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R Graham Cooks

Publications and source records attributed to R Graham Cooks.

At least 73 records · Page 4Linked to original sources
PubMed2004

Rectilinear ion trap: concepts, calculations, and analytical performance of a new mass analyzer.

A mass analyzer based on a rectilinear geometry ion trap (RIT) has been built, and its performance has been characterized. Design concepts for this type of ion trap are delineated with emphasis on the effects of electrode geometry on the calculated electric field. The Mathieu stability region was mapped experimentally. The instrument can be operated using mass-selective instability scans in both the boundary and resonance ejection versions. Comparisons of performance between different versions of the device having different dimensions allowed selection of an optimized geometry with an appropriate distribution of higher-order electric fields. Comparisons made under the same conditions between the performance of a conventional cylindrical ion trap and a RIT of 4 times greater volume show an improvement of 40 times in the signal-to-noise ratio resulting from the higher ion trapping capacity of the RIT. The demonstrated capabilities of the RIT include tandem mass spectrometry, a mass resolution in excess of 1000, and a mass/charge range of 650 Th, all in a simple structure that is only 3.5 cm(3) in internal volume.

Equipment Design↗
PubMed2004

Electrosonic spray ionization. A gentle technique for generating folded proteins and protein complexes in the gas phase and for studying ion-molecule reactions at atmospheric pressure.

Electrosonic spray ionization (ESSI), a variant on electrospray ionization (ESI), employs a traditional micro ESI source with supersonic nebulizing gas. The high linear velocity of the nebulizing gas provides efficient pneumatic spraying of the charged liquid sample. The variable electrostatic potential can be tuned to allow efficient and gentle ionization. This ionization method is successfully applied to aqueous solutions of various proteins at neutral pH, and its performance is compared to that of the nanospray and micro ESI techniques. Evidence for efficient desolvation during ESSI is provided by the fact that the peak widths for various multiply charged protein ions are an order of magnitude narrower than those for nanospray. Narrow charge-state distributions compared to other ESI techniques are observed also; for most of the proteins studied, more than 90% of the protein ions can be accumulated in one charge state using ESSI when optimizing conditions. The fact that the abundant charge state is normally as low or lower than that recorded by ESI or nanospray indicates that folded protein ions are generated. The sensitivity of the ionization technique to high salt concentrations is comparable to that of nanospray, but ESSI is considerably less sensitive to high concentrations of organic additives such as glycerol or 2-amino-2-(hydroxymethyl)-1,3-propanediol (Tris base). Noncovalent complexes are observed in the case of myoglobin, protein kinase A/ATP complex, and other proteins. The extent of dissociation of protein ions in ESSI is comparable to or even smaller than that in the case of nanospray, emphasizing the gentle nature of the method. The unique features of ESSI are ascribed to very efficient spraying and the low internal energy supplied to the ions. Evidence is provided that the method is capable of generating fully desolvated protein ions at atmospheric pressure. This allows the technique to be used for the study of ion-molecule reactions at atmospheric pressure and examples of this are shown.

Atmospheric Pressure↗
PubMed2004

Reduction of nitroaromatics to arylnitrenium ions by vinyl halide cations.

The title reduction of nitroaromatics ArNO(2) by vinyl halide radical cations CH(2)[double bond]CH-X(+*)(X = Cl or Br) to form arylnitrenium ions ArNH(+) involves a change in oxidation number of nitrogen from +3 to -1. This novel reaction provides a new route for the generation of arylnitrenium ions, a highly selective method for the detection of explosives in mixtures, and offers clues to the carcinogenic activity of nitroaromatics in vivo.

Journal Article↗
PubMed2004

Chiral morphing and enantiomeric quantification in mixtures by mass spectrometry.

A novel mass spectrometric method is introduced for rapid and accurate chiral quantification by examining a tetracoordinated transition metal complex into which a reference and a fixed ligand are incorporated simultaneously with the analyte. Chiral analysis is performed by measuring the dissociation kinetics of these trimeric cluster ions [(M(II) + L(fixed) - H)(ref)(An)]+ (M(II) = a transition metal ion, L(fixed) = chiral peptide fixed ligand, ref = chiral reference ligand, and An = chiral analyte) in an ion trap mass spectrometer. The ratio of the product ion branching ratios measured when a pair of pure chiral fixed ligands and chiral reference ligands (/ref(D) and /ref(L); or /ref(L) and /ref(D)) are employed in separate experiments is related, via the kinetic method formalism, to the enantiomeric composition of the chiral mixture. This fixed-ligand quotient ratio (QR(fixed)) is logarithmically proportional to enantiomeric purity allowing construction of a calibration curve for chiral analysis when the analyte is only available in one form of known optical purity. There are reciprocal relationships when switching the chirality of the fixed/reference ligands. Improved quantification accuracy (due to simplified dissociation kinetics) and ready construction of two or more single-point calibration curves allow data to be cross-checked and represent an advantage of this approach. These features and the matrix tolerance of the kinetic method are demonstrated using the QR(fixed) method for determinations of enantiomeric excess of the drug DOPA in the presence of the co-drug compound L-carbidopa. The chiral selectivity of DOPA was found to vary from 0.0581 to 0.337 using this method, depending on the choices of fixed-ligand and reference chirality. The average relative errors are less than 1.2%. The potential of chiral morphing (changing chiral centers in the ligands) to further refine the chiral interactions and hence to maximize chiral recognition is shown.

Journal Article↗
PubMed2004

Thermal formation of serine octamer ions.

Vigorous evaporation of aqueous serine solutions yields abundant protonated serine octamer ions. So does pyrolysis of L-serine crystals in a corona discharge.

Journal Article↗
PubMed2004

Dissociation of ionized benzophenones investigated by the kinetic method: effective temperature, steric effects and gas-phase CO+* affinities of phenyl radicals.

Ionized benzophenones ([PhC(O)PhY](+*); Y = 4 - NO(2), 4 - CF(3), 4-F, 4-Br, 4-Me, 3,4-diMe, 4-OH, 4-OMe, 2-Cl, 2-Me, 2-OH, 2,6-diMe) undergo competitive dissociation upon collision-induced dissociation (CID) at 20 eV collision energy to generate benzoyl cations ([PhCO](+) and [YPhCO](+)) and phenyl radicals (Ph(*) and YPh(*)). For the para-substituted benzophenones, the natural logarithm of the abundance ratio of the benzoyl cations [ln([PhCO(+)]/[YPhCO(+)])] is found to correlate linearly with the calculated CO(+*) affinities of the phenyl radicals Ph(*) and YPh(*). A deviation from linearity is observed for the ortho-substituted isomers. This is probably due to a significant intramolecular steric interaction between the carbonyl group and the ortho substituent which prevents the formation of a stable planar system. An observed shift in the intercept relative to the origin is interpreted as the result of a systematic error in the calculated CO(+*) affinities and this effect is minimized by calculations at a higher level. The dissociation of ionized para-substituted benzophenones is associated with a relatively high effective temperature of 1816 +/- 41 K, calculated from the slope of the kinetic method plot, a value that is consistent with a covalent bond in the activated ion. In addition, Delta(DeltaS(CO(+) )), the dissociation entropy of the benzoyl cations to form CO(+*) and the aryl radical, is found to be about 4 J mol(-1) K(-1) by employing the extended version of the kinetic method.

Journal Article↗
PubMed2004

Meerwein reaction of phosphonium ions with epoxides and thioepoxides in the gas phase.

Phosphonium ions are shown to undergo a gas-phase Meerwein reaction in which epoxides (or thioepoxides) undergo three-to-five-membered ring expansion to yield dioxaphospholanium (or oxathiophospholanium) ion products. When the association reaction is followed by collision-induced dissociation (CID), the oxirane (or thiirane) is eliminated, making this ion molecule reaction/CID sequence a good method of net oxygen-by-sulfur replacement in the phosphonium ions. This replacement results in a characteristic mass shift of 16 units and provides evidence for the cyclic nature of the gas-phase Meerwein product ions, while improving selectivity for phosphonium ion detection. This reaction sequence also constitutes a gas-phase route to convert phosphonium ions into their sulfur analogs. Phosphonium and related ions are important targets since they are commonly and readily formed in mass spectrometric analysis upon dissociative electron ionization of organophosphorous esters. The Meerwein reaction should provide a new and very useful method of recognizing compounds that yield these ions, which includes a number of chemical warfare agents. The Meerwein reaction proceeds by phosphonium ion addition to the sulfur or oxygen center, followed by intramolecular nucleophilic attack with ring expansion to yield the 1,3,2-dioxaphospholanium or 1,3,2-oxathiophospholanium ion. Product ion structures were investigated by CID tandem mass spectrometry (MS(2)) experiments and corroborated by DFT/HF calculations.

Journal Article↗
PubMed2004

Meisenheimer complexes bonded at carbon and at oxygen.

The carbon-bonded gas-phase Meisenheimer complex of 2,4,6-trinitrotoluene (TNT) and the nitromethyl carbanion CH(2)NO(2)(-) (m/z 60) is generated for the first time by chemical ionization using nitromethane as the reagent gas. Collision-induced dissociation (CID) of the Meisenheimer complex furnishes deprotonated TNT, a result of the higher gas-phase acidity of TNT than nitromethane. The formation of Meisenheimer complexes with CH(2)NO(2)(-) in the gas phase is selective to highly electron-deficient compounds such as dinitrobenzene and trinitrobenzene and does not occur with organic molecules with lower electron-affinity such as methanol, methylamine, propionaldehyde, acetone, ethyl acetate, chloroform, toluene, m-methoxytoluene, and even nitrobenzene and p-fluoronitrobenzene. As such, the reaction allows selective detection of TNT in mixtures. Meisenheimer complexes between CH(2)NO(2)(-) and the three dinitrobenzene isomers display distinctive fragmentations. The oxygen-bonded sigma-complex of TNT with the deprotonated hemiacetal anion CH(3)OCH(2)O(-) (m/z 61), represents a different type of Meisenheimer complex. It displays characteristic fragmentation involving loss of HNO(2) upon CID. The combination of a selective ion/molecule reaction (Meisenheimer complex formation) followed by a characteristic CID process provides a second novel and highly selective approach to the detection of TNT and closely related compounds in mixtures. The assay is readily implemented using neutral loss scans in a triple quadrupole mass spectrometer. Gas-phase reactions of denitrosylated TNT with benzaldehyde produce the corresponding dihydrofuran in an aldol condensation, a result that parallels the corresponding condensed-phase reaction.

Journal Article↗
PubMed2004

Chiral enrichment of serine via formation, dissociation, and soft-landing of octameric cluster ions.

Chiral enrichment of serine is achieved in experiments that involve formation of serine octamers starting from non-racemic serine solutions. Serine octamers were generated by means of electrospray and sonic spray ionization of aqueous solutions of d(3)-L-serine (108 Da) and D-serine (105 Da) having different molar ratios of enantiomers. A cyclic process involving the formation of chirally-enriched octameric cluster ions and their dissociation, viz. Ser(1) --> Ser(8) --> Ser(1), allows serine monomers to be regenerated with increased enantiomeric excess as shown in two types of experiments: (1) Chiral enrichment in serine was observed in MS/MS/MS experiments in a quadrupole ion trap in which the entire distribution of serine octamers formed from non-racemic solutions was isolated, collisionally activated, and fragmented. Monomeric serine was regenerated with increased enantiomeric excess upon dissociation of octamers when compared with the enantiomeric composition of the original solution. (2) Chiral enrichment was observed in the products of soft-landing of mass-selected protonated serine octamers. These ions were generated by means of electrospray or sonic spray ionization, mass selected, and collected on a gold surface using ion soft-landing. Chiral enrichment of the soft-landed serine was established by redissolving the recovered material and comparing the intensities of protonated molecular ions of d(3)-L-serine and D-serine after APCI-MS analysis. Both of these experiments showed comparable results, suggesting that formation of serine octamers depends only on the enantiomeric composition of the serine solution and that the magnitude of the chiral preference is intrinsic to octamers formed from solutions of given chiral composition.

Ions↗
PubMed2004

Generation of arylnitrenium ions by nitro-reduction and gas-phase synthesis of N-heterocycles.

Nitro-reduction by the vinyl halide radical cation CH2 = CH-X+* (X = Cl or Br) converts nitroaromatics into arylnitrenium ions, significant intermediates in carcinogenesis, and the present study reports on the scope and regioselectivity of this versatile reaction. The reaction is general for different kinds of substituted nitroaromatics; para/meta substitutents have little effect on the reaction while ortho substitutents result in low yields of arylnitrenium ions. The phenylnitrenium ion PhNH+ can be generated by chemical ionization (CI) of nitrobenzene using 1,2-dichloroethane as the reagent gas or by atmospheric pressure chemical ionization (APCI) of 1,2-dichloroethane solution doped with nitrobenzene. The chemical reactivities of the arylnitrenium ions include one-step ion/molecule reactions with nucleophiles ethyl vinyl ether and 1,3-dioxolanes, respectively, involving the direct formation of new CN bonds and synthesis of indole and benzomorpholine derivatives. The indole formation reaction parallels known condensed phase chemistry, while the concise morpholine-forming reaction remains to be sought in solution. The combination of collision-induced dissociation (CID) with novel ion/molecule reactions should provide a selective method for the detection of explosives such as TNT, RDX and HMX in mixtures using mass spectrometry. In addition to the reduction of the nitro group, reduction of methyl phenyl sulfone PhS(O)2Me to the thioanisole radical cation PhSMe+* occurs using the same chemical ionization reagent 1,2-dichloroethane. This probably involves an analogous reduction reaction by the reagent ion CH2 = CH-Cl+*.

Benzoxazines↗
PubMed2004

Ion soft-landing into liquids: Protein identification, separation, and purification with retention of biological activity.

Protein ions, after mass spectrometric separation, can be soft-landed into liquid surfaces with preservation of their native structures. Retention of biological activity is strongly favored in glycerol-based surfaces but not in self-assembled monolayer solid surfaces. Soft-landing efficiency for multiply-charged hexokinase ions was found to be some four times higher for a glycerol/fructose liquid surface than for a fluorinated self-assembled monolayer surface. Soft-landing into liquid surfaces is also shown to allow (1) protein purification, (2) on-surface identification of the soft-landed material using MALDI, and (3) protein identification by in-surface tryptic digestion. Pure lysozyme was successfully isolated from different mixtures including an oxidized, partially decomposed batch of the protein and a partial tryptic digest. Liquid glycerol/carbohydrate mixtures could be used directly to record MALDI spectra on the soft-landed compounds provided they were fortified in advance with traditional MALDI matrices such as p-nitroaniline and alpha-cyano-4-hydroxycinnamic acid. Various proteins were soft-landed and detected on-target using these types of liquid surface. Soft-landing of multiply-charged lysozyme ions onto fluorinated self-assembled monolayer surfaces was found to occur with a limited amount of neutralization, and trapped multiply-charged ions could be desorbed from the surface by laser desorption. Initial data is shown for a new approach to protein identification that combines top-down and bottom-up approaches by utilizing protein ion soft-landing from a protein mixture, followed by tryptic digestion of the landed material and detection of characteristic tryptic fragments by MALDI.

Amino Acid Sequence↗
PubMed2004

Trace analysis of organics in air by corona discharge atmospheric pressure ionization using an electrospray ionization interface.

A corona discharge ion source operating at atmospheric pressure in the point-to-plane configuration was constructed by reconfiguring the ion source of a commercial electrospray ionization (ESI) quadrupole mass spectrometer. This new source allows direct air analysis without modification to the mass spectrometer. Detection and quantitation of semi-volatile compounds in air is demonstrated. The analytical performance of the system was established using the chemical warfare agent simulants methyl salicylate and dimethyl methylphosphonate. Limits of detection are 60 pptr in the negative-ion mode and 800 pptr in the positive-ion mode for methyl salicylate and 800 pptr in the negative-ion mode and 3.6 ppb in the positive-ion mode for dimethyl methylphosphonate. A linear response was observed from 60 pptr to 8 ppb for methyl salicylate in air in the negative-ionization mode. Cluster ion formation versus production of analyte ions was investigated and it was found that dry air or an elevated capillary interface temperature (130 degrees C) was needed to avoid extensive clustering, mostly of water. Reagent gases are not needed as proton sources, as is usually the case for atmospheric pressure chemical ionization, and this, together with the simplicity, sensitivity and speed of the technique, makes it promising for miniaturization and future field studies.

Journal Article↗
PubMed2003

Gas-phase reactions for selective detection of the explosives TNT and RDX.

Highly selective gas-phase reactions with ethyl vinyl ether (EVE) of major electron (EI) and chemical ionization (CI) fragment ions of the explosives TNT and RDX have been uncovered. The fragment ion of m/z 210 from TNT undergoes [4(+)+ 2] cycloaddition with EVE to form an oxo-iminium ion of m/z 282, which dissociates by acetaldehyde loss after a [1,5-H] shift to form a quinolynium ion of m/z 238. The fragment ion of m/z 149 from RDX reacts with EVE by a formal vinylation reaction, that is, the elusive cyclic adduct loses ethanol to yield a nitro-iminium ion of m/z 175, which reacts further with EVE to form a second cyclic product ion of m/z 247. Calculations and MS/MS experiments support the proposed structures. These highly characteristic reactions of diagnostic EI and CI fragment ions improve selectivity for TNT and RDX detection.

Journal Article↗
PubMed2003

Atmospheric pressure gas-phase H/D exchange of serine octamers.

The recently discovered homochiral serine octamer has been a focus of interest because of its possible implications for the origin of homochirality in living systems. Electrospray ionization (ESI) and sonic spray ionization (SSI) tandem mass spectrometry have been used to generate this unusually stable magic number cluster. Several structures have been suggested for the serine octamer, based on tandem mass spectrometry, ion mobility measurements, and quantum mechanical calculations. We now report experimental hydrogen/deuterium (H/D) exchange data, which demonstrate the existence of two different structures for the serine octamer. These forms undergo exchange at significantly different rates. One form may correspond to solution-phase assembled clusters and the other to octamers formed during the ionization process. Experiments done at higher resolution confirm that the experimental observations made here apply to the serine octamer without interference from metaclusters, namely, higher order clusters (Ser(16) + 2H)(+2), etc., the (12)C isotopes of which have mass-to-charge ratios identical to the protonated octamers. H/D exchange of racemic serine shows predominantly the extensively exchanged ion population, as well as providing evidence that racemic serine generates abundant metaclusters. The evidence presented here shows that one type of serine octamer is responsible for the strong chiral effects associated with the formation of these magic number clusters. These slowly exchanging more fragile clusters are the octamers that might have played a role in homochirogenesis.

Atmospheric Pressure↗
PubMed2003

High-throughput miniature cylindrical ion trap array mass spectrometer.

A fully multiplexed cylindrical ion trap (CIT) array mass spectrometer with four parallel ion source/mass analyzer/detector channels has been built to allow simultaneous high-throughput analysis of multiple samples. A multielement external chemical ionization/electron ionization source was coupled to a parallel array of CITs each of equal size (internal radius 2.5 mm), and the signal was recorded using an array of four miniature (2-mm inner diameter) electron multipliers. Using external electron ionization, the spectra of four separate samples were recorded simultaneously in real time using a four-channel preamplifier system and a data acquisition program written using LabVIEW software. These experiments mark the first demonstration of externally generated ions being successfully trapped in a miniature CIT mass analyzer. The instrument currently provides mass/charge range of approximately m/z 50-500. Average peak width is m/z 0.3, corresponding to a resolution of 1000 at m/z 300. The four-channel mass spectrometer is housed in a single vacuum manifold and operated with a single set of control electronics. The modular design of this instrument allows scale-up to many more channels of analysis for future applications in the areas of industrial process monitoring and combinatorial analysis and in the fields of proteomics and metabolomics.

Journal Article↗
PubMed2003

Preparing protein microarrays by soft-landing of mass-selected ions.

Intact, multiply protonated proteins of particular mass and charge were selected from ionized protein mixtures and gently landed at different positions on a surface to form a microarray. An array of cytochrome c, lysozyme, insulin, and apomyoglobin was generated, and the deposited proteins showed electrospray ionization mass spectra that matched those of the authentic compounds. Deposited lysozyme and trypsin retained their biological activity. Multiply charged ions of protein kinase A catalytic subunit and hexokinase were also soft-landed into glycerol-based liquid surfaces. These soft-landed kinases phosphorylated LRRASLG oligopeptide and D-fructose, respectively.

Apoproteins↗