Photo-Brook rearrangement of acyl silanes as a strategy for photoaffinity probe design

Photoaffinity labeling (PAL) is a powerful tool for the identification of non-covalent small molecule–protein interactions that are critical to drug discovery and medicinal chemistry, but this approach is limited to only a small subset of robust photocrosslinkers. The identification of new photoreactive motifs capable of covalent target capture is therefore highly desirable. Herein, we report the design, synthesis, and evaluation of a new class of PAL warheads based on the UV-triggered 1,2-photo-Brook rearrangement of acyl silanes, which hitherto have not been explored for PAL workflows. Irradiation of a series of probes in cell lysate revealed an iPr-substituted acyl silane with superior photolabeling and minimal thermal background labeling compared to other substituted acyl silanes. Further, small molecule (+)-JQ1- and rapamycin-derived iPr acyl silanes were shown to selectively label recombinant BRD4-BD1 and FKBP12, respectively, with minimal background. Together, these data highlight the untapped potential of acyl silanes as a novel, tunable scaffold for photoaffinity labeling.

Irradiation initiated 1,2-photo Brook rearrangement of acyl silanes generated α-siloxycarbene intermediates that were used for photoaffinity labeling. Optimization of the acyl silane group produced a probe capable of capturing small molecule–protein interactions.     

Repetition in reduced decompositions

Given a permutation w, we show that the number of repeated letters in a reduced decomposition of w is always less than or equal to the number of 321- and 3412-patterns appearing in w. Moreover, we prove bijectively that the two quantities are equal if and only if w avoids the ten patterns 4321, 34 512, 45 123, 35 412, 43 512, 45 132, 45 213, 53 412, 45 312, and 45 231.     

Structural remodeling and mechanical function in heart failure

The cardiac extracellular matrix (ECM) is the three-dimensional scaffold that defines the geometry and muscular architecture of the cardiac chambers and transmits forces produced during the cardiac cycle throughout the heart wall. The cardiac ECM is an active system that responds to the stresses to which it is exposed and in the normal heart is adapted to facilitate efficient mechanical function. There are marked differences in the short- and medium-term changes in ventricular geometry and cardiac ECM that occur as a result of volume overload, hypertension, and ischemic cardiomyopathy. Despite this, there is a widespread view that a common remodeling "phenotype" governs the final progression to end-stage heart failure in different forms of heart disease. In this review article, we make the case that this interpretation is not consistent with the clinical and experimental data on the topic. We argue that there is a need for new theoretical and experimental models that will enable stresses acting on the ECM and resultant deformations to be estimated more accurately and provide better spatial resolution of local signaling mechanisms that are activated as a result. These developments are necessary to link the effects of structural remodeling with altered cardiac mechanical function.     

Monogamous latin squares

We show for all n∉{1,2,4} that there exists a latin square of order n that contains two entries γ₁ and γ₂ such that there are some transversals through γ₁ but they all include γ₂ as well. We use this result to show that if n>6 and n is not of the form 2p for a prime p?11 then there exists a latin square of order n that possesses an orthogonal mate but is not in any triple of MOLS. Such examples provide pairs of 2-maxMOLS.     

Analysis of various organic and organometallic compounds using nanostructure-assisted laser desorption/ionization time-of-flight mass spectrometry (NALDI-TOFMS)

Nanostructure-assisted laser desorption/ionization time-of-flight mass spectrometry (NALDI-TOFMS) has been developed recently as a matrix-free/surface-assisted alternative to matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOFMS). The NALDI surface of silicon nanowires is already very effective for the analysis of small to medium sized, polar organic molecules in positive ion mode. The current study examined this technology for the analysis of several nonpolar organic, organometallic, and ionic compounds in positive ion mode, as well as a fluorinated compound and various acids in negative ion mode. NALDI data are compared and contrasted with MALDI data for the same compounds, and the higher sensitivity of NALDI is highlighted by the successful characterization of two porphyrins for a sample amount of 10 amol per spot.     

Polypyrrole stretchable actuators

Here, we report a simple way to prepare stretchable polypyrrole (PPy)‐based actuator materials that can be operated over a wide dynamic strain range and generate useable actuation displacements and pressures. The stretchable actuators were prepared as a laminated composite of PPy and a gold‐coated roughened rubber sheet. By manipulating the corrugated surface of the rubber substrate, the stretchability of PPy was greatly improved. Gold‐coated rubbers could be stretched to 30% without significant change in electrical resistance. The corrugated PPy/gold/rubber laminates successfully showed ～1% of actuation strain even when prestretched to 24%. The actuation strains were smaller than for similar free‐standing PPy films and a detailed analysis of the effects of corrugation and of the rubber substrate are presented to predict actuation strain under various prestretch strains. © 2012 Wiley Periodicals, Inc. J Polym Sci Part B: Polym Phys, 2013     

The dissociation of vibrationally excited CH3OSO radicals and their photolytic precursor, methoxysulfinyl chloride

The dissociation dynamics of methoxysulfinyl radicals generated from the photodissociation of CH(3)OS(O)Cl at 248 nm is investigated using both a crossed laser-molecular beam scattering apparatus and a velocity map imaging apparatus. There is evidence of only a single photodissociation channel of the precursor: S-Cl fission to produce Cl atoms and CH(3)OSO radicals. Some of the vibrationally excited CH(3)OSO radicals undergo subsequent dissociation to CH(3) + SO(2). The velocities of the detected CH(3) and SO(2) products show that the dissociation occurs via a transition state having a substantial barrier beyond the endoergicity; appropriately, the distribution of velocities imparted to these momentum-matched products is fit by a broad recoil kinetic energy distribution extending out to 24 kcal/mol in translational energy. Using 200 eV electron bombardment detection, we also detect the CH(3)OSO radicals that have too little internal energy to dissociate. These radicals are observed both at the parent CH(3)OSO(+) ion as well as at the CH(3)(+) and SO(2)(+) daughter ions; they are distinguished by virtue of the velocity imparted in the original photolytic step. The detected velocities of the stable radicals are roughly consistent with the calculated barriers (both at the CCSD(T) and G3B3 levels of theory) for the dissociation of CH(3)OSO to CH(3) + SO(2) when we account for the partitioning of internal energy between rotation and vibration as the CH(3)OSOCl precursor dissociates.     

Analyzing velocity map images to distinguish the primary methyl photofragments from those produced upon C-Cl bond photofission in chloroacetone at 193 nm

We use a combination of crossed laser-molecular beam scattering experiments and velocity map imaging experiments to investigate the three primary photodissociation channels of chloroacetone at 193 nm: C-Cl bond photofission yielding CH(3)C(O)CH(2) radicals, C-C bond photofission yielding CH(3)CO and CH(2)Cl products, and C-CH(3) bond photofission resulting in CH(3) and C(O)CH(2)Cl products. Improved analysis of data previously reported by our group quantitatively identifies the contribution of this latter photodissociation channel. We introduce a forward convolution procedure to identify the portion of the signal, derived from the methyl image, which results from a two-step process in which C-Cl bond photofission is followed by the dissociation of the vibrationally excited CH(3)C(O)CH(2) radicals to CH(3) + COCH(2). Subtracting this from the total methyl signal identifies the methyl photofragments that result from the CH(3) + C(O)CH(2)Cl photofission channel. We find that about 89% of the chloroacetone molecules undergo C-Cl bond photofission to yield CH(3)C(O)CH(2) and Cl products; approximately 8% result in C-C bond photofission to yield CH(3)CO and CH(2)Cl products, and the remaining 2.6% undergo C-CH(3) bond photofission to yield CH(3) and C(O)CH(2)Cl products.