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Biomedical subjects

S A Asher

Publications and source records attributed to S A Asher.

At least 19 recordsLinked to original sources
PubMed1999

Ultraviolet resonance Raman examination of horse apomyoglobin acid unfolding intermediates.

We have used UV resonance Raman spectroscopy to study the acid-induced denaturation of horse apomyoglobin (apoMb) between pH 7. 0 and 1.8. The 206.5 nm excited Raman spectra are dominated by amide vibrations, which are used to quantitatively determine the apoMb secondary structure. The 229 nm excited Raman spectra are dominated by the Tyr and Trp Raman bands, which are analyzed to examine changes of Tyr and Trp environments and solvent exposures. We observe two partially unfolded apoMb intermediates at pH 4 and pH 2, while we observe only one partially unfolded holoMb intermediate at 2, in which the G and H helices are mainly intact, while the rest of protein is unfolded. This partially unfolded holoMb intermediate at pH 2 is essentially identical to the pH 2 apoMb intermediate. The partially unfolded pH 4 apoMb intermediate is composed of the three folded A, G, and H helices and contains 38% helical structure. The changes in the Trp Raman cross sections during the acid-induced denaturation indicates that Trp 7 is likely to be fully exposed in the apoMb pH 4 intermediate and that the A helix melts with a pKa approximately 3.5.

Animals↗
PubMed1999

Entropic trapping of macromolecules by mesoscopic periodic voids in a polymer hydrogel.

The separation of macromolecules such as polymers and DNA by means of electrophoresis, gel permeation chromatography or filtration exploits size-dependent differences in the time it takes for the molecules to migrate through a random porous network. Transport through the gel matrices, which usually consist of full swollen crosslinked polymers, depends on the relative size of the macromolecule compared with the pore radius. Sufficiently small molecules are thought to adopt an approximately spherical conformation when diffusing through the gel matrix, whereas larger ones are forced to migrate in a snake-like fashion. Molecules of intermediate size, however, can get temporarily trapped in the largest pores of the matrix, where the molecule can extend and thus maximize its conformational entropy. This 'entropic trapping' is thought to increase the dependence of diffusion rate on molecular size. Here we report the direct experimental verification of this phenomenon. Bragg diffraction from a hydrogel containing a periodic array of monodisperse water voids confirms that polymers of different weights partition between the hydrogel matrix and the water voids according to the predictions of the entropic trapping theory. Our approach might also lead to the design of improved separation media based on entropic trapping.

Acrylic Resins↗
PubMed1999

Ultraviolet Raman examination of the environmental dependence of bombolitin I and bombolitin III secondary structure.

Bombolitin I and III (BI and BIII) are small amphiphilic peptides isolated from bumblebee venom. Although they exist in predominately nonhelical conformations in dilute aqueous solutions, we demonstrate, using UV Raman spectroscopy, that they become predominately alpha-helical in solution at pH > 10, in high ionic strength solutions, and in the presence of trifluoroethanol (TFE) and dodecylphosphocholine (DPC) micelles. In this paper, we examine the effects of electrostatic and hydrophobic interactions that control folding of BI and BIII by systematically monitoring their secondary structures as a function of solution conditions. We determine the BI and BIII secondary structure contents by using the quantitative UV Raman methodology of Chi et al. (1998. Biochemistry. 37:2854-2864). Our findings suggest that the alpha-helix turn in BIII at neutral pH is stabilized by a salt bridge between residues Asp2 and Lys5. This initial alpha-helical turn results in different BI and BIII alpha-helical folding mechanisms observed in high pH and high salt concentrations: BIII folds from its single alpha-helix turn close to its N-terminal, whereas the BI alpha-helix probably nucleates within the C-terminal half. We also used quasielastic light scattering to demonstrate that the BI and BIII alpha-helix formation in 0.2 M Ca(ClO4)2 is accompanied by formation of trimers and hexamers, respectively.

Bee Venoms↗
PubMed1998

UV resonance Raman-selective amide vibrational enhancement: quantitative methodology for determining protein secondary structure.

We have directly determined the amide band resonance Raman spectra of the "average" pure alpha-helix, beta-sheet, and unordered secondary structures by exciting within the amide pi-->pi* transitions at 206.5 nm. The Raman spectra are dominated by the amide bands of the peptide backbone. We have empirically determined the average pure alpha-helix, beta-sheet, and unordered resonance Raman spectra from the amide resonance Raman spectra of 13 proteins with well-known X-ray crystal structures. We demonstrate that we can simultaneously utilize the amide I, II, and III bands and the Calpha-H amide bending vibrations of these average secondary structure spectra to directly determine protein secondary structure. The UV Raman method appears to be complementary, and in some cases superior, to the existing methods, such as CD, VCD, and absorption spectroscopy. In addition, the spectra are immune to the light-scattering artifacts that plague CD, VCD, and IR absorption measurements. Thus, it will be possible to examine proteins in micelles and other scattering media.

Amides↗
PubMed1998

UV resonance Raman determination of protein acid denaturation: selective unfolding of helical segments of horse myoglobin.

We have used UV resonance Raman spectroscopy to study the acid denaturation of horse heart aquometmyoglobin (Mb) between pH 7.5 and 1.5. Raman spectra excited at 206.5 nm are dominated by amide vibrations, which are analyzed by using a new methodology to quantitatively determine the Mb secondary structure. In contrast, the 229-nm Raman spectra are dominated by the Tyr and Trp Raman bands, which are analyzed to examine changes in Tyr and Trp environments, such as exposure to water, hydrogen bonding, and, for Trp, any alterations of the dihedral angle between the Trp ring and its linkage to the protein backbone. We uniquely determined which Mb alpha-helices melt by combining the amide, Tyr, and Trp Raman spectral information with heme absorption spectral information. We calculate that the Mb alpha-helical composition decreases from approximately 80% at neutral pH to approximately 19% below pH 3.5. The Trp Raman cross sections dramatically decrease at low pH to values which indicate that they are fully exposed to water; this result indicates that the A helix melts. The Tyr Raman bands are pH independent, which indicates that the G and H helices around the Tyr residues do not melt. The dramatic heme absorption acid denaturation changes indicate major alterations of the heme pocket and changes in heme binding. These results indicate that the A, B, C, D, E, and F helices melt in a concerted fashion, while the antiparallel G and H helices only partially melt.

Animals↗
PubMed1997

Polymerized colloidal crystal hydrogel films as intelligent chemical sensing materials.

Chemical sensors respond to the presence of a specific analyte in a variety of ways. One of the most convenient is a change in optical properties, and in particular a visually perceptible colour change. Here we report the preparation of a material that changes colour in response to a chemical signal by means of a change in diffraction (rather than absorption) properties. Our material is a crystalline colloidal array of polymer spheres (roughly 100 nm diameter) polymerized within a hydrogel that swells and shrinks reversibly in the presence of certain analytes (here metal ions and glucose). The crystalline colloidal array diffracts light at (visible) wavelengths determined by the lattice spacing, which gives rise to an intense colour. The hydrogel contains either a molecular-recognition group that binds the analyte selectively (crown ethers for metal ions), or a molecular-recognition agent that reacts with the analyte selectively. These recognition events cause the gel to swell owing to an increased osmotic pressure, which increases the mean separation between the colloidal spheres and so shifts the Bragg peak of the diffracted light to longer wavelengths. We anticipate that this strategy can be used to prepare 'intelligent' materials responsive to a wide range of analytes, including viruses.

Barium↗
PubMed1994

UV resonance Raman and excited-state relaxation rate studies of hemoglobin.

We have measured the UV resonance Raman (UVRR) spectra of human methemoglobin fluoride (metHbF) and examined the Raman saturation behavior of the metHbF trytophyl (Trp) and tyrosyl (Tyr) residues. Our high-quality UVRR spectra devoid of Raman saturation with 229- and 238.3-nm CW laser excitation allow us to determine small changes in Trp and Tyr residue Raman band frequencies and intensities caused by the hemoglobin R-T quaternary structural change induced by the allosteric effector inositol hexaphosphate. At 238.3-nm excitation, we observe a ca. 15 and 8% intensity increase for the Trp and Tyr bands, respectively, upon the R-T transition. In contrast, a small intensity decrease is observed with 225-nm excitation. These intensity alterations result from Trp and Tyr absorption and Raman excitation profile red-shifts which correlate with a strong 231.5-nm R-T absorption spectral change. These absorption and Raman excitation profile red-shifts and our model compound absorption studies together suggest a T-state increase in the hydrogen bond donation of the Trp-beta(2)37 and Tyr-alpha(1)42 residues at the alpha 1 beta 2 subunit interface. The Tyr-alpha 42 residue appears to be a hydrogen bond donor, rather than an acceptor. We determined the electronic excited-state relaxation rates of the Trp and Tyr residues in hemoglobin by using Raman saturation spectroscopy with 225-nm pulsed laser excitation. The observed average excited-state relaxation rate of the Trp residues is ca. 1/120 ps and is independent of the quaternary structure. This rate is slower that that observed for Trp residues of horse myoglobin. The average excited-state relaxation rate of the Tyr residues is ca. 1/60 ps for both the R and T quaternary forms. These are the first Tyr relaxation rates measured for any heme protein.

Amino Acid Sequence↗
PubMed1994

Vibrational circular dichroism measurements of ligand vibrations in haem and non-haem metalloenzymes.

We have measured the vibrational circular dichroism (VCD) spectra of the stretching vibrations of azide and cyanide ligated to the Fe3+ atoms of haemoglobin (Hb) and myoglobin (Mb). The antisymmetric azide-stretch of the low-spin haems have an anomalously large g-value of ca. -1 x 10(-3). In contrast, CN- has a g-value of ca. +2.4 x 10(-3). We also show, for the first time, that a significant VCD occurs for the azide ligand antisymmetric stretches of non-haem proteins; we measure a g-value of ca. -1 x 10(-4) for azide bound to haemerythrin. We have examined the mechanism of the VCD phenomenon by: (1) reconstituting Mb with haems substituted such that they insert differently in the haem pocket; (2) replacing the Fe3+ with Mn3+; (3) examining proteins where replacements occur for E-7 His and E-11 Val distal amino acids close to the haem and (4) examining an Mb mutant where the proximal F-8 His is replaced by Gly, and where an imidazole ligand inserts into the resulting crevice and binds to the haem in a way similar to that of the proximal histidine in the native protein. The VCD anisotropy appears insensitive to the haem substituent replacements used in this study. Exchange of the E-7 distal His or the E-11 Val has a dramatic effect on the g-value. Exchange of the F-8 proximal His reverses the sign of the g-value for the azide complex, but not for the cyanide complex. The work to date indicates that VCD has the potential to become a sensitive technique for examining the structure of metalloenzymes. Work is needed to determine the mechanism giving rise to the large g-values and to correlate the VCD spectrum with the metalloenzyme structure at the active site.

Azides↗
PubMed1991

Ultraviolet resonance Raman and absorption difference spectroscopy of myoglobins: titration behavior of individual tyrosine residues.

The UV resonance Raman spectra of horse and sperm whale myoglobin excited at 240 nm show bands between 600 and 1700 cm-1 which derive from tyrosyl and tryptophyl residues. No significant contribution from phenylalanine and peptide backbone vibrations occurs at this excitation wavelength. We examine the pH dependence of the UV resonance Raman and UV absorption difference spectra of these myoglobins to correlate the local protein environment of the tyrosyl residues as given by the protein crystal structure to their pKa values, molar absorptivities, and Raman cross sections. Some of our pKa values for the tyrosinate residues of horse Mb differ from those of previous studies. We show that the lambda max values, the molar absorptivities, and the Raman cross sections are sensitive to the local environment of the tyrosinate residues in the protein. We relate differences in the tyrosyl absorption spectra to differences in Raman cross sections. In addition, we discuss the importance to the Raman cross sections of the local electromagnetic field enhancement due to the dielectric environment of the tyrosinate residues in the protein. This local field should scale the Raman cross sections in a way useful as a probe of the average aromatic amino acid residue environment.

Animals↗
PubMed1991

Internal intensity standards for heme protein UV resonance Raman studies: excitation profiles of cacodylic acid and sodium selenate.

We examine the utility of SO4(2-), ClO4-, cacodylic acid, and SeO4(2-) as internal intensity standards for Raman spectral measurements of protein structure. We find that 0.1 M SO4(2-) and ClO4- perturb the protein tertiary structure of aquomethemoglobin (met-Hb) and its fluoride (met-HbF) and azide (met-HbN3) complexes. Changes occur for the tryptophan near-UV absorption bands, the iron spin state is altered, and the fluoride ligand affinity decreases. Concentrations of ClO4- and SO4(2-) as low as 0.1 M suppress the met-HbF quaternary R----T transition induced by the allosteric effector inositol hexaphosphate (IHP). In contrast, similar concentrations of cacodylic acid and SeO4(2-) show little effect on the hemoglobin tertiary or quaternary protein structures or upon the R----T transition induced by IHP. We measure the Raman cross sections of cacodylic acid and SeO4(2-) between 218 and 514.5 nm and find that for UV excitation they are ca. 5-fold larger than ClO4- or SO4(2-). Thus, cacodylic acid and selenate can be used at lower concentrations. Cacodylic acid and SeO4(2-) are superior Raman internal intensity standards for protein structural studies.

Cacodylic Acid↗
PubMed1989

Resonance Raman evidence for tyrosine involvement in the radical site of galactose oxidase.

Resonance Raman data are reported for the redox-activated form of galactose oxidase from Dactylium dendroides. Excitation within the red (659 nm) and blue (457.9 nm) absorption bands leads to strong resonance enhancement of ligated tyrosine vibrational modes at 550, 1170, 1247, 1484, and 1595 cm-1. The ring mode frequencies are unusually low, indicating a decreased bond order in the ring. The spectra clearly differ in both frequencies and relative intensities from those characteristic of known aromatic pi-radicals. Enhancement of tyrosine ring modes on excitation within absorption bands previously associated with the presence of the radical in the active site suggests that the ligated tyrosine residue is present in the radical site and may stabilize this radical species through formation of a charge transfer complex. A dramatically different Raman spectrum is observed for the N3- adduct of galactose oxidase, exhibiting a single strong 1483 cm-1 feature. The intense visible-near IR absorption bands for galactose oxidase may derive from transitions within a charge transfer complex between an aromatic free radical and a tyrosine-copper complex.

Azides↗
PubMed1984

Raman spectroscopy of a coal liquid shows that fluorescence interference is minimized with ultraviolet excitation.

The first ultraviolet resonance Raman measurements of a coal liquid are reported. The spectra detail the presence of numerous polycyclic aromatic hydrocarbons with ring systems similar to those of naphthalene, fluorene, phenanthrene, pyrene, and triphenylene . The ultraviolet resonance Raman measurements of this highly complex sample show no significant interference from fluorescence. The lack of fluorescence interference and the high selectivity indicate that ultraviolet resonance Raman spectroscopy is a powerful new technique for characterizing highly complex samples and mixtures.

Coal↗
PubMed1981

Resonance Raman and absorption spectroscopic detection of distal histidine--fluoride interactions in human methemoglobin fluoride and sperm whale metmyoglobin fluoride: measurements of distal histidine ionization constants.

The pH dependence of the resonance Raman and absorption spectra of human methemoglobin fluoride (HbIIIF) and sperm whale metmyoglobin fluoride (MbIIIF) has been examined. Both the Raman and absorption spectra of HbIIIF and MbIIIF indicate the existence at alkaline pH of an equilibrium between the hydroxide and fluoride complexes. The absorption maxima of HbIIIF and MbIIIF solutions shift to longer wavelengths as the pH is decreased from neutrality. The Raman data show a corresponding shift of the 461- and 468-cm-1 Fe-F vibrational stretching peaks at pH 7.0 [Asher, S. A., & Schuster, T. M. (1979) Biochemistry 18, 5377] to 399 and 407 cm-1 at acid pH in MbIIIF and HbIIIF, respectively. These shifts are interpreted to result from protonation of the distal histidine and the formation of a hydrogen bond to the fluoride ligand. Measurements of the pH dependence of the absorption and resonance Raman spectra give distal histidine ionization constants (apparent) corresponding to pK = 5.1 (+/- 0.1) for HbIIIF and pK = 5.5 (+/- 0.1) for MbIIIF. An examination of the distal histidine pK values and the frequency of the hydrogen-bonded Fe--F stretching vibration at pH 5.0 of HbIIIF with and without inositol hexaphosphate indicates little difference in the distal histidine--heme distance between the so-called R and T quaternary forms of HbIIIF. These results indicate that the changes in the electronic spectrum of HbIIIF that occur upon switching from the R to the T form do not result from alterations in (1) the iron--fluoride bond distance, (2) the iron out-of-heme plane distance, or (3) the distal histidine--fluoride distance.

Animals↗
PubMed1981

Differences in iron-fluoride bonding between the isolated subunits of human methemoglobin fluoride and sperm whale metmyoglobin fluoride as measured by resonance Raman spectroscopy.

The heme geometries of the isolated alpha and beta subunits of human methemoglobin fluoride (HbIIIF) and sperm whale metmyoglobin fluoride (MbIIIF) have been examined by exciting their Raman spectra within their ca. 6000-A charge-transfer absorption bands. The Fe-F stretching vibration at 471 cm-1 in the beta subunits shifts to 466 cm-1 in the alpha subunits and to 461 cm-1 in MbIIIF. The Fe-F bond is estimated to elongate by 0.02 A in the alpha subunits and 0.03 AZ in MbIIIF compared with that in the beta subunits. This bond elongation is interpreted to result from an increased iron displacement toward the proximal histidine side of the heme in the series MbIIIF greater than alpha greater than beta. A comparison of the isolated subunit spectra with that of tetrameric HbIIIF indicates little change occurs in isolated subunit heme geometry upon association into tetrameric HbIIIF. A correlation is found between the gamma max of the 600-A charge-transfer absorption band and the Fe-F bond length. Elongation of the Fe-F bond is associated with a shift of the absorption spectral maximum to a longer wavelength. However, the absorption spectral shift induced by the inositsol hexaphosphate induced R leads to T conversion does not result from a change in the Fe-F stretching frequency (+/- 0.5 cm-1). In contrast, frequency shifts are observed for heme macrocyclic vibrational modes. The data are interpreted to indicate that the effect of the R leads to T conversion in HbIIIF is to perturb heme macrocycle conformation without altering the heme out-of-plane iron distance or the Fe-F bond length.

Animals↗