Partitioning model for competitive host-guest complexation in ESI-MS

Mathematical models based on equilibrium partitioning theory were developed to relate ion abundances produced by electrospray ionization mass spectrometry with solution concentrations of complexes resulting from competitive host-guest binding. Through modeling the possible equilibria in the electrospray droplets, including the partitioning between the droplet surface and interior that dictate what ions are generated by an electrospray, the factors responsible for distorting the distribution of ions from their solution concentrations were evaluated. Experiments with crown ether-alkali metal complexes confirm the validity of the models and yield a greater understanding of the behavior of host-guest complexes in ESI-MS, allowing for more accurate and less trouble-prone measurements of solution binding interactions.     

Equilibrium partitioning model applied to RDX-halide adduct formation in electrospray ionization mass spectrometry

An equilibrium partitioning model is applied for the first time to the sequential formation of 1:1 and then 2:1 adducts between the high explosive cyclo-1,3,5-trimethylene-2,4,6-trinitramine (RDX) and halide anions fluoride, chloride, bromide, and iodide in electrospray ionization interface (ESI) mass spectrometry. The equilibrium partitioning model is developed and model calculations are presented to demonstrate the generic behavior of the system, which is in qualitative agreement with the observed changes in 1:1 (RDX-halide) and 2:1 (RDX-halide) responses in ESI-MS. The model is successfully applied to the experimental data with the use of octanol-water partitioning coefficients to predict interior-to-surface partitioning behavior of the complexes in droplets formed in the ESI. The data and model suggest that the significantly more hydrophobic 2:1 complexes are readily observed in ESI-MS, even though their formation constants may be several orders of magnitude less than that of the 1:1 complex. Structures for RDX-halide 1:1 and 2:1 complexes are proposed based on ion-dipole attractions and destabilizing dipole-dipole interactions.     

Pulsed hydrogen/deuterium exchange MS/MS for studying the relationship between noncovalent protein complexes in solution and in the gas phase after electrospray ionization

Electrospray ionization mass spectrometry (ESI-MS) has become a standard method for monitoring noncovalent protein-protein interactions. Studies employing this approach tend to operate on the premise that the ionic species observed in the mass spectrum directly reflect the corresponding solution-phase protein quaternary structures. However, dissociation or clustering events taking place during ESI may lead to disparities between the ions observed in the mass spectrum and the protein binding state in bulk solution. Recognizing the occurrence of dissociation or clustering artifacts is not straightforward, leading to possible ambiguities in the interpretation of ESI-MS data. This work employs on-line pulsed hydrogen-deuterium exchange (HDX) for probing the origin of various species in the ESI mass spectrum of hemoglobin. In addition to the canonical hemoglobin tetramer, ESI-MS reveals the presence of monomers, dimers, hexamers, and octamers. Tandem mass spectrometry (MS/MS) is used for extracting HDX levels in a subunit-specific manner. Dimeric species exhibit exchange levels that are significantly above those of the tetramer. Monomeric hemoglobin subunits are labeled to an even greater extent. This HDX pattern implies that monomers and dimers do not represent dissociation artifacts generated during ESI. Instead, they are derived from preexisting solution-phase structures. In contrast, hexamers and octamers exhibit HDX levels that resemble those of the tetramer, thus identifying these larger species as nonspecific clustering artifacts. Overall, it appears that the pulsed HDX MS/MS approach introduced in this work represents a widely applicable tool for deciphering the relationship between ESI mass spectra and protein quaternary structures in solution.     

Ambient mass spectrometry with a handheld mass spectrometer at high pressure

The first coupling of atmospheric pressure ionization methods, electrospray ionization (ESI) and desorption electrospray ionization (DESI), to a miniature hand-held mass spectrometer is reported. The instrument employs a rectilinear ion trap (RIT) mass analyzer and is battery-operated, hand-portable, and rugged (total system: 10 kg, 0.014 m(3), 75 W power consumption). The mass spectrometer was fitted with an atmospheric inlet, consisting of a 10 cm x 127 microm inner diameter stainless steel capillary tube which was used to introduce gas into the vacuum chamber at 13 mL/min. The operating pressure was 15 mTorr. Ions, generated by the atmospheric pressure ion source, were directed by the inlet along the axis of the ion trap, entering through an aperture in the dc-biased end plate, which was also operated as an ion gate. ESI and DESI sources were used to generate ions; ESI-MS analysis of an aqueous mixture of drugs yielded detection limits in the low parts-per-billion range. Signal response was linear over more than 3 orders of magnitude. Tandem mass spectrometry experiments were used to identify components of this mixture. ESI was also applied to the analysis of peptides and in this case multiply charged species were observed for compounds of molecular weight up to 1200 Da. Cocaine samples deposited or already present on different surfaces, including currency, were rapidly analyzed in situ by DESI. A geometry-independent version of the DESI ion source was also coupled to the miniature mass spectrometer. These results demonstrate that atmospheric pressure ionization can be implemented on simple portable mass spectrometry systems.     

Host-guest chemistry in the gas phase: selected fragmentations of CB[6]-peptide complexes at lysine residues and its utility to probe the structures of small proteins

The gas phase host-guest chemistry between cucurbit[6]uril (CB[6]) and peptide is investigated using electrospray ionization mass spectrometry (ESI-MS). CB[6] exhibits a high preference to interacting with a Lys residue in a peptide forming a CB[6]-peptide complex. Collisionally activated CB[6] complexes of peptides yield a common highly selective fragment product at m/z 549.2, corresponding to the doubly charged CB[6] complex of 5-iminiopentylammonium (5IPA). The process involves the formation of an internal iminium ion, which results from further fragments to an a-type ion from a y-type ion, and the resulting 5IPA ion threads through CB[6]. Numerous peptides are investigated to test the generality of the observed unique host-guest chemistry of CB[6]. Its potential utility in probing protein structures is demonstrated using CB[6] complexes of ubiquitin. Low-energy collision induced dissociation yields CB[6] complex fragments, and further MS(n) spectra reveal details of the CB[6] binding sites, which allow us to deduce the protein structure in the solution phase. The mechanisms and energetics of the observed reactions are evaluated using density functional theory calculations.     

Signal response of coexisting protein conformers in electrospray mass spectrometry

Electrospray ionization mass spectrometry (ESI-MS) is a commonly used tool for characterizing conformational changes of proteins in solution. Different conformations can be distinguished on the basis of their ESI charge state distributions. ESI-MS studies carried out under semidenaturing conditions result in bi- or multimodal distributions that reflect the presence of coexisting conformers. This study explores whether the concentration ratios of these species in solution are reflected in the measured ion intensities. Experiments on two model proteins, lysozyme and myoglobin, reveal that non-native polypeptide chains tend to result in a much stronger signal response than natively folded species. The measured ion intensity ratios can differ from the actual concentration ratios by as much as 2 orders of magnitude. It is proposed that the higher ionization efficiency of unfolded proteins is due to their partially hydrophobic character, which results in a larger surface activity and facilitates protein transfer into ion-producing progeny droplets. Conversely, natively folded proteins have a lower affinity for the air/liquid interface, such that ionization of these conformers is suppressed. The extent of ion suppression is strongly dependent on the experimental conditions such as flow rate and protein concentration, which determine if ESI occurs in a charge deficient or a charge surplus regime. These aspects should be taken into account for the design of ESI-MS-based protein folding experiments and for studies that use ion intensity ratios for the determination of protein-ligand binding affinities.     

Relating electrospray ionization response to nonpolar character of small peptides

Nonpolar regions in biological molecules are investigated as a determining factor governing their electrospray ionization (ESI) mass spectrometric response. Response is compared for a series of peptides whose C-terminal residue is varied among amino acids with increasingly nonpolar side chains. Increased ESI response is observed for peptides with more extensive nonpolar regions. The basis for this increase is examined by comparing values of nonpolar surface area and Gibbs free energy of transfer for the different amino acid residues. Comparisons of response with octadecylamine are also made, and this highly surface-active ion is observed to outcompete all other analytes in ESI response. These observations are rationalized on the basis of the equilibrium partitioning model, which is used successfully to fit experimental data throughout the concentration range for several two-analyte systems. This model suggests that because excess charge exists on ESI droplet surfaces, an analyte's relative affinity for the droplet surface determines its relative ESI response. Increased nonpolar character, which leads to enhanced affinity for the surface phase, results in more successful competition for excess charge and higher ESI response.     

Combined partial acid hydrolysis and electrospray ionization-mass spectrometry for the structural determination of oligosaccharides

A general oligosaccharide acid hydrolysis method, amenable to electrospray ionization mass spectrometry (ESI-MS), is described that allows for hydrolysis of glycosidic bonds for both hexose- and N-acetylhexosamine-containing oligosaccharides. The partial acid hydrolysis of oligosaccharides is obtained by using an acid-exchange resin as the acid catalyst. A ladder sequence of the glycan is produced in solution that is directly analyzed by ESI tandem mass spectrometry, employing both ion trap and Fourier transform ion cyclotron resonance mass spectrometers, to provide sequence and linkage information. Unlike traditional acid hydrolysis procedures, there is minimal degradation of monosaccharide residues or deacetylation of N-acetylhexosamines by employing this technique. It is further demonstrated that the stereochemistry of the released monosaccharides and the anomeric configuration within disaccharides is determined by direct derivatization of the hydrolysate with Zn(dien)-Cl2 followed by ESI-MS/MS.     

Electrochemically induced pH changes resulting in protein unfolding in the ion source of an electrospray mass spectrometer.

The operation of an electrospray ion source in the positive ion mode involves charge-balancing oxidation reactions at the liquid/metal interface of the sprayer capillary. One of these reactions is the electrolytic oxidation of water. The protons generated in this process acidify the analyte solution within the electrospray capillary. This work explores the effects of this acidification on the electrospray ionization (ESI) mass spectrum of the protein cytochrome c (cyt c). In aqueous solution containing 40% propanol, cyt c unfolds around pH 5.6. Mass spectra recorded under these conditions, using a simple ESI series circuit, display a bimodal charge-state distribution that reflects an equilibrium mixture of folded and unfolded protein in solution. These spectra are not strongly affected by electrochemical acidification. An "external loop" is added to the ESI circuit when the metal needle of the sample injection syringe is connected to ground. The resulting circuit represents two coupled electrolytic cells that share the ESI capillary as a common anode. Under these conditions, the rate of charge-balancing oxidation reactions is dramatically increased because the ion source has to supply electrons for both, the external circuit and the ESI circuit. The analytical implications of this effect are briefly discussed. Mass spectra of cyt c recorded with the syringe needle grounded are shifted to higher charge states, indicating that electrochemical acidification has caused the protein to unfold in the ion source. The acidification can be suppressed by increasing the flow rate and lowering the electrolyte concentration of the solution and by using an electrolyte that acts as redox buffer. The observed acidification is similar for sprayer capillaries made of platinum and stainless steel. Removal of the protective oxide layer on the stainless steel surface results in effective redox buffering for a few minutes.     

Solvation energy and gas-phase stability influences on alkali metal cluster ion formation in electrospray ionization mass spectrometry

The ability to observe abundant gas-phase metal cluster ions in electrospray ionization mass spectrometry (ESI-MS) is highly dependent on experimental conditions. Alkali halides (MX) and other alkali metal salts were used to investigate the formation of cluster ions in ESI-MS. All compounds were found to give cluster ions of the form (M(n)(+1)X(n))(+) and (M(n)X(n+1))(-), with only two alkali salts yielding doubly charged cluster ions. In homologous alkali halide series, the relative abundances of cluster ions increased with increasing size of either the cation (positive ion mode) or the anion (negative ion mode). Calculations using an electrostatic model show that the gas-phase stability of cluster ions is greater for smaller cations or anions when a fixed counterion is employed. This stability calculation goes in a direction just opposite to the trend in cluster ion abundances observed in ESI-MS. Studies of equimolar mixtures consisting of two alkali halides reveal two distinct trends. When the equimolar mixture was composed of differing ions that participate in the droplet charge excess with the same counterion, the less solvated ions were found to form more abundant cluster ions. When the ions participating in the charge excess were fixed, the preferred counterion in observed clusters was the one that is more solvated in solution and forms more stable clusters in the gas phase. These observations can be rationalized by an extended form of the charged residue model where the weakly solvated ions that are part of the charge excess are preferentially enriched in offspring droplets during uneven fission. By contrast, transfer of a particular counterion located in the bulk of the droplets to the offspring droplets is not disfavored when this counterion is strongly solvated.     

Evaluation of counterions for electrospray ionization mass spectral analysis of a highly sulfated carbohydrate,sucrose octasulfate

A systematic approach was used to evaluate the electrospray ionization mass spectral (ESI-MS) analysis of sucrose octasulfate (SOS), an important pharmaceutical agent. SOS represents a model for other suffated carbohydrates, such as heparin and glycosaminoglycan-derived oligosaccharides that also are highly sulfated and pose difficult analytical problems. A survey of ammonium counterions showed that 1 degree, 2 degrees, and 3 degrees ammonium salts of SOS gave substantial fragmentation as a result of sulfate loss. In contrast, quaternary ammonium and phosphonium salts gave excellent ESI spectra, particularly in the positive ion mode. This represents the first report of the ESI-MS analysis of sulfated carbohydrates in the positive ion mode.     

Subambient pressure ionization with nanoelectrospray source and interface for improved sensitivity in mass spectrometry

A nanoelectrospray ionization mass spectrometry (ESI-MS) source and interface has been designed that enables efficient ion production and transmission in a 30 Torr pressure environment using solvents compatible with typical reversed-phase liquid chromatography (RPLC) separations. In this design, the electrospray emitter is located inside the mass spectrometer in the same region as an electrodynamic ion funnel. This avoids the use of a conductance limiting ion inlet, as required by a conventional atmospheric pressure ESI source, and allows more efficient ion transmission to the mass analyzer. The new subambient pressure ionization with nanoelectrospray (SPIN) source improves instrument sensitivity and enables new electrospray interface designs, including the use of multi-emitter approaches. Performance of the SPIN source was evaluated by electrospraying standard solutions at 300 nL/min and comparing results with those obtained from a standard atmospheric pressure ESI source that used a heated capillary inlet. This initial study demonstrated an approximately 5-fold improvement in sensitivity when the SPIN source was used compared to a standard atmospheric pressure ESI source. The importance of desolvation was also investigated by electrospraying at different flow rates, which showed that the ion funnel provided an effective desolvation region to aid the creation of gas-phase analyte ions.     

Kinetically labile equilibrium shifts induced by the electrospray process

The complexation reactions between the alkaline earth metal ions and EDTA were studied by electrospray mass spectrometry to measure the change in concentration of the metal ion-EDTA complex (MY(2)(-)) in the gas phase relative to the solution-phase equilibrium concentration. This work focused on the solution pH range from 4 to 7 where there exists free metal ions in solution at equilibrium. The equilibrium shift, measured through quantitation of the increased abundance of the MY(2)(-) species in the gas phase, was largest for barium and smallest for magnesium. The cause of the net equilibrium shift of the MY(2)(-) species is the combined effect of an electrolytic increase in pH within the capillary plus an additional shift within the evaporating droplets. In a thin diffusion-limited layer created by the products of electrolysis mixing with the bulk solution at the ES capillary tip, the labile species reequilibrate at a new, higher pH. In the evaporating droplets, the formation of new labile species due to increased solute concentrations is kinetically controlled because the ion residence time in the droplet prior to desorption is only ～5 μs. These results are briefly discussed with respect to the potential for utilizing electrospray mass spectrometry for kinetically labile equilibrium studies.     

Measurement of solution-phase chiral molecular recognition in the gas phase using electrospray ionization-mass spectrometry

Development of chiral selectors (SOs) is important both for understanding chiral molecular recognition processes and for their use in the separation of chiral species (selectands). Their evaluation by chromatographic procedures (e.g., as chiral stationary phase) can, however, be time-consuming. In this respect, electrospray ionization-MS (ESI-MS) is tested here as a possible alternative for screening enantioselective binding by SOs. The set of well-characterized cinchona alkaloid SOs are investigated with respect to their enantioselective binding to a set of model enantiomers, dinitrobenzoyl-(R)- and dinitrobenzoyl-(S)-leucine. MS-based enantioselectivity values from normalized gas-phase ion abundances for the diastereomeric complexes are compared empirically to chromatographic (HPLC) enantioselectivity results and shown to be consistent. Investigations into the fundamentals of measuring unbiased enantioselectivity values in the limit of dilute solution by correlation between experimental and modeled theoretical data are shown. Titration experiments are used to extract binding constants and are compared with published calorimetric (ITC) data. Results show that while the magnitude of binding affinities determined for various diastereomeric complexes is attenuated, the relative ranking and stereochemical preference in binding are consistently reproduced. This work represents a fundamental study of solution- versus gas-phase correlation for enantioselective systems by ESI-MS and indicates that, although not all questions and assumptions can be clearly engaged, for these enthalpically driven binding systems, the relative degree of binding affinity and selectivity is preserved.     

Quantitative determination of noncovalent binding interactions using automated nanoelectrospray mass spectrometry

Electrospray ionization mass spectrometry (ESI-MS) has proven to be an extremely powerful tool for studying biomolecular structures and noncovalent interactions. Here we report a method using a fully automated, chip-based nanoESI-MS system to determine the dissociation constants (Kd) for the complexes of two different proteins with their ligands. The automated nanoelectrospray system, consisting of the NanoMate and ESI chip, serves functionally as a combination of autosampler and nanoelectrospray ionization source. This system provides all the advantages of conventional nanoelectrospray plus automated, high-throughput analyses without carryover. The automated nanoESI system was used to investigate quantitative noncovalent interactions between ribonuclease A (RNase A) and cytidylic acid ligands (2'-CMP, CTP), a well-characterized model protein-ligand complex, and between an inactive endocellulase mutant (Thermobifida fusca Cel6A D117Acd) and four oligosaccharide ligands (cellotriose, cellotetraose, cellopentaose, cellohexaose). Both titration and competitive binding approaches were performed prior to automated nanoESI-MS analysis with a Q-TOF mass spectrometer. Dissociation constants for each complex were calculated from the sum of ion peak areas of free and complexed proteins during the titration and competition experiments. The measured Kd values for the RNase A-CMP and Cel6A D117Acd-G3 complexes were found to be in excellent agreement with the available published values obtained by standard spectroscopic titration techniques. To our knowledge, this is the first report of using an ESI-MS approach to study the interactions between a cellulase and oligosaccharides. The results provide new insights for understanding the nature of cellulase-cellulose interactions.     

Estimates of protein surface areas in solution by electrospray ionization mass spectrometry

The extent of multiple charging of protein ions in electrospray ionization (ESI) mass spectra depends on the solvent-exposed surface area, but it may also be influenced by a variety of other extrinsic and intrinsic factors. Gas-phase ion chemistry (charge-transfer and charge-partitioning reactions) appears to be the major extrinsic factor influencing the extent of protonation as detected by ESI MS. In this work, we demonstrate that under carefully controlled conditions, which limit the occurrence of the charge-transfer reactions in the gas phase, charge-state distributions of protein ions can be used to assess the solvent-exposed surface area in solution. A set of proteins ranging from 5-kDa insulin to 500-kDa ferritin shows a clear correlation between the average charge in ESI mass spectra acquired under native conditions and their surface areas calculated based on the available crystal structures. An increase of the extent of charge-transfer reactions in the ESI interface results in a noticeable decrease of the average charge of protein ions across the entire range of tested proteins, while the charge-surface correlation is maintained. On the other hand, the intrinsic factors (e.g., a limited number of basic residues) do not appear to play a significant role in determining the protein ion charge. Based on these results, it is now possible to obtain estimates of the surface areas of proteins and protein complexes, for which crystal structures are not available. We also demonstrate how the ESI MS measurements can be used to characterize protein-protein interaction in solution by providing quantitative information on the subunit interfaces formed in protein associations.     

On the formation of highly charged gaseous ions from unfolded proteins by electrospray ionization

Electrospray ionization (ESI) of native proteins results in a narrow distribution of low protonation states. ESI for these folded species proceeds via the charged residue mechanism. In contrast, ESI of unfolded proteins yields a wide distribution of much higher charge states. The current work develops a model that can account for this effect. Recent molecular dynamics simulations revealed that ESI for unfolded polypeptide chains involves protein ejection from nanodroplets, representing a type of ion evaporation mechanism (IEM). We point out the analogies between this IEM, and the dissociation of gaseous protein complexes after collisional activation. The latter process commences with unraveling of a single subunit, in concert with Coulombically driven proton transfer. The subunit then separates from the residual complex as a highly charged ion. We propose that similar charge equilibration events accompany the IEM of unfolded proteins, thereby causing the formation of high ESI charge states. A bead chain model is used for examining how charge is partitioned as protein and droplet separate. It is shown that protein ejection from differently sized ESI droplets generates a range of protonation states. The predicted behavior agrees well with experimental data.     

Conformational and noncovalent complexation changes in proteins during electrospray ionization

Electrospray ion sources efficiently produce gas-phase ions from proteins and their noncovalent complexes. Charge-state distributions of these ions are increasingly used to gauge their conformations in the solution phase. Here we investigate how this correlation is affected by the spraying conditions at the early stage of droplet generation, prior to the ionization process. We followed the folding behavior of model proteins cytochrome c and ubiquitin and the dissociation of the noncovalent holomyoglobin complex. Spray current measurements, fast Taylor cone imaging, and mass analysis of the generated ions indicated that the protein structure experienced conformational or complexation changes upon variations in the spraying mode of the electrospray ionization source. These effects resulted in a departure from the original secondary, tertiary, and quaternary structure of proteins, possibly introducing artifacts in related studies. Therefore, if a particular gas-phase ion conformation is required or correlations with the liquid-phase conformations are studied, it is advantageous to maintain a particular spraying mode. Alternatively, spraying mode-induced changes can be utilized to alter the structure of proteins in, for example, time-resolved experiments for the study of protein folding dynamics.     

Massign: an assignment strategy for maximizing information from the mass spectra of heterogeneous protein assemblies

Electrospray ionization mass spectrometry (ESI-MS) has evolved into a powerful adjunct for structural biology, helping to unravel the quaternary structure of protein complexes. Increasing interest has led to the study of ever larger multicomponent systems. Investigating these large complexes with ESI has meant that progressively more complicated mass spectra have been recorded. Correct assignment of these spectra is essential to maximize the information content available. Here we present a new assignment strategy and a supporting software package that allows the investigation of large heterogeneous systems, previously beyond the scope of full spectral assignment due to their complexity. The strategy involves two parts. The first includes a peak fitting routine to determine charge state distributions and consequently the masses of the various subcomplexes. The second module distinguishes between solution and gas phase products depending on their mass to charge ratio and assigns these charge states to different subunit combinations. These fitting and assignment routines contain many internal checks for consistency and reveal mass shifts, dependent upon desolvation conditions and small molecule binding. Using a rotary ATPase as a working example, we show how this assignment strategy is capable of determining the stoichiometry and interactions of the 8 different subunits within this 29-subunit assembly.     

Chiral analysis using the kinetic method with optimized fixed ligands: applications to some antibiotics

A new version of the kinetic method for chiral analysis, which employs a fixed (nondissociating) ligand as well as the usual analyte and chiral reference ligands, is introduced to simplify the kinetics of this experiment. Singly charged clusters containing the divalent transition metal ion MnII, a peptide which serves as a fixed ligand, an amino acid chiral reference, and the analyte 4-benzyl-2-oxazolidinone were generated by electrospray ionization (ESI). The cluster ion of interest was mass-selected, and the kinetics of its competitive unimolecular dissociations was investigated in an ion trap mass spectrometer. The chiral selectivity (R(fixed)chiral), the ratio of the two fragment ion abundances when the cluster contains one pure enantiomer of the analyte expressed relative to that for the other enantiomer, varies with increasing size of the fixed peptide ligands. The metal-ligand and the ligand-ligand interactions that produce chiral discrimination are optimized in the tetrapeptide fixed ligand Gly-Gly-Ala-Gly, as shown by data for 15 fixed ligands. The difference in the free energies of activation for the two competitive reactions is estimated to be approximately 7 kJ/mol for this particular fixed ligand. The sensitive nature of the methodology and the linear relationship between the logarithm of the fragment ion abundance ratio and the optical purity (intrinsic to the kinetic method) allows mixtures to be analyzed for as little as 1% enantiomeric excess (ee), by simply recording the ratios of fragment ion abundances in a tandem mass spectrum. These features are demonstrated in the case of the pharmacologically important 4-benzyl-2-oxazolidinones and in the case of penicillamine.