Stability Enhancement for Peptide Analysis by Electrospray Using the Triple Quadrupole Mass Spectrometer

Electrospray ionization sources, used with triple quadrupole mass spectrometers from PE/Sciex (API III+), Micromass (Quattro II), and Finnigan (TSQ 7000), were modified with a 35-gauge stainless steel needle. The dimensions of the needle were 63 μm i.d. by 145 μm o.d. with variable length, depending on the specific instrument. This modification led to enhanced signal stability, improved signal/noise ratios, and lowered sample consumption for a wide range of peptides. Stable baselines were observed with flow rates in the range of 50 nL/min to 5 μL/min. An alternative design, based on a metal wire housed within a fused silica capillary, led to the most stable signals of all during infusion, but caused excessive peak broadening with capillary chromatography. The Finnigan interface was further modified with an external postcolumn addition tee, used in conjunction with capillary liquid chromatography columns of 30 and 50 μm internal diameter. The best results with the modified Finnigan interface were acquired using the 50-μm column at a flow rate of 150 to 200 nL/min.     

cDNA cloning and sequence analysis of the rice Cinnamate-4-Hydroxylase gene, a cytochrome P450-dependent monooxygenase involved in the general phenylpropanoid pathway

Plant cytochrome P450 monooxygenases (P450s) mediate a wide range of oxidative reactions involved in the biosynthesis of phenylpropanoids, terpenes, lipids, and alkaloids. We isolated a cDNA clone for cinnamate-4-hydroxylase (C4H) from a Japonica type rice(Oryza sativa L. cv. llpumbyeo). This C4H has a deduced amino acid sequence that is 85% identical tothat ofSorghum bicolor. Our phylogenetic analysis also showed that theOsC4HL gene is closely related toC4H fromS. bicolor. A putative genomic DNA sequence corresponding toOsC4HL contained cis-elements (boxes P, A, L, and TCA motifs), AT-rich elements, and wound-response elements that control gene expression in its promoter region.OsC4HL expression was detected in all the tissue types, with the highest level being measured in the roots. It was also apparently up-regulated by wounding stress. These data suggest that theOsC4HL gene isC4H member in theCYP73 subfamily.     

EPR studies on two ferredoxin-type iron-sulfur centers in reconstitutively active, inactive, and reactivated soluble succinate dehydrogenases

Two distinct iron-sulfur centers, S-1 and S-2 are present in both reconstitutively active and inactive soluble succinate dehydrogenase preparations in approximately equivalent concentrations to that of bound flavin. The midpoint potentials at pH 7.4 of these centers are ?5 ± 15 mV and ?400 ± 15 mV, respectively. EPR characteristics of Center S-2, observed above 6° K, are not significantly different in the active and inactive dehydrogenases. At lower temperatures, however, major line shape modifications of Center S-2 spectra are observed in the reconstitutively inactive dehydrogenases, but neither in the active dehydrogenase nor in the particulate preparations. This phenomenon may reflect spin-spin interaction between Centers S-1 and S-2. Chemical reactivation of the reconstitutively inactive preparations abolishes this resonance modification and restores the normal line shape. This is a demonstration of another close correlation between a physical property and reconstitutive activity of succinate dehydrogenase.     

Low temperature electron paramagnetic resonance studies on two iron-sulfur centers in cardiac succinate dehydrogenase

At temperatures below 20°K, EPR signals from a new iron-sulfur center (designated here as Center S-2 or (Fe-S)_S-2) in addition to the classical “g = 1.94 signal” (designated as Center S-1 or (Fe-S)_S-1) were detected in purified, soluble succinate dehydrogenase, particulate succinate ubiquinone reductase (Complex II) and particulate succinate cytochrome $\text{c}$ reductase from bovine heart. The measured half-reduction potential (E_m7.4) of Center S-1 was 0 ± 10 mV, while E_m7.4 of Center S-2 was ?260 ± 15 mV in the membrane bound preparations. Upon solubilization of succinate dehydrogenase, the EPR behavior of Center S-2 became extremely labile similar to the characteristics of the reconstitutive activity of succinate dehydrogenase toward the rest of the respiratory chain.     

Algorithms for prediction of alpha-helical and beta-structural regions in globular proteins

Algorithms are suggested for identifying α-helical and β-structural regions in native globular proteins. α-Helical and β-structural regions are predicted, with accuracy of ~80 and ~85% respectively, for 25 proteins, the three-dimensional structures of which have been determined by X-ray diffraction crystallography. Secondary structure is predicted in 25 proteins with unknown three-dimensional structure.