muramidase and trimethyloxamine

Using a combination of molecular dynamics simulation, dialysis experiments, and electronic circular dichroism measurements, we studied the solvation thermodynamics of proteins in two osmolyte solutions, trimethylamine

Topics: Betaine; Methylamines; Muramidase; Protein Stability; Ribonuclease T1; Solutions; Thermodynamics; Water

The influence of natural cosolvent mixtures on the pressure-dependent structure and protein-protein interaction potential of dense protein solutions is studied and analyzed using small-angle X-ray scattering in combination with a liquid-state theoretical approach. The deep-sea osmolyte trimethylamine-N-oxide is shown to play a crucial and singular role in its ability to not only guarantee sustainability of the native protein's folded state under harsh environmental conditions, but it also controls water-mediated intermolecular interactions at high pressure, thereby preventing contact formation and hence aggregation of proteins.

Topics: Hydrostatic Pressure; Methylamines; Models, Chemical; Muramidase; Osmolar Concentration; Scattering, Small Angle; Solutions; Water; X-Ray Diffraction

We studied the effects of temperature and hydrostatic pressure on the dynamical properties and folding stability of highly concentrated lysozyme solutions in the absence and presence of the osmolytes trimethylamine-N-oxide (TMAO) and urea. Elastic incoherent neutron scattering (EINS) was applied to determine the mean-squared displacement (MSD) of the protein's hydrogen atoms to yield insights into the effects of these cosolvents on the averaged sub-nanosecond dynamics in the pressure range from ambient up to 4000 bar. To evaluate the additional effect of self-crowding, two protein concentrations (80 and 160 mg mL

Topics: Hydrogen; Methylamines; Muramidase; Neutron Diffraction; Protein Folding; Temperature; Urea; Water

The effects of small (∼10

Topics: Cytosol; Escherichia coli; Ficoll; Fluorine; Methylamines; Models, Molecular; Muramidase; Nuclear Magnetic Resonance, Biomolecular; Protein Multimerization; Protein Stability; Receptors, GABA-B; Serum Albumin, Bovine; Urea

Interactions between osmolytes and hen egg white lysozyme in aqueous solutions were studied by means of FTIR spectroscopy and molecular dynamics. A combination of difference spectra method and chemometric analysis of spectroscopic data was used to determine the number of osmolyte molecules interacting with the protein, and the preferential interaction coefficient in presented systems. Both osmolytes -l-proline and trimethylamine-N-oxide (TMAO) - belong to a group of stabilizing osmolytes, and according to the preferential exclusion/hydration hypothesis, both should be excluded from the vicinity of the protein backbone and surface. We provide experimental and computational evidence that although TMAO behaves according to the hypothesis, proline does not. Our results suggest that preferential exclusion is not a universal property of stabilizing osmolytes.

Topics: Animals; Chickens; Methylamines; Molecular Dynamics Simulation; Muramidase; Osmotic Pressure; Proline; Spectroscopy, Fourier Transform Infrared; Surface Properties

In vitro inhibition of the formation of fibrous aggregates of proteins (amyloids) has gained increasing attention due to the number of diseases associated with protein misfolding and fibrillation. An interesting group of compounds for which pronounced activity against this phenomenon can be expected consists of low molecular weight substances (osmolytes) which have the ability to change protein stability. Here we investigate the influence of trimethylamine N-oxide (TMAO) in acidic solution (pH=2) on the fibrillation of hen egg white lysozyme (HEWL). The process was monitored by five techniques: circular dichroism in the UV region, atomic force microscopy, dynamic light scattering, densimetry and gel electrophoresis. The obtained results show that protonated TMAO in a concentration of 400 mM inhibits amyloidogenesis. In the conditions of the experiment the HEWL molecules form clusters about 30 nm in diameter containing a relatively high fraction of covalent-bonded dimers.

Topics: Amyloid; Animals; Egg White; Female; Hydrogen-Ion Concentration; Methylamines; Muramidase

Results concerning the thermostability of hen egg white lysozyme in aqueous solutions with stabilizing osmolytes, trimethylamine-N-oxide (TMAO), glycine (Gly), and its N-methyl derivatives, N-methylglycine (NMG), N,N-dimethylglycine (DMG), and N,N,N-trimethylglycine (betaine, TMG), have been presented. The combination of spectroscopic (IR) and calorimetric (DSC) data allowed us to establish a link between osmolytes' influence on water structure and their ability to thermally stabilize protein molecule. Structural and energetic characteristics of stabilizing osmolytes' and lysozyme's hydration water appear to be very similar. The osmolytes increase lysozyme stabilization in the order bulk water < TMAO < TMG < Gly < DMG < NMG, which is consistent with the order corresponding to the value of the most probable oxygen-oxygen distance of water molecules affected by osmolytes in their surrounding. Obtained results verified the hypothesis concerning the role of water molecules in protein stabilization, explained the osmophobic effect, and finally helped to bring us nearer to the exact mechanism of protein stabilization by osmolytes.

Topics: Amines; Amino Acids; Animals; Betaine; Calorimetry; Chickens; Egg Proteins; Female; Glycine; Methylamines; Muramidase; Oxygen; Protein Denaturation; Protein Stability; Protein Structure, Secondary; Sarcosine; Solutions; Spectroscopy, Fourier Transform Infrared; Transition Temperature; Water

In this paper we present a chemometric method of analysis leading to isolation of Fourier transform infrared (FT-IR) spectra of biomacromolecules (HEW lysozyme, ctDNA) affected by osmolytes (trimethylamine-N-oxide and N,N,N-trimethylglycine, respectively) in aqueous solutions. The method is based on the difference spectra method primarily used to characterize the structure of solvent affected by solute. The cyclical usage of factor analysis allows precise information to be obtained on the shape of "affected spectra" of analyzed biomacromolecules. "Affected spectra" of selected biomacromolecules give valuable information on their structure in the presence of the osmolytes in solution, as well as on the level of perturbation in dependence of osmolyte concentration. The method also gives a possibility of insight into the mechanism of interaction in presented types of systems. It can be easily adapted to various chemical and biochemical problems where vibrational or ultraviolet-visible (UV-Vis) spectroscopy is used.

Topics: Animals; Cattle; Chickens; DNA; Glycine; Methylamines; Muramidase; Spectroscopy, Fourier Transform Infrared

We offer a novel process to render hydrophobic surfaces resistant to relatively small proteins during adsorption. This was accomplished by self-assembly of a well-known natural osmolyte, trimethylamine oxide (TMAO), a small amphiphilic molecule, on a hydrophobic alkanethiol surface. Measurements of lysozyme (LYS) adsorption on several homogeneous substrates formed from functionalized alkanethiol self-assembled monolayers (SAMs) in the presence and absence of TMAO, and direct interaction energy between the protein and functionalized surfaces, demonstrate the protein-resistant properties of a noncovalently adsorbed self-assembled TMAO layer. Molecular dynamics simulations clearly show that TMAO molecules concentrate near the CH(3)-SAM surface and are preferentially excluded from LYS. Interestingly, TMAO molecules adsorb strongly on a hydrophobic CH(3)-SAM surface, but a trade-off between hydrogen bonding with water, and hydrophobic interactions with the underlying substrate results in a nonintuitive orientation of TMAO molecules at the interface. Additionally, hydrophobic interactions, usually responsible for nonspecific adsorption of proteins, are weakly affected by TMAO. In addition to TMAO, other osmolytes (sucrose, taurine, and betaine) and a larger homologue of TMAO (N,N-dimethylheptylamine-N-oxide) were tested for protein resistance and only N,N-dimethylheptylamine-N-oxide exhibited resistance similar to TMAO. The principle of osmolyte exclusion from the protein backbone is responsible for the protein-resistant property of the surface. We speculate that this novel process of surface modification may have wide applications due to its simplicity, low cost, regenerability, and flexibility.

Topics: Adsorption; Hydrophobic and Hydrophilic Interactions; Methylamines; Molecular Dynamics Simulation; Muramidase; Proteins; Surface Properties

The influence of urea and trimethylamine-N-oxide (TMAO) on the structure of water and secondary structure of hen egg white lysozyme (HEWL) has been investigated. The hydration of these osmolytes was studied in aqueous solutions by means of FTIR spectra of HDO isotopically diluted in H(2)O. The difference spectra procedure was applied to remove the contribution of bulk water and thus to separate the spectra of solute-affected HDO. The structural-energetic characteristic of these solute-affected water molecules shows that, on average, water affected by TMAO forms stronger H-bonds and is more ordered than pure water. In the case of urea, the H-bonds are very similar to those in pure water. To facilitate the interpretation of the obtained spectral results, calorimetric measurements, DFT calculations, and molecular dynamics (MD) simulations of aqueous osmolyte clusters were performed. All of these results confirmed that the interactions of TMAO with water molecules are much stronger than those of urea with water. Additional ATR FTIR measurements were performed to characterize the influence of the examined osmolytes on the secondary structure of HEW lysozyme. The type of interactions (direct or indirect) was determined, based on the second derivatives of ATR protein spectra record during an increase in the osmolyte concentration. The changes in the amide I band shape caused by urea or TMAO were found to correlate quite well with changes in the water structure around these osmolytes.

Topics: Animals; Calorimetry; Chickens; Hydrogen Bonding; Methylamines; Molecular Dynamics Simulation; Muramidase; Protein Structure, Secondary; Spectroscopy, Fourier Transform Infrared; Urea; Water

The thermal unfolding of full-length human recombinant alpha-helical prion protein (alpha-PrP) in neutral pH is reversible, whereas, in the presence of the osmolyte N-trimethylamine oxide (TMAO), the protein acquires a beta-sheet structure at higher temperatures and the thermal unfolding of the protein is irreversible. Lysozyme, an amyloidogenic protein similar to prion protein, regains alpha-helical structure on cooling from its thermally unfolded form in buffer and in TMAO solutions. The thermal stability of alpha-PrP decreases, whereas that of lysozyme increases in TMAO solution. Light-scattering and turbidity values indicate that beta-sheet prion protein exists as soluble oligomers that increase thioflavin T fluorescence and bind to 1-anilino 8-naphthalene sulfonic acid (ANS). The oligomers are resistant to proteinase K digestion and during incubation for long periods they form linear amyloids>5 microm long. The comparable fluorescence polarization of the tryptophan groups and their accessibility to acrylamide in alpha-PrP and oligomers indicate that the unstructured N-terminal segments of the protein, which contain the tryptophan groups, do not associate among themselves during oligomerization. Partial unfolding of alpha-helical prion protein in TMAO solution leads to its structural conversion to misfolded beta-sheet form. The formation of the misfolded prion protein oligomers and their polymerization to amyloids in TMAO are unusual, since the osmolyte generally induces denatured protein to fold to a native-like state and protects proteins from thermal denaturation and aggregation.

Topics: Anilino Naphthalenesulfonates; Animals; Benzothiazoles; Circular Dichroism; Electrophoresis, Polyacrylamide Gel; Endopeptidase K; Fluorescence; Hot Temperature; Humans; Hydrogen-Ion Concentration; Methylamines; Mice; Muramidase; Peptide Fragments; Prions; Protein Binding; Protein Structure, Secondary; Recombinant Proteins; Scattering, Radiation; Solubility; Thiazoles; Tryptophan

The effect of two physiological cosolutes (urea and trimethylamine-N-oxide) and of KCl on the intermolecular interactions in concentrated lysozyme solutions were studied by synchrotron radiation small angle x-ray scattering. The evolution of the structure factors as a function of cosolute and/or salt concentration was modeled using pair potentials following an approach recently described in the literature. It was found that the structure factors for salt and/or cosolute concentration series at a fixed protein concentration can best be described using a variable depth attractive potential and a constant effective charge rather than a constant attractive potential and a variable effective charge as done in previous work.

Topics: Animals; Biophysics; Dose-Response Relationship, Drug; Hydrogen-Ion Concentration; Methylamines; Models, Statistical; Multiprotein Complexes; Muramidase; Potassium Chloride; Protein Denaturation; Scattering, Radiation; Solutions; Synchrotrons; Temperature; Thermodynamics; Time Factors; Urea; Water; X-Rays