Radical conversion and migration in electron capture dissociation

Electron capture dissociation (ECD) is an important analytical technique which is used frequently in proteomics experiments to reveal information about both primary sequence and post-translational modifications. Although the utility of ECD is unquestioned, the underlying chemistry which leads to the observed fragmentation is still under debate. Backbone dissociation is frequently the exclusive focus when mechanistic questions about ECD are posed, despite the fact that numerous other abundant dissociation channels exist. Herein, the focus is shifted to side chain loss and other dissociation channels which offer clues about the underlying mechanism(s). It is found that the initially formed hydrogen abundant radicals in ECD can convert quickly to hydrogen deficient radicals via a variety of pathways. Dissociation which occurs subsequent to this conversion is mediated by hydrogen deficient radical chemistry, which has been the subject of extensive study in experiments which are independent from ECD. Statistical analysis of fragments observed in ECD is in excellent agreement with predictions made by an understanding of hydrogen deficient radical chemistry. Furthermore, hydrogen deficient radical mediated dissociation likely contributes to observed ECD fragmentation patterns in unexpected ways, such as the selective dissociation observed at disulfide bonds. Many aspects of dissociation observed in ECD are easily reproduced in well-controlled experiments examining hydrogen deficient radicals generated by non-ECD methods. All of these observations indicate that when considering the means by which electron capture leads to dissociation, hydrogen deficient radical chemistry must be given careful consideration.     

Coordination-driven inversion of handedness in ligand-modified PNA

Peptide nucleic acid (PNA) is a synthetic analogue of DNA, which has the same nucleobases as DNA but typically has a backbone based on aminoethyl glycine (Aeg). PNA forms duplexes by Watson Crick hybridization. The Aeg-based PNA duplexes adopt a chiral helical structure but do not have a preferred handedness because they do not contain a chiral center. An L-lysine situated at the C-end of one or both strands of a PNA duplex causes the duplex to preferably adopt a left-handed structure. We have introduced into the PNA duplexes both a C-terminal L-lysine and one or two PNA monomers that have a γ-(S)-methyl-aminoethyl glycine backbone, which is known to induce a preference for a right-handed structure. Indeed, we found that in these duplexes the γ-methyl monomer exerts the dominant chiral induction effect causing the duplexes to adopt a right-handed structure. The chiral PNA monomer had a 2,2':6',2'-terpyridine (Tpy) ligand instead of a nucleobase and PNA duplexes that contained one or two Tpys formed [Cu(Tpy)(2)](2+) complexes in the presence of Cu(2+). The CD spectroscopy studies showed that these metal-coordinated duplexes were right-handed due to the chiral induction effect exerted by the S-Tpy PNA monomer(s) except for the cases when the [Cu(Tpy)(2)](2+) complex was formed with Tpy ligands from two different PNA duplexes. In the latter case, the metal complex bridged the two PNA duplexes and the duplexes were left-handed. The results of this study show that the preferred handedness of a ligand-modified PNA can be switched as a consequence of metal coordination to the ligand. This finding could be used as a tool in the design of functional nucleic-acid based nanostructures.     

Kinetic discrimination in recognition of DNA quadruplex targets by guanine-rich heteroquadruplex-forming PNA probes

Guanine-rich peptide nucleic acid probes hybridize to DNA G quadruplex targets with high affinity, forming PNA-DNA heteroquadruplexes. We report a surprising degree of kinetic discrimination for PNA heteroquadruplex formation with a series of DNA targets. The fastest hybridization is observed for targets folded into parallel morphologies.     

Several Applications of Advanced Scientific Calculators: Nonlinear Least-Squares Analysis and Titration of a Weak Acid

Several advanced applications of scientific graphing calculators are demonstrated. These include (a) nonlinear least squares analysis and (b) construction of titration curves for weak acids with a strong base. Stepwise instructions for obtaining the titration curves with TI-80 Series Calculators are presented. Immediate display of graphical results of a solution from a quantitative chemical problem in a classroom setting is one of the advantages of the advanced scientific calculator.     

Alkylation de la dimethyl-5 5′ isoxazolidinone-3 en catalyse par transfert de phase

Alkylation by phase transfert catalysis of ambidents anions of the N-C-0 type, leads to a mixture of N and O substitution. Isomers per cent are 20% for O alkylation and 80% for N alkylation when primary halides are used. With secondary halides, these figures are 35% and 65%. In both cases the overall yield ranges around 60%.     

Optical electron transitions in a two-dimensional disordered semiconductor

The frequency dependence of the light absorption coefficient associated with electron transitions between states of strong and weak localization is studied.Translated from Izvestiya Vysshikh Uchebnykh Zavedenii, Fizika, No. 11, pp. 22–24, November, 1982.One of us (V. L. Bonch-Bruevich) is grateful to Dr. M. Pepper for sending a preprint.     

Micro-eta3:eta4-Lithiocene and eta3:eta3-zincocene incorporating 1,2-diaza-3,5-diborolyl, a cyclopentadienyl analog

A heterocyclic cyclopentadienyl analog containing only one carbon atom in the ring was prepared and a polymeric lithiocene and a monomeric zincocene containing this novel ligand have been isolated and crystallographically characterized.