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Ion nanocalorimetry is used to measure the effects of electron kinetic energy in electron capture dissociation (ECD). With ion nanocalorimetry, the internal energy deposited into a hydrated cluster upon activation can be determined from the number of water molecules that evaporate. Varying the heated cathode potential from -1.3 to -2.0 V during ECD has no effect on the average number of water molecules lost from the reduced clusters of either [Ca(H2O)15]2+ or [Ca(H2O)32]2+, even when these data are extrapolated to a cathode potential of zero volts. These results indicate that the initial electron kinetic energy does not go into internal energy in these ions upon ECD. No effects of ion heating from inelastic ion-electron collisions are observed for electron irradiation times up to 200 ms, although some heating occurs for [Ca(H2O)17]2+ at longer irradiation times. In contrast, this effect is negligible for [Ca(H2O)32]2+, a cluster size typically used in nanocalorimetry experiments, indicating that energy transfer from inelastic ion-electron collisions is negligible compared with effects of radiative absorption and emission for these larger clusters. These results have significance toward establishing the accuracy with which electrochemical redox potentials, measured on an absolute basis in the gas phase using ion nanocalorimetry, can be related to relative potentials measured in solution.

The structures of isolated alkaline earth metal cationized amino acids are investigated using infrared multiple photon dissociation (IRMPD) spectroscopy and theory. These results indicate that arginine, glutamine, proline, serine, and valine all adopt zwitterionic structures when complexed with divalent barium. The IRMPD spectra for these ions exhibit bands assigned to carboxylate stretching modes, spectral signatures for zwitterionic amino acids, and lack bands attributable to the carbonyl stretch of a carboxylic acid functional group. Structural and spectral assignments are strengthened through comparisons with absorbance spectra calculated for low-energy structures and the IRMPD spectra of analogous ions containing monovalent alkali metals. Many bands are significantly red-shifted from the corresponding bands for amino acids complexed with monovalent metal ions, owing to increased charge transfer to divalent metal ions. The IRMPD spectra of arginine complexed with divalent strontium and barium are very similar and indicate that arginine adopts a zwitterionic form in both ions. Calculations indicate that nonzwitterionic forms of arginine are lowest in free energy in complexes with smaller alkaline earth metal cations and that zwitterionic forms are preferentially stabilized with increasing metal ion size. B3LYP and MP2 calculations indicate that zwitterionic forms of arginine are lowest in free energy for M = Ca, Sr, and Ba.

The Thomson model, used for calculating thermodynamic properties of cluster ions from macroscopic properties, and variations of this model were compared to each other and to experimental data for both hydrated mono- and divalent ions. Previous models that used the Thomson equation to calculate sequential binding thermodynamic values of hydrated ions, either continuously or discretely including an ion-dipole interaction term, were compared to a discrete model that includes the excluded volume of an impurity ion. All models, given their limitations, provided reasonable agreement to data for monovalent ions. For divalent cluster ions, the continuous model, and a discrete model that includes the ion-exclusion volume provide significantly better agreement to both the binding enthalpy and the binding entropy data as compared to the model that includes an ion-dipole term. A systematic deviation in the continuous model resulted in significantly lower binding enthalpies than the discrete model for clusters with fewer than about nine and 19 water molecules for mono- and divalent ions, respectively, but this difference became negligible for larger clusters. Previous investigations of the various Thomson model implementations used parameters for bulk water at 313 K. Using parameters at 298 K has a negligible effect at small cluster sizes, but at larger sizes, the binding enthalpies are 0.2 kcal/mol higher than with the 313 K parameters. Although small, the effect is significant for ion nanocalorimetry experiments in which thermochemical information is obtained from the number of water molecules lost upon activating large clusters.

Infrared laser action spectroscopy in a Fourier-transform ion cyclotron resonance mass spectrometer is used in conjunction with ab initio calculations to investigate doubly charged, hydrated clusters of calcium formed by electrospray ionization. Six water molecules coordinate directly to the calcium dication, whereas the seventh water molecule is incorporated into a second salvation shell. Spectral features indicate the presence of multiple structures of Ca(H 2 O) 2+ 7 in which outer-shell water molecules accept either one (single acceptor) or two (double acceptor) hydrogen bonds from inner-shell water molecules. Double-acceptor water molecules are predominately observed in the second solvent shells of clusters containing eight or nine water molecules. Increased hydration results in spectroscopic signatures consistent with additional second-shell water molecules, particularly the appearance of inner-shell water molecules that donate two hydrogen bonds (double donor) to the second solvent shell. This is the first reported use of infrared spectroscopy to investigate shell structure of a hydrated multiply charged cation in the gas phase and illustrates the effectiveness of this method to probe the structures of hydrated ions.

The gas-phase structures of protonated and alkali-metal-cationized lysine (Lys) and epsilon-N-methyllysine (Lys(Me)) are investigated using infrared multiple photon dissociation (IRMPD) spectroscopy utilizing light generated by a free electron laser, in conjunction with ab initio calculations. IRMPD spectra of Lys.Li(+) and Lys.Na(+) are similar, but the spectrum for Lys.K(+) is different, indicating that the structure of lysine in these complexes depends on the metal ion size. The carbonyl stretch of a carboxylic acid group is clearly observed in each of these spectra, indicating that lysine is nonzwitterionic in these complexes. A detailed comparison of these spectra to those calculated for candidate low-energy structures indicates that the bonding motif for the metal ion changes from tricoordinated for Li and Na to dicoordinated for K, clearly revealing the increased importance of hydrogen-bonding relative to metal ion solvation with increasing metal ion size. Spectra for Lys(Me).M(+) show that Lys(Me), an analogue of lysine whose side chain contains a secondary amine, is nonzwitterionic with Li and zwitterionic with K and both forms are present for Na. The proton affinity of Lys(Me) is 16 kJ/mol higher than that of Lys; the higher proton affinity of a secondary amine can result in its preferential protonation and stabilization of the zwitterionic form.

Water exhibits remarkable properties in confined spaces, such as nanometer-sized droplets where hundreds of water molecules are required for crystalline structure to form at low temperature due to surface effects. Here, we investigate how a single ion affects the crystallization of (H2O)n clusters with infrared photodissociation spectroscopy of size-selected La(3+)(H2O)n nanodrops containing up to 550 water molecules. Crystallization in the ion-containing nanodrops occurs at n ≥ 375, which is approximately 100 more water molecules than what has been reported for neutral water clusters. This frustration of crystallinity reveals that La(3+) disrupts the hydrogen-bonding network of water molecules located remotely from the ion, a conclusion that is supported by molecular dynamics simulations. Our findings establish that a trivalent ion can pattern the H-bond network of water molecules beyond the third solvation shell, or to a distance of ∼1 nm from the ion.

The effectiveness of two new supercharging reagents for producing highly charged ions by electrospray ionization (ESI) from aqueous solutions in which proteins have native structures and reactivities were investigated. In aqueous solution, 2-thiophenone and 4-hydroxymethyl-1,3-dioxolan-2-one (HD) at a concentration of 2% by volume can increase the average charge of cytochrome c and myoglobin by up to 163%, resulting in even higher charge states than those that are produced from water/methanol/acid solutions in which these proteins are denatured. The greatest extent of supercharging occurs in pure water, but these supercharging reagents are also highly effective in aqueous solutions containing 200 mM ammonium acetate buffer commonly used in native mass spectrometry (MS). These reagents are less effective supercharging reagents than m-nitrobenzyl alcohol (m-NBA) and propylene carbonate (PC) when ions are formed from water/methanol/acid. The extent to which loss of the heme group from myoglobin occurs is related to the extent of supercharging. Results from guanidine melts of cytochrome c monitored with tryptophan fluorescence show that the supercharging reagents PC, sulfolane and HD are effective chemical denaturants in solution. These results provide additional evidence for the role of protein structural changes in the electrospray droplet as the primary mechanism for supercharging with these reagents in native MS. These results also demonstrate that for at least some proteins, the formation of highly charged ions from native MS is no longer a significant barrier for obtaining structural information using conventional tandem MS methods.

The effects of tagging protonated glycine with either He or with between 1 and 14 H2 molecules on the infrared photodissociation (IRPD) spectra and the ion structure was investigated. Differences in the IR spectra with either a single He atom or H2 molecule attached indicate that even a single H2 molecule can affect the frequencies of some vibrational bands of this simple ion. The protonation site is the preferred location of the tag with He and with up to two H2 molecules, but evidence for H2 attachment to the hydrogen atom of the uncharged carboxylic acid is observed for ions tagged with three or more H2 molecules. This results in a 55 cm-1 red shift in the carboxylic acid OH stretch, and evidence for some structural isomers where the hydrogen bond between the protonated nitrogen and the carbonyl oxygen is partially broken as a result H2 molecules attached to this site is observed. These results are supported by theory, which indicates that H2 molecules can effectively break this weak hydrogen bond with three or more H2 molecules. These results indicate that large spectral shifts as a result of H2 molecules attaching to sites remote from the charge can occur and affect stretching frequencies as a result of charge transfer, and that tagging with multiple H2 molecules can change the structure of the ion itself.

Hydration of PbNO3(+) and SrNO3(+) with up to 30 water molecules was investigated with infrared photodissociation (IRPD) spectroscopy and with theory. These ions are the same size, yet the IRPD spectra of these ion pairs for n = 2-8 are significantly different. Bands in the bonded O-H region (∼3000-3550 cm(-1)) indicate that the onset of a second hydration shell begins at n = 5 for PbNO3(+) and n = 6 for SrNO3(+). Spectra for [PbNO3](+)(H2O)2-5 and [SrNO3](+)(H2O)3-6 indicate that the structures of clusters with Pb(ii) are hemidirected with a void in the coordinate sphere. A natural bond orbital analysis of [PbNO3](+)(H2O)5 indicates that the anisotropic solvation of the ion is due to a region of asymmetric electron density on Pb(ii) that can be explained by charge transfer from the nitrate and water ligands into unoccupied p-orbitals on Pb(ii). There are differences in the IRPD spectra of PbNO3(+) and SrNO3(+) with up to 25 water molecules attached. IR intensity in the bonded O-H region is blue-shifted by ∼50 cm(-1) in nanodrops containing SrNO3(+) compared to those containing PbNO3(+), indicative of a greater perturbation of the water H-bond network by strontium. The free O-H stretches of surface water molecules in nanodrops containing 10, 15, 20, and 25 water molecules are red-shifted by ∼3-8 cm(-1) for PbNO3(+) compared to those for SrNO3(+), consistent with more charge transfer between water molecules and Pb(ii). These results demonstrate that the different electronic structure of these ions significantly influences how they are solvated.

Hydration of gaseous guanidinium (Gdm+) with up to 100 water molecules attached was investigated using infrared photodissociation spectroscopy in the hydrogen stretch region between 2900 and 3800 cm-1. Comparisons to IR spectra of low-energy computed structures indicate that at small cluster size, water interacts strongly with Gdm+ with three inner shell water molecules each accepting two hydrogen bonds from adjacent NH2 groups in Gdm+. Comparisons to results for tetramethylammonium (TMA+) and Na+ enable structural information for larger clusters to be obtained. The similarity in the bonded OH region for Gdm(H2O)20+vs. Gdm(H2O)100+ and the similarity in the bonded OH regions between Gdm+ and TMA+ but not Na+ for clusters with

The effectiveness of the supercharging reagents m-nitrobenzyl alcohol (m-NBA) and propylene carbonate at producing highly charged protein ions in electrospray ionization is compared. Addition of 5% m-NBA or 15% propylene carbonate increases the average charge of three proteins by ∼21% or ∼23%, respectively, when these ions are formed from denaturing solutions (water/methanol/acetic acid). These results indicate that both reagents are nearly equally effective at supercharging when used at their optimum concentrations. A narrowing of the charge state distribution occurs with both reagents, although this effect is greater for propylene carbonate. Focusing the ion signal into fewer charge states has the advantage of improving sensitivity. The maximum charge state of ubiquitin formed with propylene carbonate is 21+, four charges higher than previously reported. Up to nearly 30% of all residues in a protein can be charged, and the collisional cross sections of the most highly charged ions of both ubiquitin and cytochrome c formed with these supercharging reagents were measured for the first time and found to be similar to those calculated for theoretical highly extended, linear or near-linear conformations. Under native supercharging conditions, m-NBA is significantly more effective at producing high charge states than propylene carbonate.

Forming hydrated clusters containing triply charged metal ions is challenging due to the competing process of dissociation by forming the metal hydroxide with one less net charge and a protonated water molecule. It is demonstrated for the first time that it is possible to form such clusters using a method we call "nanodrop mass spectrometry". Clusters of the form [M(H(2)O)(n)](3+), where M = Ce, Eu, and La, are generated using electrospray ionization and are mass analyzed in a Fourier-transform ion cyclotron resonance mass spectrometer with an ion cell cooled to -140 °C. Clusters containing trivalent La with n ranging from 16 to over 160 can be readily produced. These clusters are stable at this temperature for many seconds, enabling all standard methods to probe structure and reactivity of these unusual species. Photodissociation experiments on extensively hydrated clusters of trivalent lanthanum using resonant infrared radiation indicate that a minimum of 17 water molecules is necessary to stabilize these trivalent clusters under the low-energy ion excitation conditions and long time frame of these experiments. These results indicate that a minimum droplet size of approximately a nanometer is necessary for these trivalent species to survive intact. This suggests that elemental speciation of trivalent metal ions from aqueous solutions should be possible using nanodrop mass spectrometry.

The advantages of electrospray ionization mass spectrometry (ESIMS) to measure relative solution-phase affinities of tightly bound protein-protein complexes are demonstrated with selected variants of the Bacillus amyloliquefaciens protein barstar (b*) and the RNAase barnase (bn), which form protein-protein complexes with a range of picomolar to nanomolar dissociation constants. A novel chemical annealing procedure rapidly establishes equilibrium in solutions containing competing b* variants with limiting bn. The relative ion abundances of the complexes and those of the competing unbound monomers are shown to reflect the relative solution-phase concentrations of those respective species. No measurable dissociation of the complexes occurs either during ESI or mass detection, nor is there any evidence for nonspecific binding at protein concentrations25 microM. Differences in DeltaDeltaG of dissociation between variants were determined with precisions0.1 kcal/mol. The DeltaDeltaG values obtained deviate on average by 0.26 kcal/mol from those measured with a solution-phase enzyme assay. It is demonstrated that information about the protein conformation and covalent modifications can be obtained from differences in mass and charge state distributions. This method serves as a rapid and precise means to interrogate protein-protein-binding surfaces for complexes that have affinities in the picomolar to nanomolar range.

The combination of high-field asymmetric waveform ion mobility spectrometry (FAIMS) with Fourier transform ion cyclotron resonance mass spectrometry (FTICR-MS) makes possible lower detection limits, increased sensitivity, and increased dynamic range in the analysis of poly(ethylene glycol) (PEG) samples of low molecular weight. The signal gain obtained using FAIMS depends on ion identity, with a range between 1.8x and 14x obtained for various molecular ions of PEG 600. A 1.7-fold reduction in noise is obtained using FAIMS due to the elimination of chemical noise. The improved detection performance is predominantly due to a reduction in adverse Coulomb effects as a result of ions being selectively introduced into the mass spectrometer. The high ion transmission obtained using FAIMS combined with the high sensitivity of FTICR-MS detection make possible separation of multiple gas-phase conformers of PEG molecular cations that have low abundance (less than 0.2% relative abundance) and that have not been detected previously. Mixed dications of PEG that have the same nominal mass but differ by the number polymer subunits (m/Delta m up to 25,000) can be separately introduced into the mass spectrometer using FAIMS. Interactions of the carrier gas with the metal ions that are attached to the PEG molecules appear to be the most significant factor in these FAIMS separations.

We report here infrared spectra of protonated and lithiated valine with varying degrees of hydration in the gas phase and interpret them with the help of DFT calculations at the B3LYP/6-31++G** level. In both the protonated and lithiated species our results clearly indicate that the solvation process is driven first by solvation of the charge site and subsequently by formation of a second solvation shell. The infrared spectra of Val x Li+ (H2O)4 and Val x H+ (H2O)4 are strikingly similar in the region of the spectrum corresponding to hydrogen-bonded stretches of donor water molecules, suggesting that in both cases similar extended water structures are formed once the charge site is solvated. In the case of the lithiated species, our spectra are consistent with a conformation change of the amino acid backbone from syn to anti accompanied by a change in the lithium binding from a NO coordination to OO coordination configuration upon addition of the third water molecule. This change in the mode of metal ion binding was also observed previously by Williams and Lemoff [J. Am. Soc. Mass Spectrom. 2004, 15, 1014-1024] using blackbody infrared radiative dissociation (BIRD). In contrast to the zwitterion formation inferred from results of the BIRD experiments upon addition of a third water molecule, our spectra, which are a more direct probe of structure, show no evidence for zwitterion formation with the addition of up to four water molecules.

The structures of lithiated and sodiated alpha-methyl-proline (alpha-Me-Pro) and structural isomers, both with and without a water molecule, are investigated using blackbody infrared radiative dissociation (BIRD) and density functional theory. From the BIRD kinetic data measured as a function of temperature, combined with master equation modeling of these data, threshold dissociation energies for the loss of a water molecule from these clusters are obtained. These energies are 77.5 +/- 0.5 and 53 +/- 1 kJ/mol for lithiated and sodiated alpha-Me-Pro, respectively. For the nonzwitterionic isomer, proline methyl ester, these values are 3.0-4.5 kJ/mol higher. These results provide compelling experimental evidence that alpha-Me-Pro is zwitterionic in these clusters. Theory at the temperature corrected B3LYP/6-311++G**//B3LYP/6-31++G** level indicates that the salt-bridge or zwitterionic forms of lithiated and sodiated alpha-Me-Pro are between 17 and 23 kJ/mol lower in energy than the nonzwitterionic or charge-solvated forms and that attachment of a single water molecule does not significantly change the structure or the relative energies of these clusters. The proton affinity of proline is 8 kJ/mol higher than that of alpha-Me-Pro, indicating that lithiated and sodiated singly hydrated proline should also be zwitterionic.

The decrease in the sensitivity of electrospray ionization mass spectrometry caused by the presence of metal salts, such as sodium chloride, in the sample matrix is well known and is particularly problematic for biological samples. We report here that addition of high levels of ammonium acetate can improve analyte signal in aqueous electrospray solutions and counteracts the signal suppression caused by sodium chloride. A ∼3-fold improvement in S/N is obtained by adding 8 M ammonium acetate to aqueous solutions of cytochrome c without added sodium chloride. No organic solvents or acids are added into the electrospray solutions. The signal-to-noise ratios of cytochrome c and ubiquitin (10-5 M) ions formed from aqueous solutions containing 2.0 × 10-2 M sodium chloride are improved by factors of ∼7 and 11, respectively, by adding 7 M ammonium acetate to the solution. We propose that this effect is a result of the precipitation of Na+ and Cl- from solution within the evaporating electrospray droplets prior to ...

A new apparatus that uses heated filaments to dissociate ions in Fourier-transform ion cyclotron resonance mass spectrometry is described. With this apparatus, molecular ions of both acetophenone and n-butylbenzene can be dissociated very rapidly. A plot of the natural log of the dissociation rate constant versus inverse radiant temperature yields a straight line from which an Arrhenius activation energy is obtained. From this value, the threshold dissociation energy can be estimated. For acetophenone, we find a value that is within the range of previously measured values. However, for n-butylbenzene, the calculated threshold dissociation energy value is too high. We attribute this result, and the appearance of a higher energy dissociation product, to the absorption of visible photons produced at the high filament temperatures used, a factor not currently included in our modeling. In contrast to the small ions, larger peptide ions do not undergo significant dissociation with the current apparatus. The “effective” internal temperature of the larger ions can be measured by using the heated filaments in combination with blackbody infrared radiative dissociation. The “effective” temperature of the peptide ions is increased substantially less than that for the smaller ions.

A new apparatus for making blackbody infrared radiative dissociation (BIRD) measurements at below ambient temperature is described, and its use for measuring threshold dissociation energies of weakly bound clusters is demonstrated. Hydration energies are determined for alkaline-earth metal water clusters, X 2+ (H 2 O) n , X=Mg, Ca and n =8–10. For n =8 and 9, the energies obtained from BIRD measurements are in excellent agreement with values reported previously, but for n =10, the energies are slightly lower than those determined previously using the high-pressure ion source mass spectrometry (HPMS) equilibrium method.

The dissociation pathways and energetics of SO42-(H2O)n for n = 3−17 were studied with use of a combination of blackbody infrared radiative dissociation (BIRD), sustained off-resonance irradiation collisional activated dissociation (SORI-CAD), infrared multiphoton dissociation (IRMPD), and double resonance experiments. For n = 7−17, the loss of a single water molecule is the only process observed. For n = 6, loss of a single water molecule is the dominant reaction (>90%), but some charge separation products are observed. In contrast, loss of a water molecule from the n = 5 cluster is small (

The structures of valine (Val) and methylaminoisobutyric acid (Maiba) bound to a sodium ion, both with and without a water molecule, are investigated using both theory and experiment. Calculations indicate that, without water, sodiated Val forms a charge-solvated structure in which the sodium ion coordinates to the nitrogen and the carbonyl oxygen (NO-coordination), whereas Maiba forms a salt-bridge structure in which the sodium ion coordinates to both carboxylate oxygens (OO-coordination). The addition of a single water molecule does not significantly affect the relative energies or structures of the charge-solvated and salt-bridge forms of either cluster, although in Maiba the mode of sodium ion binding is changed slightly by the water molecule. The preference of Maiba to adopt a zwitterionic form in these complexes is consistent with its higher proton affinity. Experimentally, the rates of water evaporation from clusters of Val.Na(+)(H(2)O) and Maiba.Na(+)(H(2)O) are measured using blackbody infrared radiative dissociation (BIRD). The dissociation rates from the Val and Maiba complexes are compared to water evaporation rates from model complexes of known structure over a wide range of temperatures. Master equation modeling of the BIRD kinetic data yields a threshold dissociation energy for the loss of water from sodiated valine of 15.9 +/- 0.2 kcal/mol and an energy of 15.1 +/- 0.3 kcal/mol for the loss of water from sodiated Maiba. The threshold dissociation energy of water for Val.Na(+)(H(2)O) is the same as that for the charge-solvated model isomers, while the salt-bridge model complex has the same water threshold dissociation energy as Maiba.Na(+)(H(2)O). These results indicate that the threshold dissociation energy for loss of a water molecule from these salt-bridge complexes is approximately 1 kcal/mol less than that for loss of water from the charge-solvated complexes.

The dissociation of protein ions formed by ESI ranging in size from 12 to 29 kDa using sustained off-resonance irradiation collisional activation was investigated as a function of charge state in a 9.4-T Fourier transform mass spectrometer. Addition of m-nitrobenzyl alcohol to denaturing solutions of proteins was used to form very high charge states of protein ions for these experiments. For all proteins in this study, activation of the highest charge state results in a single dominant backbone cleavage, often with less abundant cleavages at the neighboring 3–5 residues. This surprising phenomenon may be useful for the “top-down” identification of proteins by producing sequence tags with optimum sensitivity. There is a slight preference for cleavage adjacent to acidic residues and proline. Solution-phase secondary structure does not appear to play a significant role. The very limited dissociation channels observed for the supercharged ions may be due, in part, to the locations of the charges on the protein.

The origin of asymmetric charge and mass partitioning observed for gas-phase dissociation of multiply charged macromolecular complexes has been hotly debated. These experiments hold the potential to provide detailed information about the interactions between the macromolecules within the complex. Here, this unusual phenomenon of asymmetric charge partitioning is investigated for several protein homodimers. Asymmetric charge partitioning in these ions depends on a number of factors, including the internal energy, charge state, and gas-phase conformation of the complex, as well as the conformational flexibility of the protein monomer in the complex. High charge states of both cytochrome c and disulfide-reduced alpha-lactalbumin homodimers dissociate by a symmetrical charge partitioning process in which both fragment monomers carry away roughly an equal number of charges. In contrast, highly asymmetric charge partitioning dominates for the lower charge states. Cytochrome c dimer ions with eleven charges formed by electrospray ionization from two solutions in which the solution-phase conformation differs dissociate with dramatically different charge partitioning. These results demonstrate that these gas-phase complexes retain a clear "memory" of the solution from which they are formed, and that information about their solution-phase conformation can be obtained from these gas-phase dissociation experiments. Cytochrome c dimer ions formed from solutions in which the conformation of the protein is native show greater asymmetric charge partitioning with increasing ion internal energy. Cytochrome c dimers that are conformationally constrained with intramolecular cross-linkers undergo predominantly symmetric charge partitioning under conditions where asymmetric charge partitioning is observed for cytochrome c dimers without cross-links. Similar results are observed for alpha-lactalbumin homodimers. These results provide convincing evidence that the origin of asymmetric charge partitioning in these homodimers is the result of one of the protein monomers unfolding in the dissociation transition state. A mechanism that accounts for these observations is proposed.

Structures and reactivities of gaseous Fe(CN)(6)(3-)(H(2)O)n were investigated using infrared photodissociation (IRPD) kinetics, spectroscopy, and computational chemistry in order to gain insights into how water stabilizes highly charged anions. Fe(CN)(6)(3-)(H(2)O)(8) is the smallest hydrated cluster produced by electrospray ionization, and blackbody infrared dissociation of this ion results in loss of an electron and formation of smaller dianion clusters. Fe(CN)(6)(3-)(H(2)O)(7) is produced by the higher activation conditions of IRPD, and this ion dissociates both by loss of an electron and by loss of a water molecule. Comparisons of IRPD spectra to those of computed low-energy structures for Fe(CN)(6)(3-)(H(2)O)(8) indicate that water molecules either form two hydrogen bonds to the trianion or form one hydrogen bond to the ion and one to another water molecule. Magic numbers are observed for Fe(CN)(6)(3-)(H(2)O)n for n between 58 and 60, and the IRPD spectrum of the n = 60 cluster shows stronger water molecule hydrogen-bonding than that of the n = 61 cluster, consistent with the significantly higher stability of the former. Remarkably, neither cluster has a band corresponding to a free O-H stretch, and this band is not observed for clusters until n ≥ 70, indicating that this trianion significantly affects the hydrogen-bonding network of water molecules well beyond the second and even third solvation shells. These results provide new insights into the role of water in stabilizing high-valency anions and how these ions can pattern the structure of water even at long distances.

The formation of a salt bridge in deprotonated glycine dimer anions in a solvent-free environment is investigated using both infrared multiple photon dissociation spectroscopy between 600 and 1800 cm(-1) and theory. The zwitterionic and nonzwitterionic forms of glycine in this complex are computed to be nearly iso-energetic, yet predominantly the zwitterionic form is observed experimentally. The zwitterion stability is attributed to both the Coulombic attraction and the high stabilization from intramolecular hydrogen bonding that drives the energetic cost of proton transfer in a solvent free environment. These results show that there is a fine balance between the stabilities of these two forms of the anion. Elucidating the role of intrinsic factors, such as hydrogen bonding, can lead to a better understanding of the stabilities of salt bridges in the interiors of large proteins or at protein interfaces.

An improved model for the slow infrared laser photodissociation of large biomolecules is proposed. As has been previously shown by master equation and Monte Carlo calculations, large, laser-heated ...

Multiply charged ions are ideally suited to tandem mass spectrometry, where fragmentation efficiency and pathways are typically a strong function of charge. Addition of either of two compounds, m -nitrobenzyl alcohol ( m -NBA) or glycerol, to electrospray solutions results in an increase in the number of charges that can be added to gas-phase protein cations. Overall electrospray ionization (ESI) signal is not adversely affected by adding these compounds. Thus, these charge enhancers work by increasing the absolute number of higher charge state ions. This ability to enhance charge appears to be related to the high surface tensions of these compounds. Electrospray droplets consisting of solvents with higher surface tension require additional charging at the droplet surface in order to undergo Rayleigh fission. During the ion formation process, the higher density of charge at the droplet surface translates into higher charge states of the gas-phase analyte ion. Addition of m -NBA also enhances formation of high charge states of negative ions. For the synthetic polymer, poly(ethylene glycol) (PEG), addition of m -NBA results in an increase in the charge states by increasing the cationization of the polymer. In contrast, addition of glycerol results in a decrease in the charge states, presumably because it competes for sodium ions due to its high sodium affinity. Addition of 1–20% m -NBA to electrospray solutions can enhance the formation of higher charge state ions with no reduction in overall electrospray signal for a wide variety of analyte ions. This appears to be an ideal compound for enhancing high charge states for MS/MS and other experiments for which high charge states are desired.

The structures of hydrated guanidinium, Gdm(+)(H2O)n, where n = 1-5, were investigated with infrared photodissociation spectroscopy and with theory. The spectral bands in the free O-H (∼3600-3800 cm(-1)) and free N-H (∼3500-3600 cm(-1)) regions indicate that, for n between 1 and 3, water molecules bind between the NH2 groups in the plane of the ion forming one hydrogen bond with each amino group. This hydration structure differs from Gdm(+) in solution, where molecular dynamics simulations suggest that water molecules form linear H-bonds with the amino groups, likely a result of additional water-water interactions in solution that compete with the water-guanidinium interactions. At n = 4, changes in the free O-H and bonded O-H (∼3000-3500 cm(-1)) regions indicate water-water H-bonding and thus the onset of a second hydration shell. An inner shell coordination number of n = 3 is remarkably small for a monovalent cation. For Gdm(+)(H2O)5, the additional water molecule forms hydrogen bonds to other water molecules and not to the ion. These results indicate that Gdm(+) is weakly hydrated, and interactions with water molecules occur in the plane of the ion. This study offers the first experimental assignment of structures for small hydrates of Gdm(+), which provide insights into the unusual physicochemical properties of this ion.

Hydration of a protonated amine and a neutral carboxylic acid were investigated for protonated m-aminobenzoic acid (MABAH(+)) with up to 15 water molecules attached using infrared photodissociation spectroscopy, laser-induced dissociation kinetics, and computational chemistry. A free COO-H stretch in the spectra of MABAH(+)·(H2O)1-5 indicates that water does not bind to the carboxylic acid H atom. This band is absent in the spectrum of MABAH(+) with six or more water molecules attached, and there is a hydrogen-bonded (HB) COO-H stretch indicating that water hydrogen bonds to the carboxylic acid H atom for these larger clusters. Photodissociation kinetic data for MABAH(+)·(H2O)6 indicate that greater than 74 ± 13% of the ion population consists of the HB COO-H isomer, consistent with this isomer being ≥0.5 kJ mol(-1) lower in energy than isomers where the carboxylic acid H atom does not donate a hydrogen bond. Calculations at the B3LYP/6-31+G** and MP2/6-31+G**//B3LYP/6-31+G** levels of theory indicate that this energy difference is 3-5 kJ mol(-1), in agreement with the experimental results. Lower effective ion heating rates, either by attenuation of the laser power or irradiation of the ions at a lower frequency, result in more time for interconversion between the free and HB COO-H isomers. These data suggest that the barrier to dissociation for the free COO-H isomer is less than that for the HB COO-H isomer but greater than the barrier for interconversion between the two isomers. These results show the competition between hydration of a primary protonated amine vs that of a neutral carboxylic acid and the effect of water bridging between the two functional groups, which provide valuable insight into the hydration of protonated amino acids and establish rigorous benchmarks for theoretical modeling of water-biomolecule interactions.

The mode of metal ion and water binding to the amino acid valine is investigated using both theory and experiment. Computations indicate that without water, the structure of valine is nonzwitterionic. Both Li(+) and Na(+) are coordinated to the nitrogen and carbonyl oxygen (NO coordination), whereas K(+) coordinates to both oxygens (OO coordination) of nonzwitterionic valine. The addition of a single water molecule does not significantly affect the relative energies calculated for the cationized valine clusters. Experimentally, the rates of water evaporation from clusters of Val.M(+)(H(2)O)(1), M = Li, Na, and K, are measured using blackbody infrared radiative dissociation. The dissociation rate from the valine complex is compared to water evaporation rates from model complexes of known structure. These results indicate that the metal ion in the lithiated and the sodiated clusters is NO-coordinated to nonzwitterionic valine, while that in the potassiated cluster has OO coordination, in full agreement with theory. The zwitterionic vs nonzwitterionic character of valine in the potassiated cluster cannot be distinguished experimentally. Extensive modeling provides strong support for the validity of inferring structural information from the kinetic data.

Ion-pair formation via proton transfer from an acidic hydrogen of one functional group to a basic functional group plays an important role in the structure and reactivity of biomolecules in the gas phase. The relative stabilities of the ion-pair and the neutral-pair forms of five dimers composed of a basic molecule and a trifluoroacetic acid molecule were compared using density-functional calculations. The proton affinity of the basic molecules investigated ranged from 246 to 254 kcal/mol. The gas phase acidity of trifluoroacetic acid is 323.8 kcal/mol. The results of the B3LYP (6−311++G∗∗) calculations indicate that the structures of the dimers change from a neutral pair to an ion pair as the proton affinity of the bases increases. This result is consistent with previous blackbody infrared radiative dissociation experiments on protonated trimolecular complexes (or trimers) consisting of two basic molecules and trifluoroacetic acid, which indicates that the predominant structure of the trimer changes from a charge-solvation structure to a salt bridge structure with the increasing gas phase basicity of the base. The electrostatic character of the interaction between the basic molecule and the trifluoroacetic acid molecule was determined using the natural energy-decomposition analysis (NEDA) program. In the ion pair, a majority (69%–77%) of the attractive energy of the dimer is comprised of the electrostatic component. Two models are derived that include the acidity of the acidic molecule, the proton affinity of the basic molecule, and an electrostatic binding term for both the ion pair and the neutral pair. Several nonelectrostatic interaction terms can be replaced by a single correction or constant term so that both models, one using NEDA electrostatic terms and the other using integration of point-charge interactions, provide reasonably accurate results. This indicates that electrostatic models similar to the ones used here may be useful in studying salt bridge formation in larger molecules.

Results from infrared photodissociation (IRPD) spectroscopy and kinetics of singly hydrated, protonated proline indicate that the water molecule hydrogen bonds preferentially to the formally neutral carboxylic acid at low temperatures and at higher temperatures to the protonated N-terminus, which bears the formal charge. Hydration isomer populations obtained from IRPD kinetic data as a function of temperature are used to generate a van't Hoff plot that reveals that C-terminal binding is enthalpically favored by 4.2-6.4 kJ/mol, whereas N-terminal binding is entropically favored by 31-43 J/(mol K), consistent with a higher calculated barrier for water molecule rotation at the C-terminus.

The effects of solvent composition on both the maximum charge states and charge state distributions of analyte ions formed by electrospray ionization were investigated using a quadrupole mass spectrometer. The charge state distributions of cytochrome c and myoglobin, formed from 47%/50%/3% water/solvent/acetic acid solutions, shift to lower charge (higher m/z) when the 50% solvent fraction is changed from water to methanol, to acetonitrile, to isopropanol. This is also the order of increasing gas-phase basicities of these solvents, although other physical properties of these solvents may also play a role. The effect is relatively small for these solvents, possibly due to their limited concentration inside the electrospray interface. In contrast, the addition of even small amounts of diethylamine (

Interactions between divalent metal ions and biomolecules are common both in solution and in the gas phase. Here, the intrinsic effect of divalent alkaline earth metal ions (Be, Mg, Ca, Sr, Ba) on the structure of glycine in the absence of solvent is examined. Results from both density functional and Moller–Plesset theories indicate that for all metal ions except beryllium, the salt-bridge form of the ion, in which glycine is a zwitterion, is between 5 and 12 kcal/mol more stable than the charge-solvated structure in which glycine is in its neutral form. For beryllium, the charge-solvated structure is 5–8 kcal/mol more stable than the salt-bridge structure. Thus, there is a dramatic change in the structure of glycine with increased metal cation size. Using a Hartree–Fock-based partitioning method, the interaction between the metal ion and glycine is separated into electrostatic, charge transfer and deformation components. The charge transfer interactions are more important for stabilizing the charge-solvated structure of glycine with beryllium relative to magnesium. In contrast, the difference in stability between the charge-solvated and salt-bridge structure for magnesium is mostly due to electrostatic interactions that favor formation of the salt-bridge structure. These results indicate that divalent metal ions dramatically influence the structure of this simplest amino acid in the gas phase.

Electrospray ionization (ESI) mass spectrometry (MS) is a powerful technique for obtaining molecular weights and structural information from biopolymers [1–5]. The application of mass spectrometry methods to the analysis of oligonucleotides has recently been reviewed [4, 5]. The base composition of DNA strands can be obtained from accurate mass measurements of double stranded DNA [6]. Sequence information can be obtained from both single and double stranded DNA using tandem mass spectrometry (MSn) [4, 5, 7–9]. Using several dissociation methods, McLafferty and co-workers obtained complete sequence information for a 50-mer nucleotide and nearly complete sequence information for a 100-mer [7]. Sequence construction algorithms have been used to determine the primary structure of oligonucleotides up to 20-mers from low energy collisional activation spectra [9]. In combination with solution-phase techniques, such as the Sanger method, MS and MSn have been used to verify sequences of DNA [4]. Mass spectrometry techniques have also been applied to the identification of antisense [10], labeled [11], and posttranscriptionally modified [12] oligonucleotides where other methods are often unsuitable. In ESI, gas-phase ions are formed directly from solution. This makes possible the direct coupling of mass spectrometry to solution-based separation and amplification techniques, such as HPLC or PCR. For example, Muddiman et al. demonstrated that sequence information can be obtained from oligonucleotides after amplification using PCR [13]. Noncovalent complexes are often observed in ESI mass spectra if source conditions are adjusted to minimize collisional activation in the electrospray interface. Many studies on the interaction of biomolecular complexes in the gas phase have been reported, including DNA–protein [14] and DNA–drug complexes [15] and DNA duplexes [16–19]. In the condensed phase, Watson–Crick hydrogen bonding between guanosine–cytosine and adenosine–thymidine pairs plays a fundamental role in the structure of DNA duplexes [20]. Recent results show that Watson–Crick base pairing can be retained for short duplexes in the gas phase (4- to 7-mers) [19]. This conclusion was based partially on dissociation activation energies for several complementary and non-complementary oligonucleotide dimers measured using blackbody infrared radiative dissociation (BIRD). For the complementary duplexes, the gas-phase activation energies were correlated to the binding energies in solution. The interactions between individual nucleobases have also been extensively studied in the condensed phase [20–24]. The binding energies of guanine–cytidine have been measured in chloroform and dimethyl sulfoxide using IR spectroscopy [20–23]. The structure in DCCl3 and deuterated dimethyl sulfoxide solution has been determined using NMR and in the solid phase using X-ray crystallography [20, 23]. In these nonaqueous solutions and in crystalline form, guanine and cytidine are Watson–Crick paired. Gas-phased dimer formation enthalpies of derivatized nucleobases have been measured. The energy for G · C is significantly greater than that of any of the other pairs [18]. Ab initio calculations have provided both binding energies and structures of guanine–cytidine pair in the absence of solvent [24–26]. However, the more rigorous calculations only include the nucleobase pairs and no phosphate and deoxyribose moieties. The binding energy of the Watson–Crick pairs determined from Moller–Plesset ab initio calculations are quite strong, 23.7 and 12.9 kcal/mol for G · C and A · T, respectively [24]. These values are in good agreement with those measured for derivatized nucleobases in vacuo [18]. Here, the dissociation kinetics and pathways of several nucleotide dimers are investigated. Threshold dissociation energetics are obtained using BIRD. From these values, information about the structure of these dimers is deduced. Molecular mechanics is used to obtain low energy structures for all nucleotides. The combination of both experiment and theory suggest that Watson–Crick hydrogen bonding for the guanosine–cytosine pair is retained in the gas phase.

The evaporation of water from hydrated alkaline earth metal ions, produced by electrospray ionization, was studied in a Fourier transform mass spectrometer. Zero-pressure-limit dissociation rate constants for loss of a single water molecule from the hydrated divalent metal ions, M2+(H2O)n (M = Mg, Ca, and Sr for n = 5–7, and M = Ba for n = 4–7), are measured as a function of temperature using blackbody infrared radiative dissociation. From these values, zero-pressure-limit Arrhenius parameters are obtained. By modeling the dissociation kinetics using a master equation formalism, threshold dissociation energies (Eo) are determined. These reactions should have a negligible reverse activation barrier; therefore, Eo values should be approximately equal to the binding energy or hydration enthalpy at 0 K. For the hepta- and hexahydrated ions at low temperature, binding energies follow the trend expected on the basis of ionic radii: Mg > Ca > Sr > Ba. For the hexahydrated ions at high temperature, binding energies follow the order Ca > Mg > Sr > Ba. The same order is observed for the pentahydrated ions. Collisional dissociation experiments on the tetrahydrated species result in relative dissociation rates that directly correlate with the size of the metals. These results indicate the presence of two isomers for hexahydrated magnesium ions: a low-temperature isomer in which the six water molecules are located in the first solvation shell, and a high-temperature isomer with the most likely structure corresponding to four water molecules in the inner shell and two water molecules in the second shell. These results also indicate that the pentahydrated magnesium ions have a structure with four water molecules in the first solvation shell and one in the outer shell. The dissociation kinetics for the hexa- and pentahydrated clusters of Ca2+, Sr2+, and Ba2+ are consistent with structures in which all the water molecules are located in the first solvation shell.

The proton affinities of a series of polyglycines were calculated as a function of molecular size up to Gly 10 . Molecular mechanics calculations using the Merck molecular mechanics force field were used to find lowest energy structures. These structures were used as starting geometries for both semiempirical and density functional calculations. Local density approximation density functional theory (DFT) (Slater exchange/VWN correlation or S-VWN, 6-31G∗) was used to refine the geometries obtained from the mechanics. B3LYP (6-31G∗) energies were calculated using these S-VWN geometries. The results of these calculations are compared to previously measured experimental data. The average deviation between the B3LYP and S-VWN proton affinities and the experimentally measured values of Fenselau and co-workers [J. Am. Soc. Mass Spectrom. 3 (1992) 863] are 4.0 and 2.0 kcal/mol, respectively. Better agreement to the experimentally measured values is obtained if the proton affinities are normalized to that of glycine. As expected, the DFT values are in better agreement than the semiempirical (AM1 and PM3) values. For the semiempirical methods, the average deviation from the proton affinities measured by Fenselau and co-workers (all data normalized to glycine) is ∼4.5 kcal/mol. For proton affinities calculated with B3LYP hybrid functionals, this average deviation is only 1.2 kcal/mol (this deviation does not directly reflect the accuracy of the calculations since there are errors in both the experimental and calculated values). For pentaglycine, optimization was performed at the B3LYP 6-311G∗∗ level; the proton affinity differed by only 1 kcal/mol over that calculated at the 6-31G∗ level. This suggests that the lower basis set is sufficient for this application. The energies of the zwitterionic forms of Gly n ( n = 4, 5, 7, and 10) were compared to those of the simple protonated form. The zwitterion form of each polyglycine was found to be less stable at all levels of theory. These results suggest that it is possible to obtain accurate thermochemical data using mechanics and DFT calculations even for these relatively large molecules.

The unimolecular reactivity of M2+(H2O)2, M = Be, Mg, Ca, Sr, and Ba, is investigated by density functional theory. Dissociation of the complex occurs either by proton transfer to form singly charged metal hydroxide, MOH+, and protonated water, H3O+, or by loss of water to form M2+(H2O) and H2O. Charge transfer from water to the metal forming H2O+ and M+(H2O) is not favorable for any of the metal complexes. The relative energetics of these processes are dominated by the metal dication size. Formation of MOH+ proceeds first by one water ligand moving to the second solvation shell followed by proton transfer to this second-shell water molecule and subsequent Coulomb explosion. These hydroxide formation reactions are exothermic with activation energies that are comparable to the water binding energy for the larger metals. This results in a competition between proton transfer and loss of a water molecule. The arrangement with one water ligand in the second solvation shell is a local minimum on the potential e...

Several amine-containing components of individual vesicles from the atrial gland of Aplysia californica were identified with capillary electrophoresis (CE). On-line derivatization with naphthalene-2,3-dicarboxaldehyde was performed, and the derivatized amine-containing components were detected with laser-induced fluorescence (LIF). Amino acids, including taurine, that had not been determined previously in atrial gland vesicles were observed by using CE-LIF, and their identities were confirmed with CE, HPLC, NMR, and electrospray ionization mass spectrometry. The finding that taurine is packaged and stored into secretory vesicles supports the hypothesis that taurine may exhibit neuromodulatory activity. The bioactive peptides, well-known to be in atrial gland vesicles, were detected in lysed vesicle samples fractionated with HPLC and analyzed by matrix-assisted laser desorption/ionization time-of-flight mass spectrometry. These peptides were also observed in single-vesicle runs with CE-LIF. The atrial gland vesicles (ranging from 0.5 to 2 microns diameter and 65 aL to 4 fL volume, respectively) studied in this work represent the smallest biological entities to be analyzed chemically on an individual basis.

A new method that makes possible, for the first time, simultaneous acquisition of individual dissociation mass spectra of isomeric ions in mixtures is presented. This method exploits the exquisite sensitivity of blackbody infrared radiative dissociation kinetics to minor differences in ion structure. Instead of separating precursor ions based on mass (isomers have identical mass), fragment ions are related to their original precursor ions on the basis of rate constants for dissociation. Mixtures of the peptide isomers des-R1 and des-R9 bradykinin are dissociated simultaneously at several temperatures. By fitting the kinetic data to double-exponential functions, the dissociation rate constant and abundance of each isomer in the mixture are obtained. To overcome the difficulty of fitting double-exponential functions, a novel global analysis method is used in which several dissociation data sets collected at different temperatures are simultaneously fit. The kinetic data measured at multiple temperatures are modeled with the preexponentials (corresponding to the abundance of each isomer) as “global” parameters which are constant for all data sets and the exponentials (rate constants) as “local” variables which differ for each data set. The use of global parameters significantly improves the accuracy with which abundances and dissociation rate constants of each individual compound can be obtained from the mixture data. Fragment ions produced from a mixture of these two isomers are related back to their respective precursor ions from the kinetic data. Thus, not only can the composition of the isomeric mixture be determined but an individual tandem mass spectrum of each component in the mixture can be obtained.

The dissociation kinetics of protonated n-acetyl-L-alanine methyl ester dimer (AcAlaME(d)), imidazole dimer, and their cross dimer were measured using blackbody infrared radiative dissociation (BIRD). Master equation modeling of these data was used to extract threshold dissociation energies (E(o)) for the dimers. Values of 1.18 +/- 0.06, 1.11 +/- 0.04, and 1.12 +/- 0.08 eV were obtained for AcAlaME(d), imidazole dimer, and the cross dimer, respectively. Assuming that the reverse activation barrier for dissociation of the ion-molecule complex is negligible, the value of E(o) can be compared to the dissociation enthalpy (DeltaH(d) degrees ) from HPMS data. The E(o) values obtained for the imidazole dimer and the cross dimer are in agreement with HPMS values; the value for AcAlaME(d) is somewhat lower. Radiative rate constants used in the master equation modeling were determined using transition dipole moments calculated at the semiempirical (AM1) level for all dimers and compared to ab initio (RHF/3-21G*) calculations where possible. To reproduce the experimentally measured dissociation rates using master equation modeling, it was necessary to multiply semiempirical transition dipole moments by a factor between 2 and 3. Values for transition dipole moments from the ab initio calculations could be used for two of the dimers but appear to be too low for AcAlaME(d). These results demonstrate that BIRD, in combination with master equation modeling, can be used to determine threshold dissociation energies for intermediate size ions that are in neither the truncated Boltzmann nor the rapid energy exchange limit.

The application of MS to the analysis of large biomolecules has undergone explosive growth in the past 10 years. With the development of electrospray ionization (ESI) (1, 2) and matrix-assisted laser desorption/ionization (MALDI) (3), intact molecular ions of large molecules with molecular weights up to hundreds of megadaltons can now be formed and mass analyzed. These ionization methods have placed increasing demands on the performance of mass analyzers, challenging analytical chemists to develop new MS instrumentation and methods for obtaining molecular weight and structural information. MALDI has led to the resurgence of time-of-flight MS and new methods for increasing mass accuracy, sensitivity, and resolution. Similarly, mass analysis of multiply charged ions in the hundred-megadalton range, formed by ESI, has required the development of innovative detection methods. Tandem MS (MS/MS)—in which a precursor ion is mass selected from a mixture, dissociated or reacted, and the product ions are mass analyzed—has become a powerful method for analyzing complex mixtures of small molecules and solving “needle-in-the-haystack” problems. The dissociation and chemical reactivity of small ions have been extensively studied by a wide range of techniques, and a significant amount of information about energetics and mechanisms has been obtained (4). As a result, MS/MS has become a powerful analytical tool for characterizing trace quantities of compounds in complex mixtures. By comparison, the chemistry and structure of larger (>5 kDa) gas-phase ions is less well-known. However, significant advances have been made in recent years in instrumentation and structural characterization methods. These developments have made possible new applications of MS/MS for solving important problems in biochemistry and medicine, including obtaining sequence information, locating positions of post-translational modifications and binding sites, and identifying proteins found in cells. For MS/MS applications, ESI has an advantage because the technique forms multiply charged ions of large molecules with m/z values that are typically 500–2500. For molecules larger than ~3500 Da, multiple charging facilitates ion dissociation and the production of more structurally useful fragments than those obtained from the singly charged ions typically produced by MALDI. Various types of mass spectrometers are used for MS/MS experiments of ESI-generated ions. Of these instruments, Fourier transform MS (FTMS) has several powerful capabilities that make it well-suited to this application (5, 6). These capabilities include ultrahigh mass resolution (>105 at m/z 1000); ion remeasurement; multichannel detection over a wide mass range; long ion storage times; and extensive MSn capabilities, including two-dimensional methods for simultaneously recording MS/MS and MSn spectra (7). The combination of ESI with FTMS is becoming one of the most powerful methods for the structural analysis of large biomolecules. This Report covers selected topics that illustrate the type of information that is currently obtainable by ESI-FTMS. More comprehensive reviews on both ESI (1, 2) and FTMS (5–7) are available.

Secretory vesicles obtained from the atrial gland of the gastropod mollusk Aplysia californica were chemically analyzed individually with a combination of optical trapping, capillary electrophoresis separation, and a laser-induced fluorescence detection. With the use of optical trapping, a single vesicle that had attoliters (10 −18 liters) of volume was introduced into the tapered inlet of a separation capillary. Once the vesicle was injected, it was lysed, and its components were fluorescently labeled with naphthalene-2,3-dicarboxaldehyde before separation. The resultant electropherograms indicated distinct variations in the contents of single vesicles.

Arrhenius activation energies in the zero-pressure limit for dissociation of gas-phase proton-bound homodimers of N,N-dimethylacetamide (N,N-DMA), glycine, alanine, and lysine and the heterodimer alanine.glycine were measured using blackbody infrared radiative dissociation (BIRD). In combination with master equation modeling of the kinetic data, binding energies of these dimers were determined. A value of 1.25 +/- 0.05 eV is obtained for N,N-DMA and is in excellent agreement with that reported in the literature. The value obtained from the truncated Boltzmann model is significantly higher, indicating that the assumptions of this model do not apply to these ions. This is due to the competitive rates of photon emission and dissociation for these relatively large ions. The binding energies of the amino acid dimers are ~1.15 +/- 0.05 eV and are indistinguishable despite the difference in their gas-phase basicity and structure. The threshold dissociation energies can be accurately modeled using a range of dissociation parameters and absorption/emission rates. However, the absolute values of the dissociation rates depend more strongly on the absorption/emission rates. For N,N-DMA and glycine, an accurate fit was obtained using frequencies and transition dipole moments calculated at the ab initio RHF/2-31G* and MP2/2-31G* level, respectively. In order to obtain a similar accuracy using values obtained from AM1 semiempirical calculations, it was necessary to multiply the transition dipole moments by a factor of 3. These results demonstrate that in combination with master equation modeling, BIRD can be used to obtain accurate threshold dissociation energies of relatively small ions of biological interest.

The effects of eight different cations with ionic radii between 69 and 337 pm on the charging of peptides and proteins with electrospray ionization from aqueous acetate salt solutions are reported. Significant adduction occurs for all cations except NH4(+), and the average protein charge is lower when formed from solutions containing salts compared with solutions without salts added. Circular dichroism and ion mobility results show the protein conformations are different in pure water compared with salt solutions, which likely affects the extent of charging. The average charge of protein and peptide ions formed from solutions with Li(+) and Cs(+), which have Gibbs solvation free energies (GSFEs) that differ by 225 kJ/mol, is similar. Lower charge states are typically formed from solutions with tetramethylammonium and tetraethylammonium that have lower GSFE values. Loss of the larger cations that have the lowest GSFEs is facile when adducted protein ions are collisionally activated, resulting in the formation of lower analyte charge states. This reaction pathway provides a route to produce abundant singly protonated protein ions under native mass spectrometry conditions. The average protein and peptide charge with NH4(+) is nearly the same as that with Rb(+) and K(+), cations with similar GSFE and ionic radii. This indicates that proton transfer from NH4(+) to proteins plays an insignificant role in the extent of protein charging in native mass spectrometry.

The origin of enhanced abundances for some hydrated alkali metal ions, M(+)(H2O)n, where M = Cs, Rb, K, Na, and Li with between 17 and 21 water molecules attached was investigated with infrared photodissociation (IRPD) spectroscopy and by blackbody infrared radiative dissociation (BIRD) at 133 K. The abundances of clusters of Cs(+), Rb(+), and K(+) with 18 and 20 water molecules are anomalously high compared to the corresponding clusters of Na(+), and Li(+) with 20 water molecules has only a slightly enhanced abundance. BIRD results indicate that the anomalous abundance at n = 20 for the larger ions is due to the high stability of this cluster, and the significant instability of the next largest cluster, consistent with a stable core structure with 20 water molecules. IRPD spectra in the free-OH region (∼3600-3800 cm(-1)) for Cs(+), Rb(+), and K(+) with 18 and 20 water molecules indicates that water molecules with a free-OH stretch accept two hydrogen bonds and donate one hydrogen bond (acceptor-acceptor-donor water) to other water molecules. No acceptor-donor (AD) bands are observed, consistent with clathrate structures for these ions. In contrast, the AD band is significant for Na(+), indicating that these clusters adopt different structures. Results for Li(+) indicate a contribution from clathrate structures at n = 20, but not at other cluster sizes. This analysis is supported by the relative intensities of bands in the hydrogen-bonding region for n = 20.

Complexes of mono-, bi- (RB), and tridentate (RT) receptors with a range of anions (Cl(-), Br(-), I(-), NO3(-), H2PO4(-), HSO4(-), and tosylate (TsO(-))) have been studied in the gas phase by both experimental and theoretical methods. Temperature dependent blackbody infrared radiative dissociation (BIRD) experiments were performed on complexes of C8F17I with Br(-) and I(-), RB with I(-), NO3(-), HSO4(-), H2PO4(-), and TsO(-), and RT with I(-), HSO4(-) and TsO(-) and the observed Arrhenius parameters are reported here. Master equation modeling of the BIRD kinetics data was carried out to determine threshold dissociation energies. Geometry optimizations and thermochemistry calculations were performed using the B3LYP/6-31+G(d,p) level of theory. Additional single point energies were calculated using MP2/6-311++G(2d,p). Results were examined in terms of the binding order of various anions as well as the added binding strength from additional halogen bonding (XB) interactions. The relative binding energies of ions were generally consistent with the ordering previously reported from solution phase experiments; however, the relatively strong binding of H2PO4(-) to the bidentate receptor contrasted the solution phase observation of oxoanions having weaker interactions when compared to halides. An increase in the energy required to remove the same anion from the tridentate receptor when compared to the bidentate and monodentate receptors is explained as being due to the increase in halogen bonding interactions. The possibility of mixed halogen and hydrogen bonded complexes were considered.

The dissociation pathways of both doubly and singly charged methonium ions, (CH(3))(3)N(+) -(CH(2))(n)-(+)N(CH(3))(3)·X(-) (n = 6,10; X = Br, I, and OAc), are measured using blackbody infrared radiative dissociation (BIRD) and SORI-CAD in a Fourier transform mass spectrometer. SORI-CAD of the doubly charged decamethonium ions results primarily in the formation of even electron ions by hydrogen rearrangements. In contrast, homolytic bond cleavage to form two odd electron ions is highly favored in the hexamethonium ion, presumably due to increased Coulomb repulsion in this ion. For BIRD of the singly charged salts, ions are mass selected and dissociated by heating the vacuum chamber to elevated temperatures. Under the low pressure conditions of our experiment, energy is transferred from the chamber walls to the ions by the absorption of blackbody radiation. From the temperature dependence of the unimolecular rate constants for dissociation, Arrhenius activation energies in the zero-pressure limit are obtained. The primary dissociation pathways correspond to counterion substitution reactions which result in loss of N(CH(3))(3) and CH(3)X. For hexamethonium and decamethonium with X = Br or I, the branching ratios for these pathways differ dramatically; the ratio of loss of N(CH(3))(3) and CH(3)Br is 3.8 and 0.4 for hexamethonium and decamethonium bromide, respectively. The hexamethonium acetate salt has a branching ratio of 0.1. The Arrhenius activation energies for hexamethonium (Br or I) and decamethonium (Br or I) are 0.9 and 1.0 eV, respectively. This value for hexamethonium acetate is 0.6 eV. Molecular dynamics simulations and Monte Carlo conformation searching are used to obtain the lowest energy structures of hexamethonium and decamethonium bromide. These calculations indicate that the methonium ion folds around the counterion to form a cyclic salt-bridge structure in which both quaternary nitrogens interact with the oppositely charged counterion. The significantly different branching ratios observed for these ions is attributed to the large change in orientation of the counterion with respect to the ammonium centers as the number of methylene groups in these ions increases. Similar ion conformational differences appear to explain the fragmentation for the OAc counter ion as well.

Proton transfer reactivity of isolated charge states of the protein hen egg-white lysozyme shows that multiple distinct conformations of this protein are stable in the gas phase. The reactivities of the 9+ and 10+ charge state ions, formed by electrospray ionization of "native" (disulfide-intact) and "denatured" (disulfide-reduced) solutions, are consistent with values calculated for ions in their crystal structure and fully denatured conformations, respectively. Charge states below 8+ of both forms, formed by proton stripping, have similar or indistinguishable reactivities, indicating that the disulfide-reduced ions fold in the gas phase to a more compact conformation.