Search PubMed⌕ Search

SEARCH · Search PubMed

Results for “IONS”

Search indexed PubMed citations on genomics, clinical trials, systematic reviews and public health. Explore titles, authors and supplied subject terms, then open the PubMed record.

Quote a phrase for an exact phrase match. Source license links do not imply unrestricted reuse.

At least 37 records · Page 2Linked to original sources
PubMed2005

Mass analysis of mobility-selected ion populations using dual gate, ion mobility, quadrupole ion trap mass spectrometry.

An electrospray ionization, dual gate, ion mobility, quadrupole ion trap mass spectrometer (ESI-DG-IM-QIT-MS) was constructed and evaluated for its ability to select mobility-filtered ions prior to mass analysis. While modification of the common signal-averaged ion mobility experiment was required, no modifications to the QIT were necessary. The dual gate scanning mode of operation was used to acquire mobility spectra, whereas the single mobility monitoring experiment selectively filtered ions for concentration and subsequent fragmentation within the QIT. Ion mobility separation of positively charged peptides and negatively charged carbohydrates, followed by MS fragmentation, was demonstrated. For a 1-min acquisition time, it was possible to obtain complete de novo sequence information for the examined peptides. Fragmentation of the negative carbohydrate chlorine adducts yielded ions characteristic of cross-ring and glycosidic bond cleavage. Previous unions of atmospheric pressure ion mobility and mass spectrometry have been limited in their ability to reproducibly obtain MSn data for mobility separation ions. The union of high-pressure ion mobility with quadrupole ion trap mass spectrometry presents the unique opportunity to obtain more detailed information regarding the chemistries of gas-phase ions.

Journal Article↗
PubMed2006

Ion-association extraction of nitrophenolate ions with tetrabutylammonium ion into nonionic surfactant micelle.

Ion-association extraction of some nitrophenolate ions with tetrabutylammonium ion (TBA(+)) into nonionic surfactant micelle has been investigated through the changes in the electrophoretic mobility. Nonionic surfactants of Brij 35 and Brij 58 were used as micelle substrates to which the ion-associates formed could distribute. The electrophoretic mobility of the phenolate ions was measured by capillary zone electrophoresis in the presence of TBA(+) and/or the nonionic surfactant. The electrophoretic mobility of the analyte anions decreased with increasing concentrations of the interacting reagent. Ion association constants (K(ass)) between TBA(+) and the phenolate ions, as well as binding constants of the anions to the nonionic surfactant micelle (K(B)), were determined through the mobility change by applying it to a non-linear least-squares analysis. Binding of the ion-associates was also observed from the aqueous phase to the micelle phase, when both TBA(+) and the nonionic surfactant are present. Binding constants of the ion-associates to the nonionic surfactant micelle (K(B,IA)), as well as micelle extraction constants of the ion-associates (K(ex,m)), were also determined by using the mobility change. The K(ex,m) values obtained were compared with the ion association-solvent extraction constants (K(ex,S)) between water and chloroform.

Electrophoresis, Capillary↗
PubMed2003

A C60 primary ion beam system for time of flight secondary ion mass spectrometry: its development and secondary ion yield characteristics.

A buckminsterfullerene (C60)-based primary ion beam system has been developed for routine application in TOF-SIMS analysis of organic materials. The ion beam system is described, and its performance is characterized. Nanoamp beam currents of C60+ are obtainable in continuous current mode. C60(2+) can be obtained in pulsed mode. At 10 keV, the beam can be focused to less than 3 microm with 0.1 nA currents. TOF-SIMS studies of a series of molecular solids and a number of polymer systems in monolayer and thick film forms are reported. Very significant enhancement of secondary ion yields, particularly at higher mass, were observed using 10-keV C60+ for all samples other than PTFE, as compared to those observed from 10 keV Ga+ primary ions. Three materials (PS2000, Irganox 1010, PET) were studied in detail to investigate primary ion-induced disappearance (damage) cross sections to determine the increase in secondary ion formation efficiency. The C60 disappearance cross sections observed from monolayer film PS2000 and self-supporting PET film are close to those observed from Ga+. The resulting C60 efficiencies are 30-100 times those observed from gallium. The cross sections observed from C60 bombardment of multilayer molecular solids are approximately 100 times less, such that essentially zero damage sputtering is possible. The resulting efficiencies are > 10(3) greater than from gallium. It is also shown that C60 primary ions do not generate any more low-mass fragments than any other ion beam system does. C60 is shown to be a very favorable ion beam system for TOF-SIMS, delivering high yield, close to 10% total yield, favoring high-mass ions, and on thick samples, offering the possibility of analysis well beyond the static limit.

Journal Article↗
PubMed1996

Reactions of Charged Substrates. 6. The Methoxymethyl Carbenium Ion Problem. 1. A Semiempirical Study of the Kinetic and Thermodynamic Stabilities of Linear and Cyclic Oxo- and Thiocarbenium Ions Generated from Pyridinium and Dimethylanilinium Ions.

AM1-calculated energy profiles for dissociation of (methoxymethyl)pyridinium and dimethylanilinium ion substrates show that the methoxymethyl carbenium ion is not sufficiently stable to exist as an intermediate on the reaction coordinate for this model reaction. [(Thiomethoxy)methyl]pyridinium ion, however, has a distinct transition state because of the stability of the resulting ion-neutral complex. The complete potential energy surfaces for water displacement on the methoxymethyl substrate with either pyridine or dimethylaniline as the leaving group show distinct transition states and very flat surfaces for the ion-neutral complexes in which interaction of the carbenium ion with both leaving group and nucleophile is stabilizing. Secondary systems studied, including linear methoxy and thiomethoxy substrates, 5- and 6-membered cyclic oxo and thio substrates, and ribosyl-, xylopyranosyl-, and glucopyranosylpyridinium ions yield ion-neutral complexes with sufficient intrinsic stability to exist as intermediates. Comparison with solution data, primarily activation entropy and Brønsted coefficients, suggests that the sugar oxocarbenium ions, either as distinct, solvent-equilibrated intermediates or elements of ion-neutral complexes, are formed by unimolecular dissociation of the respective substrates in solution.

Journal Article↗
PubMed2004

Determination of fluoride ions released from resin-based dental materials using ion-selective electrode and ion chromatograph.

OBJECTIVES: The aim of this study was to investigate the quantities of total and free fluoride ions released from four resin-based composites containing fluoride (Heliomolar (HE), UniFil S (UF), Beautifil (BE) and Reactmer paste (RP)) and one glass ionomer cement (Ketac-Fil Plus Aplicap (KF)). METHODS: Five disk specimens of each material were prepared and the fluoride release was measured at 1, 2, 4, 7, 14, 21 and 28 days. The amounts of total and free fluoride ions released from materials were measured by using an ion-selective electrode (ISE) and ion chromatography (IC). Data were statistically analyzed using a t-test at a significant level of 0.05. RESULTS: For HE, fluoride release is undetectable using the ISE but was detected by the IC method. There were no significant differences in the free and total fluoride ions released from UF and BE (p>0.05). For RP, the free fluoride ions were significantly lower than the total fluoride ions after 4 days (p<0.05). KF showed significant difference between total and free fluoride ions at 7 and 28 days (p<0.05). CONCLUSIONS: The nature of the fluoride incorporated into dental materials affected the amounts of free and total fluoride ions released from materials.

Acrylic Resins↗
PubMed2005

The structure of gas-phase bradykinin fragment 1-5 (RPPGF) ions: an ion mobility spectrometry and H/D exchange ion-molecule reaction chemistry study.

Ion mobility-mass spectrometry (IM-MS) data is interpreted as evidence that gas-phase bradykinin fragment 1-5 (BK1-5, RPPGF) [M + H](+) ions exist as three distinct structural forms, and the relative abundances of the structural forms depend on the solvent used to prepare the matrix-assisted laser desorption ionization (MALDI) samples. Samples prepared from organic rich solvents (90% methanol/10% water) yield ions having an ion mobility arrival-time distribution (ATD) that is dominated by a single peak; conversely, samples prepared using mostly aqueous solvents (10% methanol/90% water) yield an ATD composed of three distinct peaks. The BK1-5 [M + H](+) ions were also studied by gas-phase hydrogen/deuterium (H/D) exchange ion-molecule reactions and this data supports our interpretation of the IM-MS data. Plausible structures for BK1-5 ions were generated by molecular dynamics (MD). Candidate MD-generated structures correlated to measured cross-sections suggest a compact conformer containing a beta-turn whereas a more extended, open form does not contain such an interaction. This study illustrates the importance of intra-molecular interactions in the stabilization of the gas-phase ions, and these results clearly illustrate that solution-phase parameters (i.e., MALDI sample preparation) greatly influence the structures of gas-phase ions.

Bradykinin↗
PubMed2002

Metal ions and phosphate binding in the H-N-H motif: crystal structures of the nuclease domain of ColE7/Im7 in complex with a phosphate ion and different divalent metal ions.

H-N-H is a motif found in the nuclease domain of a subfamily of bacteria toxins, including colicin E7, that are capable of cleaving DNA nonspecifically. This H-N-H motif has also been identified in a subfamily of homing endonucleases, which cleave DNA site specifically. To better understand the role of metal ions in the H-N-H motif during DNA hydrolysis, we crystallized the nuclease domain of colicin E7 (nuclease-ColE7) in complex with its inhibitor Im7 in two different crystal forms, and we resolved the structures of EDTA-treated, Zn(2+)-bound and Mn(2+)-bound complexes in the presence of phosphate ions at resolutions of 2.6 A to 2.0 A. This study offers the first determination of the structure of a metal-free and substrate-free enzyme in the H-N-H family. The H-N-H motif contains two antiparallel beta-strands linked to a C-terminal alpha-helix, with a divalent metal ion located in the center. Here we show that the metal-binding sites in the center of the H-N-H motif, for the EDTA-treated and Mg(2+)-soaked complex crystals, were occupied by water molecules, indicating that an alkaline earth metal ion does not reside in the same position as a transition metal ion in the H-N-H motif. However, a Zn(2+) or Mn(2+) ions were observed in the center of the H-N-H motif in cases of Zn(2+) or Mn(2+)-soaked crystals, as confirmed in anomalous difference maps. A phosphate ion was found to bridge between the divalent transition metal ion and His545. Based on these structures and structural comparisons with other nucleases, we suggest a functional role for the divalent transition metal ion in the H-N-H motif in stabilizing the phosphoanion in the transition state during hydrolysis.

Amino Acid Motifs↗
PubMed2001

Solvation of acylium fragment ions in electrospray ionization quadrupole ion trap and Fourier transform ion cyclotron resonance mass spectrometry.

In electrospray ionization (ESI) quadrupole ion trap and Fourier transform ion cyclotron resonance mass spectrometry, certain fragment ions (e.g. acylium ions) generated either during the ion transportation process (in the source interface region) or in the ion trap are found to undergo ion--molecule reactions with ESI solvent molecules (water, acetonitrile and aliphatic alcohols) to form adduct species. These unexpected solvated fragment ions severely complicate the interpretation of mass spectrometic data. High-resolution accurate mass measurements are important in establishing the elemental compositions of these adduct species and preventing erroneous data interpretation.

Acetals↗
PubMed1989

Ion detection by Fourier transform ion cyclotron resonance: the effect of initial radial velocity on the coherent ion packet.

Ion detection by Fourier transform ion cyclotron resonance (FT-ICR) is accomplished by observing a coherent ion packet produced from an initially random ensemble of ions. The coherent packet is formed by excitation with a resonant oscillating electric field. Ions that are out of phase with the applied radio frequency (rf) electric field experience a continuous misalignment of the electric field vector. The misalignment creates a net force of the electric field perpendicular to ion motion. The perpendicular component of the rf electric field creates a frequency shift resulting in phase synchronization of the ion ensemble. The phase coherence of the ion packet affects both the sensitivity and the resolution of FT-ICR.

Electromagnetic Fields↗
PubMed2006

Properties of microsolvated ions: from the microenvironment of chromophore and alkali metal ions in proteins to negative ions in water clusters.

Here we discuss the fascinating chemistry and physics of microsolvated ions that bridge the transition from bare ions in gas phase to ions in solution. Such ions occur in many situations in biochemistry and are crucial for several functions; metal ions, for example, must remove their water shell to pass through ion pumps in membranes. Furthermore, only a few water molecules are buried in the hydrophobic pockets of proteins where they are bound to charged amino acid residues or ionic chromophores. Another aspect is the reactivity of microsolvated ions and the importance in atmospheric, organic and inorganic chemistry. We close by a discussion of the stability of molecular dianions, and how hydration affects the electronic binding energy. There is a vast literature on microsolvated ions, and in this review we are far from being comprehensive, rather we mainly bring examples of our own work.

Anions↗
PubMed2000

Comparative studies of recombinant human granulocyte-colony stimulating factor, its Ser-17 and (His)6-tagged forms interaction with metal ions by means of immobilized metal ion affinity partitioning. Effect of chelated nickel and mercuric ions on extraction and refolding of proteins from inclusion bodies.

The chelation capability of the reactive dye Light Resistant Yellow 2KT towards metal ions, particularly mercury(II) was evaluated in the pH range 5.0-7.0, and it was shown that the dye-Hg(II) complex has a free site for the interaction with human recombinant granulocyte-colony stimulating factor (rhG-CSF) from Escherichia coli. Affinity partitioning of three rhG-CSF forms--native, rhG-CSF[Cys17--->Ser17] and (His)6-rhG-CSF was studied in aqueous two-phase systems, which contained metal ions--Cu(II), Ni(II) and Hg(II)--chelated by dye-poly(ethylene glycol) at pH 5.0 and 7.0, in the presence or absence of many selected agents. It was determined, that chelated Ni(II) ions exhibited stronger interaction with the hexahistidine-tagged protein form, while the extraction power of Cu(II) ions was found to be of comparable order of magnitude for all three protein forms at pH 7.0. A comparative study of rhG-CSF and both its forms partitioning in the presence of chelated Hg(II) ions at pH 7.0 and 5.0 revealed possible direct interaction between Hg(II) ions and unpaired Cys-17 of rhG-CSF. The partitioning of three rhG-CSF forms inclusion body extract was studied in the presence of chelated Ni(II) and Hg(II) ions thus explaining the efficiency of targeted proteins renaturation gained upon their inclusion body forms interactions with chelated metal ions.

Chromatography, Affinity↗
PubMed2001

Controlled ion fragmentation in a 2-D quadrupole ion trap for external ion accumulation in ESI FTICR mass spectrometry.

Undesired fragmentation of electrospray generated ions in an rf multipole traps can be problematic in many applications. Of special interest here is ion dissociation in a 2-D quadrupole ion trap external to a Fourier transform ion cyclotron resonance mass spectrometer (FTICR MS) used in proteomic studies. In this work, we identified the experimental parameters that determine the efficiency of ion fragmentation. We have found that under the pressure conditions used in this study there is a specific combination of the radial and axial potential well depths that determines the fragmentation threshold. This combination of rf and dc fields appears to be universal for ions of different mass-to-charge ratios, molecular weights, and charge states. Such universality allows the fragmentation efficiency of the trapped ions in the course of capillary liquid chromatography (LC) separation studied to be controlled and can increase the useful duty cycle and dynamic range of a FTICR mass spectrometer equipped with an external rf only 2-D quadrupole ion trap.

Algorithms↗
PubMed2005

Disease-associated changes in the expression of ion channels, ion receptors, ion exchangers and Ca(2+)-handling proteins in heart hypertrophy.

The molecular pathology of cardiac hypertrophy is multifactorial with transcript regulation of ion channels, ion exchangers and Ca(2+)-handling proteins being speculative. We therefore investigated disease-associated changes in gene expression of various ion channels and their receptors as well as ion exchangers, cytoskeletal proteins and Ca(2+)-handling proteins in normotensive and spontaneously hypertensive (SHR) rats. We also compared experimental findings with results from hypertrophic human hearts, previously published (Borlak, J., and Thum, T., 2003. Hallmarks of ion channel gene expression in end-stage heart failure. FASEB J. 17, 1592-1608). We observed significant (P < 0.05) induction in transcript level of ATP-driven ion exchangers (Atp1A1, NCX-1, SERCA2a), ion channels (L-type Ca(2+)-channel, K(ir)3.4, Na(v)1.5) and RyR-2 in hypertrophic hearts, while gene expression was repressed in diseased human hearts. Further, the genes coding for calreticulin and calmodulin, PMCA 1 and 4 as well as alpha-skeletal actin were significantly (P < 0.05) changed in hypertrophic human heart, but were unchanged in hypertrophic left ventricles of the rat heart. Notably, transcript level of alpha- and beta-MHC, calsequestrin, K(ir)6.1 (in the right ventricle only), phospholamban as well as troponin T were repressed in both diseased human and rat hearts. Our study enabled an identification of disease-associated candidate genes. Their regulation is likely to be the result of an imbalance between pressure load/stretch force and vascular tonus and the observed changes may provide a rational for the rhythm disturbances observed in patients with cardiac hypertrophy.

Animals↗
PubMed1997

Delayed rectifier current of bullfrog sympathetic neurons: ion-ion competition, asymmetrical block and effects of ions on gating.

1. The delayed rectifier (DR) K+ channel pore was probed using different permeant and blocking ions applied intra- and extracellularly. Currents were recorded from bullfrog sympathetic neurons using whole-cell patch-clamp techniques. 2. With intra- and extracellular Cs+ (0 K+), there were large, tetraethylammonium (TEA)-sensitive currents. Adding K+ back to the extracellular solution revealed that the current with Cs+i was K+ selective (permeability ratio PCs/PK = 0.17 +/- 0.02, n = 4) and showed a strong anomalous mole fraction effect. 3. There were also large non-inactivating currents with Na+i and Na+o (0 K+). The current with Na+i was K+ selective (Na+o vs. K+o: PNa/PK = 0.022 +/- 0.005, n = 5), and was TEA sensitive with K+o but not with Na+o. 4. Permeant ions affected gating kinetics. DR currents activated faster in K+ than in Cs+, and activated faster with increasing concentrations of either K+ or Cs+. Deactivation was slowed by increased K+ or Cs+ concentration, with no difference between K+ and Cs+. 5. The pore was also characterized using intracellular blocking ions. A wide variety of monovalent cations (TEA, N-methyl-D-glucamine, arginine, choline, CH3NH3+, Li+, Cs+ and Na+) blocked DR channels from the inside in a voltage-dependent manner: KD at 0 mV was 2.9 mM for TEA and 134-487 mM for the others, at apparent electrical distances (delta) of 0.33-0.79. There was no detectable block by 10 mM Mgi2+. Apart from TEA, the organic cations did not block from the outside. 6. The permeability to Na+ in the absence of K+, and the strong anomalous mole fraction effects observed for Cs+o + K+o mixtures, suggest that DR channels select for K+ using ion-ion competition. The block by large intracellular cations shows that the pore is asymmetrical. The loss of high affinity TEAo block with Na+i and Na+o, and the effects of permeant ions on gating, suggest that channel conformation may be affected by ions in the pore.

Animals↗
PubMed2003

Comparing differentiation of xylene isomers by electronic ionization, chemical ionization and self-ion/molecule reactions and the first observation of methyne addition ions for xylene isomers in self-ion/molecule reactions for non-nitrogenated compounds.

This study presents the self-ion/molecule reaction (SIMR) spectra of three xylene isomers, and proposes an approach to differentiating them based on observed differences in relative abundances of ions formed by SIMR in an internal source ion trap instrument. It also demonstrates the applicability of SIMR for isomer discrimination, which is better than electron ionization (EI) and dimethyl ether chemical ionization (DME CI) in an ion trap mass spectrometer (ITMS) since no CI reagent, metal ions or internal standards are required to perform SIMR. The merits of the new method for distinguishing isomers are that it is simple, rapid and economic. To date, methyne addition products ([M+13](+) ions) have been observed for several nitrogenated compounds including aza-crown ethers, aniline and dopamine from SIMR in the ITMS. The xylene isomers are, however, the first three non-nitrogenated compounds that have been shown to produce the methyne addition ions in SIMR.

Journal Article↗
PubMed2006

Pseudo-homogeneous micelle extraction of ion-associates formed between tetrabutylammonium ion and some aromatic sulfonate ions into nonionic surfactant micelle studied through the mobility measurements in capillary zone electrophoresis.

Ion-association extraction of some aromatic sulfonate ions including alkylbenzene sulfonates with tetrabutylammonium ion (TBA+) into nonionic surfactant micelle has been investigated through the changes in the electrophoretic mobility. Nonionic surfactants of Brij 35 and Brij 58 were used as micelle substrates to which the ion-associates formed could distribute. The electrophoretic mobility of the aromatic sulfonate ions was measured by capillary zone electrophoresis in the presence of TBA+ and/or the nonionic surfactant to determine ion-association constants (K(ass)), binding constants of the anions to the nonionic surfactant micelle (K(B)), and binding constants of the ion-associates to the nonionic surfactant micelle (K(B,IA)). Nonlinear phenomena induced with the alkyl chain moiety were observed on K(ass) and K(B) by its linear structure and the mixed micelle formation, respectively. Larger K(B) values were obtained with Brij 58 as micelle matrix than with Brij 35, while the differences in K(B,IA) were small between Brij 58 and Brij 35.

Electrophoresis, Capillary↗
PubMed2005

Two-fold efficiency increase by selective excitation of ions for consecutive activation by ion-electron reactions and vibrational excitation in tandem fourier transform ion cyclotron resonance mass spectrometry.

A new technique called selective excitation of ions for consecutive activation (SEICA) is proposed for obtaining complementary fragmentation mass spectra from the same precursor ion population. SEICA utilizes precursor ions remaining intact after electron capture dissociation or another ion-electron reaction for efficient MS/MS based on a vibrational excitation (VE) technique, such as infrared multiphoton dissociation. SEICA uses the ability of ion-trapping instruments to detect product ions while retaining inside the trap intact precursor ions, making the latter available for consecutive activation by a VE technique. The possibility of practical implementation of SEICA by software-only modification of a commercial instrument is demonstrated. A 2-fold increase in the efficiency is achieved for both "single-scan" and "multiple-scan" experiments. This improvement can be particularly important for high-sensitivity applications in, for example, proteomics, where limited ECD efficiency poses an obstacle for broad implementation of this technique.

Cyclotrons↗
PubMed2005

An accurate and efficient empirical approach for calculating the dielectric self-energy and ion-ion pair potential in continuum models of biological ion channels.

This paper presents empirical formulas for calculating the dielectric self-energy and ion-ion pair interactions in cylindrical ion channels. The proposed approach can be extended to more complex channel structures, for example, (i) a "straight" channel with variable radius and (ii) a "curved" channel with constant radius. For calibration purposes, we compare results obtained based on the approximate effective potentials developed herein to exact electrostatic calculations obtained via the algorithm of Graf et al.: the agreement is satisfactory. A dynamic lattice Monte Carlo (DLMC) technique is used to further assess the accuracy and efficiency of the proposed empirical potentials. The concentration profiles and current-voltage curves produced with our simple empirical energy formulas are in excellent agreement with numerical results obtained using the algorithm of Graf et al., which calculates all relevant electrostatic forces exactly. The use of effective ion-ion potentials greatly reduces the computer memory required to perform DLMC ion permeation simulations in dielectrically inhomogeneous environments, thus enabling treatment of larger systems than can be handled by numerically exact techniques.

Algorithms↗