Hydration in protein folding: thermal unfolding/refolding of human serum albumin

Human serum albumin (HSA) is known to undergo both reversible and irreversible thermal unfolding and refolding, depending upon the experimental conditions (end temperature) at neutral pH. In this report we have used high precision densimetric and ultrasonic measurements to determine the apparent specific volume (phi v) and compressibility (phi k) of HSA at different unfolded and refolded states at two different end temperatures, 55 degrees C and 70 degrees C. The unfolded and refolded states were characterized using dynamic light scattering (DLS), circular dichroism (CD), picosecond-resolved fluorescence decay, and anisotropy of the single-tryptophan residue in HSA (Trp214). Both the unfolded states were allowed to refold by cooling wherein the former and latter processes were found to be reversible and irreversible, respectively, in nature. The results obtained from the densimetric and ultrasonic measurements reveal that the apparent specific volume and compressibility of the protein in the reversible protein unfolding process is preserved upon restoration of HSA to ambient temperature. However, a significant change in phi v and phi k occurs in the process of irreversible protein refolding (from 70 to 20 degrees C). The experimental observation is rationalized in terms of the exposure of domain IIA to an aqueous environment, resulting in the swelling of the protein to a higher hydrodynamic diameter. Our studies attempt to explore the extent of hydration associated with the structural integrity of the popular protein HSA.     

Synthesis of 3-substituted bacteriochlorophyll-d analogs and their self-aggregation in a nonpolar organic solvent

Zinc complexes of 3¹-epimerically pure 3²,3²,3²-trifluoro-bacteriopheophorbide-d methyl ester were prepared and their self-aggregation was examined in 1% (v/v) dichloromethane and hexane by visible and circular dichroism spectroscopies. Both the synthetic 3¹-trifluoromethylated diastereomers gave amorphous self-aggregates in the nonpolar organic solvent, while the corresponding nonfluorinated compounds possessing the 3¹-methyl group formed well-ordered and large oligomers similar to in vivo aggregates of bacteriochlorophyll-d in a chlorosome, a main light-harvesting antenna of green photosynthetic bacteria. The difference is ascribed to steric factor of the 3-CF₃ group, which was supported by optical properties of other synthetic zinc 3¹-hydroxy-13¹-oxo-chlorins possessing trifluoromethyl or secondary/tertiary substituents at the 3¹-position in the nonpolar organic solvent.     

The influence of the binding of low molecular weight surfactants on the thermal stability and secondary structure of IgG

The effect of low molecular weight surfactants on the thermal stability of immunoglobulin G is studied by differential scanning calorimetry. The corresponding change in the secondary structure is investigated using circular dichroism spectroscopy and the rate of aggregate formation, both in the presence and absence of surfactant, is monitored by dynamic light scattering. At low surfactant concentrations (SDS/Tween 20 mixture) the thermal stability of the protein was not affected. With increasing surfactant concentration the protein structure is perturbed, most probably due to hydrophobic interaction with the surfactant, leading to a lower thermal stability. At even higher concentrations the surfactant molecules encapsulate the protein molecules, so that the unfolded state is strongly suppressed due to restricted conformational freedom in a confined volume. Interaction with the surfactant mixture at intermediate concentration influences the secondary structure of IgG strongly, i.e. α-helix and random coil conformations are promoted and the amounts of β-sheets and β-turns are reduced.     

Circular dichroism of optically active poly(dialkylsilane) aggregates in microcapsules

Poly[n-hexyl-(S)-3-methylpentylsilane] aggregates confined in microcapsules to keep the aggregation number and ranging in average polymer mass m(p) in a microcapsule from 2 x 10(-)(16) to 2 x 10(-)(14) g were studied by circular dichroism measurements in ethanol (a nonsolvent) and tetrahydrofuran (an associative solvent at low temperature) at various temperatures. The weight-average molecular weight M(w) and the polydispersity index (the ratio of M(w) to the number-average molecular weight) of the polysilane sample were 6.6 x 10(4) and 1.07, respectively, and the average number of polymer molecules in each capsule was estimated to be 1.9 x 10(3) for m(p) = 2 x 10(-)(16) g and 1.7 x 10(5) for m(p) = 2 x 10(-)(14) g. The size of each aggregate did not affect the optical activity because the circular dichroism thus obtained was proportional to m(p) under the same conditions in the investigated m(p) range; on the other hand, the peak height of the circular dichroism in tetrahydrofuran had a significant hysteresis between 0 and 25 degrees C. Moreover, the circular dichroism appreciably reflected the prepared method, that is, the temperature and solvent; in other words, the aggregates memorized the initial conditions in their stacking structures.     

Modulation with acetonitrile of the dynamics of guest binding to the two distinct binding sites of cholate aggregates

Bile salt aggregates are supramolecular systems containing two different binding sites. The effect of the addition of acetonitrile on the specificity and dynamics of guest binding to the two binding sites of cholate aggregates was studied. The protection of guests included in the aggregate from interaction with ions in the aqueous phase was evaluated from quenching of the singlet and triplet excited states of guest molecules bound to the cholate aggregates. The dynamics of guest binding to the primary and secondary binding sites of the cholate aggregates were determined at increasing acetonitrile mole fractions. The structure of the aggregates was not significantly altered provided the cholate concentrations were higher than 20 mM and the acetonitrile mole fraction did not exceed 0.033 (9.1% v/v). These results show that acetonitrile can be used to modulate the solubility of guests in the aggregates and to manipulate the residence time of guests in the primary and secondary binding sites.     

Sulfoxides as chiral complexation agents. Conformational enantiomer resolution and induced circular dichroism of bilirubins

Bilirubin-IX, the end product of porphyrin metabolism in mammals and the neurotoxic yellow-orange pigment of jaundice, exhibits a strong tendency to fold like a book into either of two interconverting enantiomeric conformations, which are further stabilized by intramolecular hydrogen bonding. Bilirubin exhibits optical activity in R-(-)-ethylmethylsulfoxide solvent, as seen by moderately strong bisignate circular dichroism Cotton effects (Δε^max₄₅₂=+10.9,Δε^max₄₀₄=-4.5), and in dichloromethane solution in the presence of 2M R-(+)-methyl-p-tolylsulfoxide its circular dichroism spectrum (Δε₄₆₃^max=+11.2,Δε₄₁₂^max=-7.1) is comparably strong. As observed earlier for chiral recognition of bilirubin by optically active amines and serum albumins, the optically active sulfoxide acts as a chiral complexation agent to induce an asymmetric transformation of bilirubin, whose bisignate circular dichroism spectra are characteristic of an exciton splitting arising from interaction of the two component dipyrrinone chromophores.     

Interaction of meso-tetrakis(4-sulphonatophenyl)porphine with chitosan in aqueous solutions

Interaction of meso-tetrakis(4-sulphonatophenyl)porphine (TPPS4) with chitosan (Mr approximately 400 kDa, N-acetyls approximately 20 mol.%) was studied in aqueous solutions. UV-vis absorption and circular dichroism (CD) spectroscopic titration of 10 micromol l-1 TPPS4 with chitosan demonstrated that an addition of the polysaccharide at appropriate concentrations and pH values induce and support self-aggregation of the macrocycles. The mode of aggregation was strongly dependent on pH: stacking (H-type) aggregates predominated at weak acidic conditions (pH 4.8-6.8) and tilted (J-type) aggregates at pH 2.5. At the intermediate pH value (3.6) both types of TPPS4 aggregates were detected. High amount of chitosan (>0.05 mmol l-1 of GlcN) disrupts H-aggregates forming monomeric porphyrin-chitosan complexes (pH 3.6-6.8), while J-aggregates (pH 2.5) are stable even at very high chitosan concentrations. CD titration experiments confirmed the formation of optically active species of TPPS4 in the presence of chitosan. The complex nature of CD bands assigned to both types of porphyrin aggregates indicated the occurrence of several chiral macrocyclic species dependently on pH value and chitosan concentration.     

Chirality-induced signals in coherent multidimensional spectroscopy of excitons

The nonlocal second- and third-order susceptibilities of an isotropic ensemble of aggregates are calculated by solving the nonlinear exciton equations which map the system into coupled anharmonic oscillators. Both electric and magnetic contributions are included using the minimal-coupling Hamiltonian. The various tensor components are evaluated to first order in the optical wave vector k. Additional structural information about the interchromophore distances, which is not accessible through zeroth-order contributions (the dipole approximation), is contained to the first order in k. New resonant second- and third-order signals predicted for chiral molecules provide multidimensional extensions of circular dichroism spectroscopy. Numerical simulations demonstrate the sensitivity of third-order signals to the secondary structural motiffs of peptides.     

Pervaporative separation of ethanol from an alcohol—ester quaternary mixture

As part of a research project focusing on the development of a sustainable biocatalytic process for production of chiral secondary alcohols, the pervaporative separation of ethanol from ethanol/ethyl acetate/1-methoxy-2-propanol/1-methoxy-2-propyl acetate-mixtures through a commercial PVA-based membrane was investigated. Separation behavior of this mixture was studied in a range of mol fractions (10–70%), temperatures relevant for biocatalytic conversions (35–55 °C) and downstream pressures (35–200 mbar).

Pervaporation of the non-diluted multicomponent mixture was shown to be strongly influenced by interactions between the permeants and the membrane. Investigation of these interactions contributed to the understanding of the mass transport mechanism of this mixture. Overall, high fluxes were obtained, but small differences between the fastest permeating species were found. The fastest permeating species was ethanol, ethyl acetate or 1-methoxy-2-propanol depending on the feed composition.     

Synthesis of a New Cationic Pyropheophorbide Derivative and Studies of its Aggregation Process in Aqueous Solution

Abstract— A new water-soluble cationic pyropheophorbide was prepared from pyropheophorbide a by a Curtius rearrangement. The self-aggregation process of this chlorhydrate of aminopyropheophorbide was investigated from the changes observed in its spectroscopic properties when passing from ethanol to aqueous solutions. The formation of aggregates was characterized in the absorption spectrum by a broadening of the Qy band, which is slightly shifted to the red, a significant increase in signals of circular dichroism and a drastic quenching of the fluorescence intensity at 674 nm. Analysis of the nonlinear variation of the fluorescence intensity with the dye concentration in Tris-buffered solutions shows that dimerization is the dominant aggregation process. The dimerization equilibrium constant(at 25_AoC, pH 7.5 in 5 m M Tris buffer, 10 m M NaCl) was determined to be 3.10₆ M _-l. NMR measurements performed in DMSO at various dye concentrations showed that only the chemical shifts of some atoms are affected by these changes, indicating the part of the ring involved in the overlap of the two molecules in the dimer.A molecular modeling study of the packing arrangement of the aminopyropheophorbide molecules in aggregates performed by both semi-empirical quantum chemical PM3 and force field MM2 methods provided a structure consistent with these spectroscopic data.     

Magneto-optic spectroscopy of a protein tetramer binding two exciton-coupled chlorophylls

In vitro chlorophyll (Chl) aggregates have often served as models for in vivo forms of long-wavelength Chl. However, the interaction of protein-bound Chl molecules is typically different than that occurring in solvent-based self-aggregates. We have chosen a water-soluble Chl-binding protein (WSCP) from cauliflower in order to help characterize the spectroscopic properties of Chl in a single well-defined native environment and also to study the pigment-pigment (exciton) interactions present in assemblies of this protein. WSCP forms tetrameric units upon binding two Chl molecules. We present the absorption, circular dichroism (CD), magnetic circular dichroism (MCD), and emission spectra at 1.7 K of recombinant WSCP tetramers containing either Chl a or Chl d. The spectroscopic characteristics provide evidence for significant exciton interaction between equivalent Chl molecules. Our simple exciton analysis allows an estimate of the molecular geometry of the dimer, which is predicted to have an "open sandwich"-type structure. We find that the ratio of the magnetic circular dichroism to absorption, deltaA/A, is substantially increased (approximately 60%) for Chl a in this system compared to its value in solution. This increase is in marked contrast to substantial reductions (>50%) of deltaA/A seen in solvent-based Chl aggregates and in photosynthetic reaction centers. Current theoretical models are unable to account for such large variations in the MCD to absorption ratio for Chl. We propose that spectroscopic studies of WSCP mutants will enable a fundamental understanding of Chl-Chl and Chl-protein interactions.     

Effect of the headgroup structure on the aggregation behavior and stability of self-assemblies of sodium N-[4-(n-dodecyloxy)benzoyl]-l-aminoacidates in water

Three amino acid-derived chiral surfactants, sodium N-[4-(n-dodecyloxy)benzoyl]-L-leucinate (SDBL), sodium N-[4-(n-dodecyloxy)benzoyl]-L-isoleucinate (SDBIL), and sodium N-[4-(n-dodecyloxy)benzoyl]-L-threoninate (SDBT), were synthesized, and their aggregation behavior was studied in aqueous solution. Surface tension, fluorescence probe, dynamic light scattering, nuclear magnetic resonance (NMR), gel permeation chromatography, circular dichroism, and optical as well as transmission electron microscopic techniques were utilized to characterize the self-assemblies formed by the amphiphiles. Results of these studies reveal that the surfactants have a very low critical aggregation concentration (cac) and they form spherical vesicles spontaneously in dilute aqueous solution. The mean diameters of the vesicles were measured to be in the range of 130-190 nm. 1H NMR spectra indicated hydrogen bonding between the amide groups near the surfactant headgroup, which is one of the driving forces for vesicle formation. The vesicle formation is more favored at a pH of about 7.0. The amphiphiles also form chiral helical aggregates at relatively higher concentrations as indicated by circular dichroism spectra. The stability of the vesicles was also evaluated with respect to the surfactant concentration, pH, temperature, and aging. The vesicles have a tendency to transform into elongated vesicles (closed tubules) or rodlike micelles with an increase of the surfactant concentration and/or pH. On the basis of the results obtained from different studies, phase diagrams for all three water/amphiphile systems have been constructed. The studies have further shown that the stereogenic center at the amino acid side chain has a significant effect on the aggregation properties of the amphiphiles and on the stability of the self-assemblies.     

Sensing of Double‐Stranded DNA/RNA Secondary Structures by Water Soluble Homochiral Perylene Bisimide Dyes

A broad series of homochiral perylene bisimide (PBI) dyes were synthesized that are appended with amino acids and cationic side chains at the imide positions. Self‐assembly behavior of these ionic PBIs has been studied in aqueous media by UV/Vis spectroscopy, revealing formation of excitonically coupled H‐type aggregates. The interactions of these ionic PBIs with different ds‐DNA and ds‐RNA have been explored by thermal denaturation, fluorimetric titration and circular dichroism (CD) experiments. These PBIs strongly stabilized ds‐DNA/RNA against thermal denaturation as revealed by high melting temperatures of the formed PBI/polynucleotide complexes. Fluorimetric titrations showed that these PBIs bind to ds‐DNA/RNA with high binding constants depending on the number of the positive charges in the side chains. Thus, spermine‐containing PBIs with six positive charges each showed higher binding constants (logK_s=9.2–9.8) than their dioxa analogues (logK_s=6.5–7.9) having two positive charges each. Induced circular dichroism (ICD) of PBI assemblies created within DNA/RNA grooves was observed. These ICD profiles are strongly dependent on the steric demand of the chiral substituents of the amino acid units and the secondary structure of the DNA or RNA. The observed ICD effects can be explained by non‐covalent binding of excitonically coupled PBI dimer aggregates into the minor groove of DNA and major groove of RNA which is further supported by molecular modeling studies.     

Characterization of hemoglobin immobilized on gamma-zirconium phosphate

The fact that different γ-zirconium phosphate (γ-ZrP) preintercalation method induced varied degree and type of conformational change of the adsorption protein was confirmed by characterization techniques including circular dichroism (CD), fourier transform infrared spectroscopy (FTIR) and X-ray powder diffraction (XRD) analysis. The results indicated that the association of hemoglobin with γ-ZrP preintercalated using butylamine was correlated with conformational change in the secondary structure of the protein. γ-ZrP which was preintercalated with tetra (n-butylammonium) hydroxide caused the conformational change of Hemoglobin in both the secondary structure and the tertiary structure. X-ray powder diffraction analysis was used to analyze the crystalline structure of the nanocomposites prepared by relamination. The adsorption isotherms of Hemoglobin on different matrices were set up and fitted with Langmuir and Freundlich equations.     

Spectroscopic probing of bile salt-albumin interaction

Interaction of the bile salts, sodium cholate and sodium deoxy cholate with albumin has been probed by fluorescence and circular dichroism studies. Both covalently and non-covalently labeled protein have been used to follow the aggregation of bile salts in presence of protein and to study bile salt-protein interactions in general. Time resolved studies, in agreement with steady-state fluorescence and circular dichroism studies, indicate alteration of protein secondary structure due to positive co-operative effects in bile salt binding to protein. These studies also indicate that covalent labeling may not always be good for studying proteins as it causes alteration of protein secondary structure.     

果菠萝蛋白酶在有机溶剂微扰时的分子折叠与活力变化的研究

本文用荧光、紫外差示及CD光谱研究果菠萝蛋白酶经甲醇、乙醇、乙二醇微扰后的构象与活力变化情况.酶的荧光强度随有机溶剂浓度增大而增强,表明Tyr、Trp微环境发生明显变化。232nm和285nm处出现紫外差吸收正峰。前峰与酶分于折叠的变化有关,而后峰与Tyr、Trp微环境的变化相关.甲醇、乙醇微扰后,天然酶的208nm和225nmCD双负峰逐渐加强,而乙二醇微扰后,225nm负峰加强。208nm负峰减弱并红移直至完全消失,说明酶分子完全伸展.     

Interactions of Hemoglobin with Vesicles and Tubes Formed from Mixtures of Histidine-Derived Bolaamphiphile and Conventional Surfactants

The interactions between protein and surfactant aggregates have been the subject of intensive studies due to their potential applications in biological systems. Here we report the interactions of hemoglobin (Hb) with vesicles and tube-like aggregates formed from mixtures of a histidine-derived bolaamphiphile and a cconventional surfactant dodecyltrimethylammonium bromide (DTAB). This study was performed using a combination of UV–vis spectroscopy, steady and synchronous fluorescence spectroscopy, circular dichroism, and microcalorimetry measurements. The secondary structure of the protein is disturbed, and then the partially unfolded protein is capable of penetrating the vesicles and tube-like aggregates, this is mainly the result of hydrogen bonding and hydrophobic interactions between Hb and the H₂D/DTAB aggregates. The polar portion of the unfolded protein chains is near to the polar head of the amphiphile in the aggregate’s membrane. Hb is converted to hemichrome in the vesicles, and the heme monomer is solubilized in tube-like aggregates after escaping from the hydrophobic cavity of Hb.     

Aggregation Pathways of the Amyloid β(1-42) Peptide Depend on Its Colloidal Stability and Ordered β-Sheet Stacking

Amyloid β (Aβ) fibrils are present as a major component in senile plaques, the hallmark of Alzheimer's disease (AD). Diffuse plaques (nonfibrous, loosely packed Aβ aggregates) containing amorphous Aβ aggregates are also formed in brain. This work examines the influence of Cu(2+) complexation by Aβ on the aggregation process in the context of charge and structural variations. Changes in the surface charges of Aβ molecules due to Cu(2+) binding, measured with a ζ-potential measurement device, were correlated with the aggregate morphologies examined by atomic force microscopy. As a result of the charge variation, the "colloid-like" stability of the aggregation intermediates, which is essential to the fibrillation process, is affected. Consequently, Cu(2+) enhances the amorphous aggregate formation. By monitoring variations in the secondary structures with circular dichroism spectroscopy, a direct transformation from the unstructured conformation to the β-sheet structure was observed for all types of aggregates observed (oligomers, fibrils, and/or amorphous aggregates). Compared to the Aβ aggregation pathway in the absence of Cu(2+) and taking other factors affecting Aβ aggregation (i.e., pH and temperature) into account, our investigation indicates that formations of amorphous and fibrous aggregates diverge from the same β-sheet-containing partially folded intermediate. This study suggests that the hydrophilic domain of Aβ also plays a role in the Aβ aggregation process. A kinetic model was proposed to account for the effects of the Cu(2+) binding on these two aggregation pathways in terms of charge and structural variations.     

Development of new ethanologenic Escherichia coli strains for fermentation of lignocellulosic biomass

Two new ethanologenic strains (FBR4 and FBR5) of Escherichia coli were constructed and used to ferment corn fiber hydrolysate. The strains carry the plasmid pLO1297, which contains the genes from Zymomonas mobilis necessary for efficiently converting pyruvate into ethanol. Both strains selectively maintained the plasmid when grown anaerobically. Each culture was serially transferred 10 times in anaerobic culture with sugar-limited medium containing xylose, but noselective antibiotic. An average of 93 and 95% of the FBR4 and FBR5 cells, respectively, maintained pLO1297 in anaerobic culture. The fermentation performances of the repeatedly transferred cultures were compared with those of cultures freshly revived from stock in pH-controlled batch fermentations with 10% (w/v) xylose. Fermentation results were similar for all the cultures. Fermentations were completed within 60 h and ethanol yields were 86–92% of theoretical. Maximal ethanol concentrations were 3.9–4.2% (w/v). The strains were also tested for their ability to ferment corn fiber hydrolysate, which contained 8.5% (w/v) total sugars (2.0% arabinose, 2.8% glucose, and 3.7% xylose). E. coli FBR5 produced more ethanol than FBR4 from the corn fiber hydrolysate. E. coli FBR5 fermented all but 0.4% (w/v) of the available sugar, whereas strain FBR4 left 1.6% unconsumed. The fermentation with FBR5 was completed within 55 h and yielded 0.46 g of ethanol/g of available sugar, 90% of the maximum obtainable. Author to whom all correspondence and reprint requests should be addressed. Names are necessary to report factually on available data. However, the USDA neither guarantees nor warrants the standard of the product, and the use of the name by USDA im plies no approval of the product to the exclusion of others that may also be suitable.     

Pressurized solvent extraction and monolithic column-HPLC/DAD analysis of anthocyanins in red cabbage

The aim of this work was to develop a fast method for extraction and analysis of anthocyanins in red cabbage. Pressurized hot water containing 5% of ethanol was used as an extremely efficient extraction solvent. HPLC/DAD with a monolithic column was used to accomplish a fast analysis—24 anthocyanin peaks within 18 min. Statistical design was used to optimize the studied extraction parameters: temperature (80–120 °C); sample amount (1–3 g); extraction time (6–11 min); concentration of formic acid in the extraction solvent (0–5 vol.%). The best extraction conditions for a majority of the anthocyanin peaks were 2.5 g of sample, 99 °C (at 50 bar), 7 min of extraction and a solvent composition of water/ethanol/formic acid (94/5/1, v/v/v).