Single crystals of L-O-serine phosphate X-irradiated at low temperatures: EPR, ENDOR, EIE, and DFT studies

Single crystals of the phosphorylated amino acid L-O-serine phosphate were X-irradiated and studied at 10 K and at 77 K using EPR, ENDOR, and EIE techniques. Two radicals, R1(10 K) and R1(77 K), were detected and characterized as two different geometrical conformations of the protonated reduction product >CH-C(OH)(2). R1(10 K) is only observed after irradiation at 10 K, and upon heating to 40 K, R1(10 K) transforms rapidly and irreversibly into R1(77 K). The transition from R1(10 K) to R1(77 K) strongly increases the isotropic hyperfine coupling of the C-CH(beta) coupling (Delta = 32 MHz) and the major C-OH(beta) coupling (Delta = 47 MHz), in sharp contrast to the their much reduced anisotropic hyperfine couplings after the transition. An umbrella-like inversion of the carboxylic acid center, accompanied by minor geometrical adjustments, explains the changes of these observed isotropic and anisotropic couplings. DFT calculations were done on the reduced and protonated L-O-serine phosphate radical at the B3LYP/6-311+G(2df,p)//B3LYP/6-31+G(d) level of theory in order to support the experimental observations. Two different conformations of the anion radical, related by an inversion at the carboxylic center, could be found within the single molecule partial energy-optimization scheme. These two conformations reproduce the experimental hyperfine couplings from radicals R1(10 K) and R1(77 K). A third radical, radical R2, was observed experimentally at both 10 and 77 K and was shown to be due to the decarboxylated L-O-serine phosphate oxidation product, a conclusion fully supported from the DFT calculations. Upon thermal annealing from 77 to 295 K, radicals R1(77 K) and R2 disappeared and all three previously observed room-temperature radicals could be observed. No phosphate-centered radicals could be observed at any temperatures, indicating that the phosphate-ester bond break for one of the room-temperature radicals does not occur by dissociative electron capture at the phosphate group.     

Enhanced method performance due to a shorter chromatographic run-time in a liquid chromatography-tandem mass spectrometry assay for paclitaxel

Liquid chromatography-tandem mass spectrometry (LC-MS-MS) is often performed in a high-throughput environment. Unfortunately, with atmospheric pressure ionization (API) techniques, shorter run-times or reduced sample clean-up often result in ion or matrix suppression, which can lead to erroneous results. The present work on the analysis of paclitaxel compares ion suppression, sensitivity and linearity of a high-throughput LC-MS-MS method (0.8 min run-time, method B) to a method with increased separation (2.0 min run-time, method A). An atmospheric pressure chemical ionization (APCI) interface was used for both methods. The high-sample-throughput method uses an increased amount of organic solvent in the mobile phase (isocratic, 85% versus 70% of methanol) and a higher flow-rate (600 microl/min versus 400 micro/min). As a result, internal standard (docetaxel) and target analyte (paclitaxel) co-elute, close to, although separated from the solvent front. Ion suppression of both methods was evaluated by comparing pure standard to plasma and plasma containing a vehicle. Sensitivity and linearity were compared by injecting matrix matched calibration samples with both methods. Ion suppression by the vehicle Cremophor EL led to poor data quality for the standard method (A), while for the short method (B), ion suppression was compensated for by the co-eluting internal standard. The short method showed similar linearity but increased sensitivity by at least a factor five. This work provides a strategy to compensate for ion suppression without the use of labeled internal standards. In addition, a better sensitivity and a shorter run-time are noted.     

A case study of de novo sequence analysis of N-sulfonated peptides by MALDI TOF/TOF mass spectrometry

The simplicity and sensitivity of matrix-assisted laser desorption/ionization time-of-flight mass spectrometry have increased its application in recent years. The most common method of "peptide mass fingerprint" analysis often does not provide robust identification. Additional sequence information, obtained by post-source decay or collision induced dissociation, provides additional constraints for database searches. However, de novo sequencing by mass spectrometry is not yet common practice, most likely because of the difficulties associated with the interpretation of high and low energy CID spectra. Success with this type of sequencing requires full sequence coverage and demands better quality spectra than those typically used for data base searching. In this report we show that full-length de novo sequencing is possible using MALDI TOF/TOF analysis. The interpretation of MS/MS data is facilitated by N-terminal sulfonation after protection of lysine side chains (Keough et al., Proc. Natl. Acad. Sci. U.S.A. 1999, 96, 7131-7136). Reliable de novo sequence analysis has been obtained using sub-picomol quantities of peptides and peptide sequences of up to 16 amino acid residues in length have been determined. The simple, predictable fragmentation pattern allows routine de novo interpretation, either manually or using software. Characterization of the complete primary structure of a peptide is often hindered because of differences in fragmentation efficiencies and in specific fragmentation patterns for different peptides. These differences are controlled by various structural parameters including the nature of the residues present. The influence of the presence of internal Pro, acidic and basic residues on the TOF/TOF fragmentation pattern will be discussed, both for underivatized and guanidinated/sulfonated peptides.     

On the relationship between fluorescence and molecular geometry solvent-assisted formation of luminescent intramolecular exciplexes from anthronyl-substituted anthracenes

The fluorescence efficiency of 1′,2′-dihydro-spiro[anthracene-9(10H),3′-[3H]benz[de]anthracen]-10-one in 10 solvents of varying dielectric constant has been investigated. The observed exciplex luminescence is attributed to a solvent-assisted intramolecular charge-transfer interaction between the ground-state anthrone and excited-state anthracene moietis. The geometry of the exciplex is suggested to resemble that of a σ-π complex.     

Distributions modulo subgroups of GF(q)

The main purpose of this paper is to determine the number of symbols in each equivalence class modulo subgroups of $\text{GF(q)}{}^1$ for a certain class of linear recursive sequences with irreducible generating polynomial. The method used is to map sequences onto maximal linear recursive sequences.     

An electron spectroscopic determination of theL I energy in the elements Sodium (Z=11) to Copper (Z=29)

Energies of atomic electrons in theK andL shells of eighteen elements of low atomic numbers have been measured by electron spectroscopy. Tabulated values for theL _I energies are shown to be in need of considerable revision. AluminumKα radiation is shown to have high potentialities for ESCA studies.     

High resolution mass spectrometry of trimethylamine

High resolution shows that the four principal fragment peaks of trimethylamine are singlets. Close studies of the metastable transitions in the spectrum have established the origin of almost all fragment peaks.     

Reactions of cationic iron clusters with ammonia, models of nitrogen hydrogenation and dehydrogenation

The gas phase reactivities of small cationic iron clusters, Fen+ (n = 1-20), towards ammonia were investigated using Fourier transform ion cyclotron resonance (FT-ICR) mass spectrometry. Sequential addition of ammonia molecules to the clusters was observed to be the dominating process for n > 4. In the case of n = 4 we observed addition of ammonia accompanied by dehydrogenation. This reaction was modelled using hybrid density functional theory. Clusters with n < 4 do not react with ammonia. Clusters Fen+ (n = 1-20) react with neither N2 nor H2 at around 10(-8) mbar. When dinitrogen was seeded into the expanding helium, mixed clusters of the type FenNm+ were observed. These ions react with H2, either by addition, or by substitution of N2. The clusters with m = 1 were isolated in separate experiments and reacted with H2, which showed that mixed clusters with n = 5-13 add up to 5 molecules of dihydrogen in successive slow reactions.     

Positive shrinkage, improved pretest and absolute penalty estimators in partially linear models

Shrinkage estimators of a partially linear regression parameter vector are constructed by shrinking estimators in the direction of the estimate which is appropriate when the regression parameters are restricted to a linear subspace. We investigate the asymptotic properties of positive Stein-type and improved pretest semiparametric estimators under quadratic loss. Under an asymptotic distributional quadratic risk criterion, their relative dominance picture is explored analytically. It is shown that positive Stein-type semiparametric estimators perform better than the usual Stein-type and least square semiparametric estimators and that an improved pretest semiparametric estimator is superior to the usual pretest semiparametric estimator. We also consider an absolute penalty type estimator for partially linear models and give a Monte Carlo simulation comparisons of positive shrinkage, improved pretest and the absolute penalty type estimators. The comparison shows that the shrinkage method performs better than the absolute penalty type estimation method when the dimension of the parameter space is much larger than that of the linear subspace.