Quantitative proteomics strategy involving the selection of peptides containing both cysteine and histidine from tryptic digests of cell lysates

This paper describes a procedure for quantitative proteomics that selects peptides containing both cysteine and histidine residues from tryptic digests of cell lysates. Cysteine-containing peptides were selected first by covalent chromatography using thiol disulfide exchange. Following the release of cysteine-containing peptides from the covalent chromatography column with reductive cleavage, histidine-containing peptides were captured by passage through an immobilized metal affinity chromatography column loaded with copper. Quantification was achieved in a four-step process involving (i) differential labeling of control and experimental samples with isotopically differing forms of succinic anhydride, (ii) mixing the two globally labeled samples, (iii) fractionating the labeled peptides by reversed-phase liquid chromatography, and (iv) determining the isotope ratio in individual peptides by mass spectrometry. The results of these studies indicate that by selecting peptides containing both cysteine and histidine, the complexity of protein digests could be substantially reduced. Up-regulated proteins from plasmid bearing Escherichia coli that had been induced with isopropyl beta-thiogalacto-pyranoside were identified and quantified by the global internal standard technology (GIST) described above. Database searches were greatly simplified because the number of possible peptide candidates was reduced more than 95%.     

The chain configurational properties of novolak p-cresol–formaldehyde resins

Rotational isomeric state chain configurational analysis has been applied to the p-cresol–form-aldehyde chain structure. Steric interference allows the chain to be considered by using a twofold potential energy barrier. The bond rotational angles and conformational energies were set empirically to fit existing experimental dipole moment data, and the conformational angles were ±45° with a 132 cal/mole energy barrrier separating the g^±g^± from the g^±g^± rotational states. The data predict the existence of a cyclic tetramer in support of other researchers' experimental work. The limiting dipole moment ratio and characteristic ratio were computed to be 5.87 and 21.23, respectively. Support for this structure will have to wait for experimental data from higher-molecular-weight materials.     

Solid-state synthesis of a conducting polythiophene via an unprecedented heterocyclic coupling reaction

Prolonged storage ( approximately 2 years) or gentle heating (50-80 degrees C) of crystalline 2,5-dibromo-3,4-ethylenedioxythiophene (DBEDOT) affords a highly conducting, bromine-doped poly(3,4-ethylenedioxythiophene) (PEDOT), as confirmed by solid-state NMR, FTIR, CV, and vis-NIR spectroscopies. The novel solid-state polymerization (SSP) does not occur for 2,5-dichloro-3,4-ethylenedioxythiophene (DCEDOT), and requires a much higher temperature (>130 degrees C) for 2,5-diiodo-3,4-ethylenedioxythiophene (DIEDOT). X-ray structural analysis of the above dihalothiophenes reveals short Hal.Hal distances between adjacent molecules in DBEDOT and DIEDOT, but not in DCEDOT. The polymerization may also occur in the melt but is significantly slower and leads to poorly conductive material. Detailed studies of the reaction were performed using ESR, DSC, microscopy, and gravimetric analyses. SSP starts on crystal defect sites; it is exothermic by 14 kcal/mol and requires activation energy of approximately 26 kcal/mol (for DBEDOT). The temperature dependence of the conductivity of SSP-PEDOT (sigma(rt) = 20-80 S/cm) reveals a slight thermal activation. It can be further increased by a factor of 2 by doping with iodine. Using this approach, thin films of PEDOT with conductivity as high as 20 S/cm were fabricated on insulating flexible plastic surfaces.     

γ-sets and other singular sets of real numbers

A family of $\text{J}$ of open subsets of the real line is called an ω-cover of a set X iff every finite subset of X is contained in an element of $\text{J}$. A set of reals X is a γ-set iff for every ω-cover $\text{J}$ of X there exists $\text{〈D}{}_{\mathrm{n}}\text{: n < ω〉?}\text{J}{}^{\mathrm{\omega }}$ such that

In this paper we show that assuming Martin's axiom there is a γ-set X of cardinality the continuum.     

The design and synthesis of porphyrin/oligiothiophene hybrid monomers

In an effort to build effective photovoltaic cells based on porphyrin-functionalised polythiophenes we have focused on synthetic routes to three monomer types. By controlling the geometric structure of the monomer, oxidation of these materials should produce polymers with different architectural structures, and as a result, different opto-electronic properties. Employing Wittig protocols allowed access to monomers in which the porphyrin moiety is connected to the beta-position of the thiophene via an alkene linkage. In addition, monomers were constructed using porphyrin condensation methods to afford alpha-thiophene meso-substituted porphryins. Another set of monomers was also prepared via porphyrin condensation routes, but instead utilising beta-formylthiophenes. By utilising different formyloligothiophenes we were able to generate a series of monomers that can be used to control the loading of the porphyrin in the polythiophene matrix.     

The synthesis of 5-azaindole derivatives via mesoionic oxazolium 5-oxides

A synthesis of 5-azaindole derivatives is described. This synthetic approach involves the preparation of an appropriately substituted pyrrole derivative by a 1,3-dipolar cycloaddition reaction of dimethyl acetylenedicarboxylate with a mesoionic oxazolium 5-oxide. The pyrrole intermediate contains a protected β-aminoethyl substituent, and subsequent removal of the phthalimido protecting group results in cyclization to yield the corresponding 5-azaindole. This approach has been used for both acyclic and cyclic amino acid precursors of the 1,3-dipole which is ultimately used in the sequence.     

LIGHT-INDUCIBLE ABSORBANCE CHANGES AND VANADATE-SENSITIVE ATPase ACTIVITY ASSOCIATED WITH THE PRESUMPTIVE PLASMA MEMBRANE FRACTION FROM CAULIFLOWER INFLORESCENCES

Sucrose density gradient centrifugation of a microsomal membrane fraction of cauliflower inflorescences showed a strong correlation between a blue light mediated cytochrome b reduction (LIAC) and an ion stimulated nitrate-insensitive but a vanadate-sensitive ATPase activity at 38-40% sucrose. LIAC activity and vanadate-sensitive ATPase might be assigned to the same type of membrane different from ER, Golgi, tonoplast and mitochondria. The Mg²⁺-dependent ATP-hydrolytic activity obtained after purification of the microsomal fraction on an aqueous polymer two phase system was partially characterized. Temperature optimum (40°C), pH optimum (pH 7.0), vanadate inhibition (I₅₀ at 20 μ M ), substrate kinetics ( K _m= 1.37 m M Mg.ATP) and inhibitor studies all point to the presence of the frequently described plasma membrane ATPase. Potassium and Na⁺ stimulated the enzyme activity (20-40%). In general our data arc strongly in favour of the hypothesis that LIAC activity is localized on the plant plasma membrane. The cytochrome b involved in the light reaction has a midpoint potential near +150 mV. This cytochrome which has been previously shown in a cauliflower microsomal fraction is a constituent of the plasma membrane.     

Synthesis and anti-tumor activity of β-C-glycoside analogs of the immunostimulant KRN7000

A ring-closing metathesis approach was employed for the synthesis of a β-C-glycoside analog of the immunostimulant KRN7000. The protected C-glycosyl amino acid derivative 18 was converted to amino-olefin 20, and osmylation served to install the diol unit as a mixture of separable syn and anti isomers. Deprotection to the hydroxy-amine 21 was followed by N-acylation and debenzylation to deliver the target compound 5.     

Remote sensing in an optically dense environment by using two-photon excited fluorescence and a single multimode fiber optic

The feasibility of remote sensing by means of two-photon excited molecular fluorescence was investigated by using a single 115-m multimode optical fibr.Because of modal dispersion and reflecton of Rayleigh scatter, time-resolved detection ws required to resolve the weak fluorescence from the relatively intense laser background. The bare-ended probe, which both delivered the excitation and collected the fluorescence emission, was employed to detect an analyte in an optically dense environment. For a fixed amount of fluorophore, the solvent was continuously changed from 90% (w/w) ethanol (non-absorbing) to 100% acetone (absorbing). The result was a flurorescence signal constant to within 5%. Quantitation via one-photon excitatation using a 50-cm optical fiber demonstrated the characteristic inner filter roll-off of optically dense systems. Because of th elarge attenuation of the waveguide in the ultraviolet range, remote sensing via one-photon excited fluorescence proved impossible. However, linear calibration plots for the nonlinear excitation process were obtained from micromolar to near saturation levels. Sources of interference were isolated, and the extension to a single-mode fiber was made.     

Strong coupling expansion for classical statistical dynamics

We discuss the simple, randomly driven systemdx/dt = –x –x³ +f(t), wheref(t) is a Gaussian random function or stirring force with f(t)f(t) = (t – t). We show how to obtain approximately the coefficients of the expansion of the equal-time Green's functions as power series in (1/R)ⁿ, whereR is the internal Reynolds number ()^1/2/, by using a new expansion for the path integral representation of the generating functional for the correlation functions. Exploiting the fact that the action for the randomly driven system is related to that of a quantum mechanical anharmonic oscillator with Hamiltonianp ²/2 +m ² x ²/2 +vx ⁴ +x ⁶/2, we evaluate the path integral on a lattice by assuming that thex ⁶ term dominates the action. This gives an expansion of the lattice theory Green's functions as power series in 1/(a)^1/3, wherea is the lattice spacing. Using Padé approximants to extrapolate toa = 0, we obtain the desired large-Reynolds-number expansion of the two-point function.Supported financially by the National Science Foundation and the U.S. Department of Energy.