Novel and cost‐effective 6‐plex isobaric tagging reagent,DiART, is effective for identification and relative quantification of complex protein mixtures using PQD fragmentation

Deuterium isobaric Amine Reactive Tag (DiART) reagents facilitate relative quantification during proteomic analysis in a functionally similar manner to commercially available isobaric tag for relative and absolute quantitation (iTRAQ) and tandem mass tag (TMT) reagents. In contrast to iTRAQ and TMT, DiART reagents incorporate deuterium isotopes which significantly reduce the number of required synthesis steps and hence have potential to significantly reduce reagent production cost. We examined the capability of DiART for performing quantitative proteomic experiments using a linear ion‐trap mass spectrometer with Pulsed Q Dissociation (PQD) fragmentation. Using a synthetic peptide tagged with DiART reagent, we observed a precise mass shift of 144.79 Da on the triply charged precursor ion, which shows complete derivatization of the N‐terminus and ε‐amino group of lysine. A DiART tagged tryptic digest of bovine serum albumin showed a sequence coverage of 57.99% which was very comparable to that showed by iTRAQ, 54.77%. Furthermore, a ten protein mixture tagged with DiART reagents and mixed in 1:1:1:1:1:1 exhibited < 15% error, whereas a linear trend (slope of 1.085) was observed when tagged proteins were mixed in the ratio 2:1:2:4:10:14 and plotted against theoretical ratios. Finally, when complex cell‐wall protein mixtures from the model fungus A. nidulans were tagged with DiART reagents and mixed in different ratios, they exhibited similar trends. We conclude that DiART reagents are capable of performing quantitative proteomic experiments using PQD on a linear ion trap mass spectrometer. Copyright © 2013 John Wiley & Sons, Ltd.     

Excited State Lactim to Lactam Type Tautomerization Reaction in 5-(4-Fluorophenyl)-2-Hydroxypyridine: Spectroscopic Study and Quantum Chemical Calculation

The photophysical properties of 5-(4-fluorophenyl)-2-hydroxypyridine (FP2HP) have been studied by steady state and time resolved spectroscopy in combination with quantum chemical calculations. The molecule FP2HP exists as lactim and lactam form in the ground state due to small stability difference but does not undergo lactim to lactam isomerisation due to high barrier energy. Whereas in the excited state the lactim form undergoes tautomerization producing red shifted emission of the lactam tautomer along with the local emission of the lactim form. In polar protic solvents, the barrier for lactim-lactam tautomerization rapidly decreases forming the lactam tautomer only. Temperature has pronounced effect on the excited state tautomerization equilibrium and is clearly reflected in the measured equilibrium constant (K _tau ⁰ ) and free energy change (??G⁰). Structural calculations at Hartree Fock and Density Functional Theory levels, calculated stability of the isomers in different solvents using Polarized Continuum Model and the theoretical potential energy surfaces for the ground and excited states along the proton transfer coordinate are reported for the tautomeric equilibrium of FP2HP.     

Minimizing flow time on a constant number of machines with preemption

We consider offline algorithms for minimizing the total flow time on O(1) machines where jobs can be preempted arbitrarily but migrations are disallowed. Our main result is a quasi-polynomial time approximation scheme for minimizing the total flow time. We also consider more general settings and give some hardness results.     

Chemical imaging of the surface of self-assembled polystyrene-b-poly(methyl methacrylate) diblock copolymer films using apertureless near-field IR microscopy

The nanoscale chemical composition variations of the surfaces of thin films of polystyrene- b-poly(methyl methacrylate) (PS- b-PMMA) diblock copolymers are investigated using apertureless near-field IR microscopy. The scattering of the incident infrared beam from a modulated atomic force microscopy (AFM) tip is probed using homodyne detection and demodulation at the tip oscillation frequency. An increase in the IR attenuation is observed in the PMMA-rich domains with a wavenumber dependence that is consistent with the bulk absorption spectrum. The results indicate that even though a small topography-induced artifact can be observed in the near-field images, the chemical signature of the sample is detected clearly.     

Design,synthesis, molecular docking,and biological studies of novel phytoestrogen-tanaproget hybrids

A diverse range of novel and highly functionalized flavonoid-based tanaproget hybrids were synthesized and evaluated in vitro for their antimicrobial and antiproliferative activities. Novel products were synthesized in good yields (81–95%) under Pd-catalyzed reaction from bromo flavones and tanaproget boronic acids within 18–20 min at 60 °C. Bioassay results exhibited excellent activities against both hormone-dependent and hormone-independent human breast cancer cells (MCF-7, MDA-MB-231, DU-145, PC-3, and HeLa). Among them, compounds 4e, 9a, 9c, 9e, 9 g, 9 h, 9 m, and 9n displayed excellent activity. Compounds 4d, 4o, and 9o were found equally potent against C. albicans compared to fluconazole. Compound 5c showed better antibacterial activity against S. aureus. Compounds 5a, 9i, 9o, and 10c have shown admirable antibacterial activity against E. coli.     

EMI shielding and microwave absorption behavior of Au‐MWCNT/polyaniline nanocomposites

Electrically conducting Au‐multiwalled carbon nanotube/polyaniline (Au‐MWCNT/PANi) nanocomposites were synthesized by two different ways: (1) by direct mixing of MWCNT/PANi and Au nanoparticles (Au‐MWCNT/PANi‐1) and (2) by in situ polymerization of aniline in the presence of both MWCNTs and Au nanoparticles (Au‐MWCNT/PANi‐2). The higher electrical conductivity of Au‐MWCNT/PANi‐2 compared with the other samples (PANi, MWCNT/PANi, Au‐MWCNT/PANi‐1) is supported by the red shifts of the UV‐vis bands (polaron/bipolaron), the high value of the –NH+= stretch peak (Fourier transform infrared spectroscopy studies), the high % crystallinity (X‐ray diffraction analysis) and more uniform dispersion of the Au NPs in the material. The performance of the samples in electromagnetic interference (EMI) shielding and microwave absorption was studied in the X‐band (8–12 GHz). For all the samples, absorption was the dominant factor contributing toward the EMI shielding. Au‐MWCNT/PANi‐2 showed the best performance with a total shielding effectiveness of ?16 dB [averaged over the X‐band (GHz)] and a minimum reflection loss of ?56.5 dB. The higher dielectric properties resulting from the heterogeneities because of the presence of nanofillers and the high electrical conductivity lead to the increased EMI shielding and microwave absorption. The results show the significance of both Au nanoparticles and method of synthesis on the EMI shielding performance of MWCNT/PANi composites. Copyright © 2016 John Wiley & Sons, Ltd.     

Regioselective synthesis of pyrimido[1,2-a][1,3,5]triazin-6-ones via reaction of 1-(6-oxo-1,6-dihydropyrimidin-2-yl)guanidines with triethylorthoacetate: observation of an unexpected rearrangement

A novel thermal rearrangement, involving pyrimidine ring opening and subsequent ring closure leading to recyclization of the system, was identified in the reaction of (6-oxo-1,6-dihydropyrimidin-2-yl)guanidines 3 (where NR(1)R(2) = NH(2), NH alkyl, NH aralkyl, NHCH(2)Ph(R)) with triethyl orthoacetate, affording 4-substituted-2-methyl-6H-pyrimido[1,2-a][1,3,5]triazin-6-ones 6 and their ring opened products. However, no such rearrangement was observed with (6-oxo-1,6-dihydropyrimidin-2-yl)guanidines 3 bearing a tertiary amino or anilino substituent (i.e. where NR(1)R(2) = N(CH(3))(2), indoline, morpholino, NHAr). As expected, 2-substituted-4-methyl-6H-pyrimido[1,2-a][1,3,5]triazin-6-ones 4 were obtained as the final products. Experimental structural determination and theoretical studies were carried out to get an understanding of the observed thermal rearrangement. In addition, an attempt to obtain similar pyrimido[1,2-a][1,3,5]triazin-6-ones using N,N-dimethylacetamide dimethyl acetal (DMA-DMA) as one carbon inserting synthon had furnished triazine ring annulated product 14 bearing N,N-dimethyl enamino substituent at position 4 as a result of further reaction with a second molecule of DMA-DMA.     

3-Helix micelles stabilized by polymer springs

Despite increasing demands to employ amphiphilic micelles as nanocarriers and nanoreactors, it remains a significant challenge to simultaneously reduce the particle size and enhance the particle stability. Complementary to covalent chemical bonding and attractive intermolecular interactions, entropic repulsion can be incorporated by rational design in the headgroup of an amphiphile to generate small micelles with enhanced stability. A new family of amphiphilic peptide-polymer conjugates is presented where the hydrophilic headgroup is composed of a 3-helix coiled coil with poly(ethylene glycol) attached to the exterior of the helix bundle. When micelles form, the PEG chains are confined in close proximity and are compressed to act as a spring to generate lateral pressure. The formation of 3-helix bundles determines the location and the directionalities of the force vector of each PEG elastic spring so as to slow down amphiphile desorption. Since each component of the amphiphile can be readily tailored, these micelles provide numerous opportunities to meet current demands for organic nanocarriers with tunable stability in life science and energy science. Furthermore, present studies open new avenues to use energy arising from entropic polymer chain deformation to self-assemble energetically stable, single nanoscopic objects, much like repulsion that stabilizes bulk assemblies of colloidal particles.