H = −23.72 kJ/mol and Δ_dpS = 47 J/(mol K).     

Prototropic tautomers of 5‐methylcytosine and enthalpy changes of their protonation,deprotonation, and deamination: Hybrid density functional B3LYP study

Molecular and thermodynamic properties such as geometric parameters, dipole moments, vibrational frequencies, the first ionization potentials, relative tautomerization energies, and tautomeric equilibrium constants of all prototropic tautomers of 5‐methylcytosine have been studied at the hybrid density functional level B3LYP/6‐31+G(d,p). The methylation on the C5 atom does not lead to significant geometric deformation of the pyrimidine structures of the corresponding tautomers of cytosine, which maintains the similar stability order. The tautomeric species 2‐oxo‐4‐amino [T(0)], 2‐hydroxy‐4‐amino [T(1‐2s) and T(1‐2t)], and trans‐2‐oxo‐4‐imino [T(3‐4t)] are predominated in the gas phase. The zwitterionic conformers of tautomerism [T(1‐4)] and protonation [P(4), P(1‐2s‐4), P(1‐2t‐4), and P(1‐3‐4)] are investigated for the first time due to their close relationship with deamination during genetic repair. Enthalpy changes (Δ_rH) of protonation, deprotonation, and deamination are calculated for these tautomeric species at room temperature; it is noted that the relative enthalpies [δ(ΔH)] of the tautomers are rationalized well in terms of a second‐order polynomial of the sum of the mean Δ_rH values of protonation and deprotonation processes. © 2002 Wiley Periodicals, Inc. Int J Quantum Chem, 2002     

Approximate calculations on a protonation step in the reduction of propadienes

The protonation of the radical anion produced as an intermediate by electron transfer to 1,3-dimethylpropadiene is studied by calculating the electrostatic molecular potential to which higher order perturbation terms are added (induction energy). The preferred protonation site is at the central carbon atom, producing a planar allyl radical, in agreement with experimental evidence. A different conclusion is reached if the induction energy is neglected.