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1.
Photochem Photobiol ; 100(4): 969-979, 2024.
Article in English | MEDLINE | ID: mdl-38961565

ABSTRACT

Here, we report a novel kind of protein nanoparticles of 11 nm in size, which have a central protein core surrounded by two layers of lipid. One layer of the lipid was covalently attached to the protein, while the other layer has been physically assembled around the protein core. Particle synthesis is highly modular, while both the size and charge of the protein nanoparticles are controlled in a predictable manner. Circular dichroism studies of the conjugate showed that the protein secondary structure is retained, while biophysical characterizations indicated the particle purity, size, and charge. The conjugate had a high thermal stability to steam sterilization conditions at 121°C (17 psi). After labeling the protein core with few different fluorescent dyes, they were strongly fluorescent with the corresponding colors independent of their size, unlike quantum dots. They are readily digested by proteases, and these water-soluble, non-toxic, highly stable, biocompatible, and biodegradable conjugates are suitable for cell imaging and drug delivery applications.


Subject(s)
Fluorescent Dyes , Lipoproteins , Nanoparticles , Nanoparticles/chemistry , Fluorescent Dyes/chemistry , Lipoproteins/chemistry , Circular Dichroism , Particle Size
2.
Polymers (Basel) ; 16(13)2024 Jul 05.
Article in English | MEDLINE | ID: mdl-39000772

ABSTRACT

Six derivatives of poly-N-vinylcaprolactam (PNVCL) P1-P6 were synthesized via surfactant-free precipitation polymerization (SFPP) at 70 °C, with potassium persulfate (KPS) as the initiator. P5 and P6 were synthesized using the cross-linker N,N'-Methylenebisacrylamide (MBA). The conductivity was measured to monitor the polymerization process. The hydrodynamic diameters (HDs) and polydispersity indexes (PDIs) of aqueous dispersions of P1-P6 were determined using dynamic light scattering (DLS) and zeta potential (ZP) using electrophoretic mobilities. At 18 °C for P1-P6, the HDs (nm) were 428.32 ± 81.30 and PDI 0.31 ± 0.19, 528.60 ± 84.70 (PDI 0.42 ± 0,04), 425.96 ± 115.42 (PDI 0.56 ± 0.08), 440.34 ± 106.40 (PDI 0.52 ± 0.09), 198.39 ± 225.35 (PDI 0.40 ± 0.19), and 1201.52 ± 1318.05 (PDI 0.71 ± 0.30), the and ZPs were (mV) 0.90 ± 3.23, -4.46 ± 1.22, -6.44 ± 1.82, 0.22 ± 0.48, 0.18 ± 0.79, and -0.02 ± 0.39 for P1-P6, respectively. The lower critical solution temperature ranged from 27 to 29 °C. The polymers were characterized using the ATR-FTIR method. The study concluded that the physicochemical properties of the product were significantly affected by the initial reaction parameters. Polymers P1-P4 and P6 have potential for use as drug carriers for skin applications.

3.
ACS Biomater Sci Eng ; 2024 Jul 27.
Article in English | MEDLINE | ID: mdl-39066733

ABSTRACT

We introduce aqueous ionic liquid (IL) mixtures, specifically mixtures of 1-butyl-3-imidazoliumtetrafluoroborate (BMImBF4), with water as a minimal model of lipid bilayer membranes. Imidazolium-based ILs are known to form clustered nanoscale structures in which local inhomogeneities, micellar or lamellar structures, are formed to shield hydrophobic parts of the cation from the polar cosolvent (water). To investigate these nanostructures, dynamic light scattering (DLS) on samples with different mixing ratios of water and BMImBF4 was performed. At mixing ratios of 50% and 45% (v/v), small and homogeneous nanostructures can indeed be detected. To test whether, in particular, these stable nanostructures in aqueous mixtures may mimic the effects of phospholipid bilayer membranes, we further investigated their interaction with myelin basic protein (MBP), a peripheral, intrinsically disordered membrane protein of the myelin sheath. Using dynamic light scattering (DLS), continuous wave (CW) and pulse electron paramagnetic resonance (EPR), and small-angle X-ray scattering (SAXS) on recombinantly produced, "healthy" charge variants rmC1WT and double cysteine variant C1S17CH85C, we find that the size and the shape of the determined nanostructures in an optimum mixture offer model membranes in which the protein exhibits native behavior. SAXS measurements illuminate the size and shape of the nanostructures and indicate IL-rich "beads" clipped together by functional MBP, one of the in vivo roles of the protein in the myelin sheath. All the gathered data combined indicate that the 50% and 45% aqueous IL mixtures can be described as offering minimal models of a lipid mono- or bilayer that allow native processing and potential study of at least peripheral membrane proteins like MBP.

4.
Anal Chim Acta ; 1318: 342933, 2024 Aug 22.
Article in English | MEDLINE | ID: mdl-39067936

ABSTRACT

BACKGROUND: The aggregation of isotropic particles through interparticle reactions poses a challenge in control due to the ability of all surfaces to bind to each other, rendering the quantitative detection of such interparticle reactions based on particle size difficult. Here, we proposed a novel detection scheme for DNA utilizing an assembly of Janus particles (JPs) employing dynamic light scattering (DLS). DNA molecules are tethered on one hemisphere of the JP, while the other hemisphere retains its hydrophobic properties. RESULTS: Aggregation of JPs was induced by the sandwich hybridization of target DNA between them. The assembly of JPs was effectively monitored by the changes in hydrodynamic diameter detected by DLS, revealing that aggregation peaks at 2-3 particles and further reaction was hindered due to the inability of one hemisphere of the JP to interact with another JP. The target DNA demonstrated detectability at concentrations as low as several tens of pM to several nM using a digital sensing method. The two types of target DNA, such as simple (14 base pairs) and HIV-2 specific sequences (20 base pairs) were detectable at nM and pM levels, respectively. Moreover, we substantiated the robustness of our detection scheme through stoichiometric calculations based on an equilibrium model. The present detection mechanism was well explained based on the binding affinity of DNA hybridization. SIGNIFICANCE: This detection method harnesses the anisotropic nature of JPs and represents the first detection approach based on aggregation. By altering the modification molecules on JPs to match target molecules, such as proteins and organic compounds, a wide range of versatile molecules can be detected using this scheme with high sensitivity. This underscores the broad applicability of the present method.


Subject(s)
DNA , Dynamic Light Scattering , DNA/chemistry , Particle Size , Nucleic Acid Hybridization , Biosensing Techniques/methods
5.
Adv Colloid Interface Sci ; 331: 103242, 2024 Sep.
Article in English | MEDLINE | ID: mdl-38964196

ABSTRACT

Proteins in ionic liquids (ILs) and deep eutectic solvents (DESs) have gained significant attention due to their potential applications in various fields, including biocatalysis, bioseparation, biomolecular delivery, and structural biology. Scattering approaches including dynamic light scattering (DLS) and small-angle X-ray and neutron scattering (SAXS and SANS) have been used to understand the solution behavior of proteins at the nanoscale and microscale. This review provides a thorough exploration of the application of these scattering techniques to elucidate protein properties in ILs and DESs. Specifically, the review begins with the theoretical foundations of the relevant scattering approaches and describes the essential solvent properties of ILs and DESs linked to scattering such as refractive index, scattering length density, ion-pairs, liquid nanostructure, solvent aggregation, and specific ion effects. Next, a detailed introduction is provided on protein properties such as type, concentration, size, flexibility and structure as observed through scattering methodologies. This is followed by a review of the literature on the use of scattering for proteins in ILs and DESs. It is highlighted that enhanced data analysis and modeling tools are necessary for assessing protein flexibility and structure, and for understanding protein hydration, aggregation and specific ion effects. It is also noted that complementary approaches are recommended for comprehensively understanding the behavior of proteins in solution due to the complex interplay of factors, including ion-binding, dynamic hydration, intermolecular interactions, and specific ion effects. Finally, the challenges and potential research directions for this field are proposed, including experimental design, data analysis approaches, and supporting methods to obtain fundamental understandings of complex protein behavior and protein systems in solution. We envisage that this review will support further studies of protein interface science, and in particular studies on solvent and ion effects on proteins.


Subject(s)
Ionic Liquids , Proteins , Scattering, Small Angle , Ionic Liquids/chemistry , Proteins/chemistry , Deep Eutectic Solvents/chemistry , Solutions , Neutron Diffraction , X-Ray Diffraction , Dynamic Light Scattering , Solvents/chemistry
6.
Methods Mol Biol ; 2819: 341-356, 2024.
Article in English | MEDLINE | ID: mdl-39028514

ABSTRACT

Dynamic light scattering (DLS) enables the characterization of sizes and electrokinetic properties of colloids, polymers, and macromolecules. DNA is a charged semiflexible polyelectrolyte that is condensed or compacted by counterions, proteins, and other condensing agents in processes such as chromosome compaction and gene therapeutic applications. DNA condensation is closely related to charge screening since packaging requires effective neutralization of its surface negative charges. In this chapter, we describe in detail the protocol for DLS DNA-ligand complexes. As an example, we describe data for the condensation of DNA by chitosan and the measurement of size, zeta potential, and electrophoretic mobility of the DNA-ligand complex by DLS.


Subject(s)
DNA , Dynamic Light Scattering , DNA/chemistry , Ligands , Chitosan/chemistry
7.
Protein Sci ; 33(8): e5120, 2024 Aug.
Article in English | MEDLINE | ID: mdl-39022918

ABSTRACT

Deamidation frequently is invoked as an important driver of crystallin aggregation and cataract formation. Here, we characterized the structural and biophysical consequences of cumulative Asn to Asp changes in γD-crystallin. Using NMR spectroscopy, we demonstrate that N- or C-terminal domain-confined or fully Asn to Asp changed γD-crystallin exhibits essentially the same 1H-15N HSQC spectrum as the wild-type protein, implying that the overall structure is retained. Only a very small thermodynamic destabilization for the overall Asn to Asp γD-crystallin variants was noted by chaotropic unfolding, and assessment of the colloidal stability, by measuring diffusion interaction parameters, yielded no substantive differences in association propensities. Furthermore, using molecular dynamics simulations, no significant changes in dynamics for proteins with Asn to Asp or iso-Asp changes were detected. Our combined results demonstrate that substitution of all Asn by Asp residues, reflecting an extreme case of deamidation, did not affect the structure and biophysical properties of γD-crystallin. This suggests that these changes alone cannot be the major determinant in driving cataract formation.


Subject(s)
Asparagine , Aspartic Acid , Molecular Dynamics Simulation , Protein Stability , gamma-Crystallins , gamma-Crystallins/chemistry , gamma-Crystallins/metabolism , gamma-Crystallins/genetics , Asparagine/chemistry , Asparagine/metabolism , Aspartic Acid/chemistry , Aspartic Acid/metabolism , Humans , Nuclear Magnetic Resonance, Biomolecular , Thermodynamics , Cataract/metabolism , Cataract/genetics , Amino Acid Substitution
8.
Anal Sci ; 2024 Jun 24.
Article in English | MEDLINE | ID: mdl-38910155

ABSTRACT

Porous hybrid microparticles are characterized by their densities and porosities. Consequently, the evaluation for density and porosity of porous hybrid microparticles in liquids is crucial for predicting the transport of particles in the atmosphere, human body, and industrial processes. However, direct measurement of the density and porosity of porous hybrid microparticles in liquids remains a challenge. In this study, we investigated the centrifugal sedimentation of polystyrene-silica hybrid microparticles with and without gas-containing closed pores. A centrifugal liquid sedimentation-dynamic light scattering combined analytical method was employed to determine the apparent densities of hybrid microparticles with and without gas-containing closed pores. The porosity of the hybrid microparticles with gas-containing closed pores was elucidated based on the inner buoyancy, which is a centrifugal force generated by the presence of low-density gas inside numerous closed pores. Further, the inner gas buoyancy was analyzed to estimate the particle porosity in liquids. The results obtained in this study confirmed the feasibility of utilizing the proposed method to determine the apparent density and porosity of porous hybrid microparticles in liquids.

9.
Int J Pharm ; 660: 124321, 2024 Jul 20.
Article in English | MEDLINE | ID: mdl-38857661

ABSTRACT

Aggregation of monoclonal antibodies (mAbs) is the driving force for their undesirable immunogenic effects. There are multiple factors responsible for aggregation in therapeutic proteins. One significant cause is the process-related shear and interfacial stress generated due to impellers and stirrers. This investigation focuses on understanding the possible aggregation arising upon stirring mAb formulations using stirrers made of different materials. We used quantitative laser diffraction (qLD) to monitor and quantify the stirring induced formation of submicron and subvisible aggregates in the size range from 100 nm to 10 µm. We analysed various aspects of aggregate generation, such as onset of aggregation, particle size distribution, and concentration of aggregates generated using stirrers of different materials. We observed that mixing with stainless steel stirrers resulted in a quicker onset of aggregation and led to significantly higher concentrations of aggregates. Analysis of the stirred samples using dynamic light scattering (DLS) and background imaging technique (BMI) were conducted to complement the qLD analysis. All the three techniques resulted in a similar trend, showing presence of larger and higher quantities of aggregates in steel stirred samples, as compared to those stirred using PEEK and glass. Additionally, we performed SEC-HPLC to quantify the soluble fraction of monomer and recorded that the least amount was present in the steel stirred samples. This work highlights the need for optimizing the materials used for fabricating the stirrers/impellers.


Subject(s)
Antibodies, Monoclonal , Dynamic Light Scattering , Lasers , Particle Size , Protein Aggregates , Stainless Steel , Antibodies, Monoclonal/chemistry , Dynamic Light Scattering/methods , Stainless Steel/chemistry , Polyethylene Glycols/chemistry , Glass/chemistry , Drug Compounding/methods
10.
Mikrochim Acta ; 191(7): 387, 2024 06 13.
Article in English | MEDLINE | ID: mdl-38869719

ABSTRACT

A novel construction strategy is introduced for an ultrasensitive dynamic light scattering (DLS) immunosensor targeting alpha fetoprotein (AFP). This approach relies on a self-assembled heptamer fusion protein (A1-C4bpα), incorporating the dual functions of multivalent recognition and crosslinking aggregation amplification due to the presence of seven AFP-specific A1 nanobodies on the A1-C4bpα heptamer. Leveraging antibody-functionalized magnetic nanoparticles for target AFP capture and DLS signal output, the proposed heptamer-assisted DLS immunosensor offers high sensitivity, strong specificity, and ease of operation. Under the optimized conditions, the designed DLS immunosensor demonstrates excellent linear detection of AFP in the concentration range 0.06 ng mL-1 to 512 ng mL-1, with a detection limit of 15 pg mL-1. The selectivity, accuracy, precision, practicability, and reliability of this newly developed method were further validated through an assay of AFP levels in spiked and actual human serum samples. This work introduces a novel approach for constructing ultrasensitive DLS immunosensors, easily extendable to the sensitive determination of other targets via simply replacing the nanobody sequence, holding great promise in various applications, particularly in disease diagnosis.


Subject(s)
Dynamic Light Scattering , Limit of Detection , alpha-Fetoproteins , alpha-Fetoproteins/analysis , alpha-Fetoproteins/immunology , Humans , Immunoassay/methods , Antibodies, Immobilized/immunology , Biosensing Techniques/methods , Single-Domain Antibodies/chemistry , Single-Domain Antibodies/immunology , Magnetite Nanoparticles/chemistry
11.
Int J Nanomedicine ; 19: 4451-4464, 2024.
Article in English | MEDLINE | ID: mdl-38799694

ABSTRACT

Introduction: Researchers are increasingly favouring the use of biological resources in the synthesis of metallic nanoparticles. This synthesis process is quick and affordable. The current study examined the antibacterial and anticancer effects of silver nanoparticles (AgNPs) derived from the Neurada procumbens plant. Biomolecules derived from natural sources can be used to coat AgNPs to make them biocompatible. Methods: UV-Vis spectroscopy was used to verify the synthesis of AgNPs from Neurada procumbens plant extract, while transmission electron microscopy (TEM), photoluminescence (PL) spectroscopy, dynamic light scattering (DLS), and Fourier transform infrared spectroscopy (FTIR) were used to characterize their morphology, crystalline structure, stability, and coating. Results: UV-visible spectrum of AgNPs shows an absorption peak at 422 nm, indicating the isotropic nature of these nanoparticles. As a result of the emergence of a transmission peak at 804.53 and 615.95 cm-1 in the spectrum of the infrared light emitted by atoms in a sample, FTIR spectroscopy demonstrated that the Ag stretching vibration mode is metal-oxygen (M-O). Electron dispersive X-ray (EDX) spectral analysis shows that elementary silver has a peak at 3 keV. Irradiating the silver surface with electrons, photons, or laser beams triggers the illumination. The emission peak locations have been found between 300 and 550 nm. As a result of DLS analysis, suspended particles showed a bimodal size distribution, with their Z-average particle size being 93.38 nm. Conclusion: The findings showed that the antibacterial action of AgNPs was substantially (p≤0.05) more evident against Gramme-positive strains (S. aureus and B. cereus) than E. coli. The biosynthesis of AgNPs is an environmentally friendly method for making nanostructures that have antimicrobial and anticancer properties.


Subject(s)
Green Chemistry Technology , Metal Nanoparticles , Silver , Theranostic Nanomedicine , Silver/chemistry , Silver/pharmacology , Metal Nanoparticles/chemistry , Green Chemistry Technology/methods , Humans , Theranostic Nanomedicine/methods , Anti-Bacterial Agents/pharmacology , Anti-Bacterial Agents/chemistry , Plant Extracts/chemistry , Plant Extracts/pharmacology , Antineoplastic Agents/pharmacology , Antineoplastic Agents/chemistry , Neoplasm Invasiveness/prevention & control , Particle Size , Microbial Sensitivity Tests , Spectroscopy, Fourier Transform Infrared , Cell Line, Tumor , Neoplasms/drug therapy , Neoplasms/pathology , Escherichia coli/drug effects , Staphylococcus aureus/drug effects
12.
Pharmaceutics ; 16(5)2024 May 16.
Article in English | MEDLINE | ID: mdl-38794330

ABSTRACT

Biological nanoparticles (NPs), such as extracellular vesicles (EVs), exosome-mimetic nanovesicles (EMNVs) and nanoghosts (NGs), are perspective non-viral delivery vehicles for all types of therapeutic cargo. Biological NPs are renowned for their exceptional biocompatibility and safety, alongside their ease of functionalization, but a significant challenge arises when attempting to load therapeutic payloads, such as nucleic acids (NAs). One effective strategy involves fusing biological NPs with liposomes loaded with NAs, resulting in hybrid carriers that offer the benefits of both biological NPs and the capacity for high cargo loads. Despite their unique parameters, one of the major issues of virtually any nanoformulation is the ability to escape degradation in the compartment of endosomes and lysosomes which determines the overall efficiency of nanotherapeutics. In this study, we fabricated all major types of biological and hybrid NPs and studied their response to the acidic environment observed in the endolysosomal compartment. In this study, we show that EMNVs display increased protonation and swelling relative to EVs and NGs in an acidic environment. Furthermore, the hybrid NPs exhibit an even greater response compared to EMNVs. Short-term incubation of EMNVs in acidic pH corresponding to late endosomes and lysosomes again induces protonation and swelling, whereas hybrid NPs are ruptured, resulting in the decline in their quantities. Our findings demonstrate that in an acidic environment, there is enhanced rupture and release of vesicular cargo observed in hybrid EMNVs that are fused with liposomes compared to EMNVs alone. This was confirmed through PAGE electrophoresis analysis of mCherry protein loaded into nanoparticles. In vitro analysis of NPs colocalization with lysosomes in HepG2 cells demonstrated that EMNVs mostly avoid the endolysosomal compartment, whereas hybrid NPs escape it over time. To conclude, (1) hybrid biological NPs fused with liposomes appear more efficient in the endolysosomal escape via the mechanism of proton sponge-associated scavenging of protons by NPs, influx of counterions and water, and rupture of endo/lysosomes, but (2) EMNVs are much more efficient than hybrid NPs in actually avoiding the endolysosomal compartment in human cells. These results reveal biochemical differences across four major types of biological and hybrid NPs and indicate that EMNVs are more efficient in escaping or avoiding the endolysosomal compartment.

13.
Biophys Chem ; 311: 107269, 2024 Aug.
Article in English | MEDLINE | ID: mdl-38815545

ABSTRACT

Reverse micelles (RMs) are spontaneously organizing nanobubbles composed of an organic solvent, surfactants, and an aqueous phase that can encapsulate biological macromolecules for various biophysical studies. Unlike other RM systems, the 1-decanoyl-rac-glycerol (10MAG) and lauryldimethylamine-N-oxide (LDAO) surfactant system has proven to house proteins with higher stability than other RM mixtures with little sensitivity to the water loading (W0, defined by the ratio of water to surfactant). We investigated this unique property by encapsulating three model proteins - cytochrome c, myoglobin, and flavodoxin - in 10MAG/LDAO RMs and applying a variety of experimental methods to characterize this system's behavior. We found that this surfactant system differs greatly from the traditional, spherical, monodisperse RM population model. 10MAG/LDAO RMs were discovered to be oblate ellipsoids at all conditions, and as W0 was increased, surfactants redistributed to form a greater number of increasingly spherical ellipsoidal particles with pools of more bulk-like water. Proteins distinctively influence the thermodynamics of the mixture, encapsulating at their optimal RM size and driving protein-free RM sizes to scale accordingly. These findings inform the future development of similarly malleable encapsulation systems and build a foundation for application of 10MAG/LDAO RMs to analyze biological and chemical processes under nanoscale confinement.


Subject(s)
Glycerol , Micelles , Myoglobin , Surface-Active Agents , Myoglobin/chemistry , Surface-Active Agents/chemistry , Glycerol/chemistry , Cytochromes c/chemistry , Flavodoxin/chemistry , Laurates/chemistry , Thermodynamics , Water/chemistry , Dimethylamines
14.
Eur J Pharm Biopharm ; 200: 114340, 2024 Jul.
Article in English | MEDLINE | ID: mdl-38797222

ABSTRACT

Lentiviral vectors (LVVs) are used as a starting material to generate chimeric antigen receptor (CAR) T cells. Therefore, LVVs need to be carefully analyzed to ensure safety, quality, and potency of the final product. We evaluated orthogonal and complementary analytical techniques for their suitability to characterize particulate matter (impurities and LVVs) in pharmaceutical LVV materials at development stage derived from suspension and adherent manufacturing processes. Microfluidic resistive pulse sensing (MRPS) with additional manual data fitting enabled the assessment of mode diameters for particles in the expected LVV size range in material from adherent production. LVV material from a suspension process, however, contained substantial amounts of particulate impurities which blocked MRPS cartridges. Sedimentation-velocity analytical ultracentrifugation (SV-AUC) resolved the LVV peak in material from adherent production well, whereas in more polydisperse samples from suspension production, presence of particulate impurities masked a potential signal assignable to LVVs. In interferometric light microscopy (ILM) and nanoparticle tracking analysis (NTA), lower size detection limits close to âˆ¼ 70 nm resulted in an apparent peak in particle size distributions at the expected size for LVVs emphasizing the need to interpret these data with care. Interpretation of data from dynamic light scattering (DLS) was limited by insufficient size resolution and sample polydispersity. In conclusion, the analysis of LVV products manufactured at pharmaceutical scale with current state-of-the-art physical (nano)particle characterization techniques was challenging due to the presence of particulate impurities of heterogeneous size. Among the evaluated techniques, MRPS and SV-AUC were most promising yielding acceptable results at least for material from adherent production.


Subject(s)
Genetic Vectors , Lentivirus , Nanoparticles , Particle Size , Ultracentrifugation , Lentivirus/genetics , Nanoparticles/chemistry , Ultracentrifugation/methods , Humans , Receptors, Chimeric Antigen
15.
Int J Biol Macromol ; 271(Pt 1): 132510, 2024 Jun.
Article in English | MEDLINE | ID: mdl-38821797

ABSTRACT

Gum Arabic underwent enzymatic modification with curcumin oxidation products, prompting self-assembly in water at lower concentrations than native gum Arabic, which was fully soluble. The resulting particles displayed a narrow size distribution, suggestive of a micellization mechanism akin to Critical Micellization Concentration (CMC) in surfactants or Critical Aggregation Concentration (CAC) in polymers. Accurately determining CAC is vital for utilizing polymers in molecule encapsulation, but precise measurement is challenging, requiring multiple techniques. Initially, CAC was probed via turbidity measurements, dynamic light scattering (DLS), and isothermal calorimetric titration (ITC), yielding a range of 0.0015 to 0.01 %. Micro-scale thermophoresis (MST) was then employed for the first time to define CAC more precisely, facilitated by the intrinsic fluorescence of modified gum Arabic. Using MST, CAC was pinpointed at 0.001 % (w/v), a novel approach. Furthermore, MST revealed a low EC50 value of 0.007 % (w/t) for self-assembly, signifying uniformity among GAC sub-units and assembly stability upon dilution.


Subject(s)
Curcumin , Gum Arabic , Oxidation-Reduction , Water , Gum Arabic/chemistry , Curcumin/chemistry , Water/chemistry , Micelles
16.
J Biol Chem ; 300(6): 107396, 2024 Jun.
Article in English | MEDLINE | ID: mdl-38777142

ABSTRACT

Fatty acid binding proteins (FABPs) are a family of amphiphilic transport proteins with high diversity in terms of their amino acid sequences and binding preferences. Beyond their main biological role as cytosolic fatty acid transporters, many aspects regarding their binding mechanism and functional specializations in human cells remain unclear. In this work, the binding properties and thermodynamics of FABP3, FABP4, and FABP5 were analyzed under various physical conditions. For this purpose, the FABPs were loaded with fatty acids bearing fluorescence or spin probes as model ligands, comparing their binding affinities via microscale thermophoresis (MST) and continuous-wave electron paramagnetic resonance (CW EPR) spectroscopy. The CW EPR spectra of non-covalently bound 5- and 16-DOXYL stearic acid (5/16-DSA) deliver in-depth information about the dynamics and chemical environments of ligands inside the binding pockets of the FABPs. EPR spectral simulations allow the construction of binding curves, revealing two different binding states ('intermediately' and 'strongly' bound). The proportion of bound 5/16-DSA depends strongly on the FABP concentration and the temperature but with remarkable differences between the three isoforms. Additionally, the more dynamic state ('intermediately bound') seems to dominate at body temperature with thermodynamic preference. The ligand binding studies were supplemented by aggregation studies via dynamic light scattering and bioinformatic analyses. Beyond the remarkably fine-tuned binding properties exhibited by each FABP, which were discernible with our EPR-centered approach, the results of this work attest to the power of simple spectroscopic experiments to provide new insights into the ligand binding mechanisms of proteins in general on a molecular level.


Subject(s)
Fatty Acid Binding Protein 3 , Fatty Acid-Binding Proteins , Protein Binding , Fatty Acid-Binding Proteins/metabolism , Fatty Acid-Binding Proteins/chemistry , Humans , Fatty Acid Binding Protein 3/metabolism , Fatty Acid Binding Protein 3/chemistry , Electron Spin Resonance Spectroscopy , Ligands , Thermodynamics , Fatty Acids/metabolism , Fatty Acids/chemistry , Binding Sites
17.
Protein Sci ; 33(6): e4997, 2024 Jun.
Article in English | MEDLINE | ID: mdl-38723110

ABSTRACT

Rieske oxygenases (ROs) are a diverse metalloenzyme class with growing potential in bioconversion and synthetic applications. We postulated that ROs are nonetheless underutilized because they are unstable. Terephthalate dioxygenase (TPADO PDB ID 7Q05) is a structurally characterized heterohexameric α3ß3 RO that, with its cognate reductase (TPARED), catalyzes the first intracellular step of bacterial polyethylene terephthalate plastic bioconversion. Here, we showed that the heterologously expressed TPADO/TPARED system exhibits only ~300 total turnovers at its optimal pH and temperature. We investigated the thermal stability of the system and the unfolding pathway of TPADO through a combination of biochemical and biophysical approaches. The system's activity is thermally limited by a melting temperature (Tm) of 39.9°C for the monomeric TPARED, while the independent Tm of TPADO is 50.8°C. Differential scanning calorimetry revealed a two-step thermal decomposition pathway for TPADO with Tm values of 47.6 and 58.0°C (ΔH = 210 and 509 kcal mol-1, respectively) for each step. Temperature-dependent small-angle x-ray scattering and dynamic light scattering both detected heat-induced dissociation of TPADO subunits at 53.8°C, followed by higher-temperature loss of tertiary structure that coincided with protein aggregation. The computed enthalpies of dissociation for the monomer interfaces were most congruent with a decomposition pathway initiated by ß-ß interface dissociation, a pattern predicted to be widespread in ROs. As a strategy for enhancing TPADO stability, we propose prioritizing the re-engineering of the ß subunit interfaces, with subsequent targeted improvements of the subunits.


Subject(s)
Enzyme Stability , Oxidoreductases/chemistry , Oxidoreductases/metabolism , Bacterial Proteins/chemistry , Bacterial Proteins/metabolism , Bacterial Proteins/genetics , Models, Molecular , Dioxygenases/chemistry , Dioxygenases/metabolism , Dioxygenases/genetics , Temperature , Escherichia coli/enzymology , Escherichia coli/genetics , Escherichia coli/metabolism , Polyethylene Terephthalates/chemistry , Polyethylene Terephthalates/metabolism , Hydrogen-Ion Concentration , Electron Transport Complex III
18.
Int J Mol Sci ; 25(9)2024 Apr 23.
Article in English | MEDLINE | ID: mdl-38731809

ABSTRACT

Polysaccharide-based systems have very good emulsifying and stabilizing properties, and starch plays a leading role. Their modifications should add new quality features to the product to such an extent that preserves the structure-forming properties of native starch. The aim of this manuscript was to examine the physicochemical characteristics of the combinations of starch with phospholipids or lysozymes and determine the effect of starch modification (surface hydrophobization or biological additives) and preparation temperature (before and after gelatinization). Changes in electrokinetic potential (zeta), effective diameter, and size distribution as a function of time were analyzed using the dynamic light scattering and microelectrophoresis techniques. The wettability of starch-coated glass plates before and after modification was checked by the advancing and receding contact angle measurements, as well as the angle hysteresis, using the settle drop method as a complement to profilometry and FTIR. It can be generalized that starch dispersions are more stable than analogous n-alkane/starch emulsions at room and physiological temperatures. On the other hand, the contact angle hysteresis values usually decrease with temperature increase, pointing to a more homogeneous surface, and the hydrophobization effect decreases vs. the thickness of the substrate. Surface hydrophobization of starch carried out using an n-alkane film does not change its bulk properties and leads to improvement of its mechanical and functional properties. The obtained specific starch-based hybrid systems, characterized in detail by switchable wettability, give the possibility to determine the energetic state of the starch surface and understand the strength and specificity of interactions with substances of different polarities in biological processes and their applicability for multidirectional use.


Subject(s)
Polysaccharides , Starch , Wettability , Starch/chemistry , Polysaccharides/chemistry , Temperature , Muramidase/chemistry , Hydrophobic and Hydrophilic Interactions , Phospholipids/chemistry , Chemical Phenomena , Emulsions/chemistry
19.
Molecules ; 29(8)2024 Apr 18.
Article in English | MEDLINE | ID: mdl-38675666

ABSTRACT

In this study, a series of four surface-active compounds-N-alkyl betaine ethyl ester chlorides, CnBetC2Cl-were synthesized and characterized in aqueous solutions. As with other alkyl betaines, these amphiphiles can be practically used, for example, as co-surfactants and/or solubility enhancers acting according to hydrotropic or micellar mechanisms, depending on the alkyl chain length in the amine. We focused on the representatives of the medium alkyl chain length (C6-C12) to find the dependence between the alkyl chain length in N-alkyl betaine ethyl ester chlorides and the surface, volumetric, acoustic, and viscometric properties of their solutions. Ethyl esters, the derivatives of amino acids, were chosen to increase functionality and take advantage of possible hydrolysis in solutions at higher pH, which is also a key parameter in biodegradability. The micellization parameters were calculated based on the physicochemical characteristics. We focused our interest on the ester with a dodecyl substituent since we can compare and discuss its properties with some other C12 representatives that are available in literature. Surprisingly, its micellization characteristic is almost temperature-independent in the investigated temperature range, t = (15-45) °C. Particularly interesting are the results of dynamic light scattering (DLS), which show that the changes in physicochemical parameters of the C12 homolog around the CMC are caused by the two types of micelles of different sizes present in solutions.

20.
In Silico Pharmacol ; 12(1): 30, 2024.
Article in English | MEDLINE | ID: mdl-38617709

ABSTRACT

The hexokinase II enzyme is bound to the (VDAC1) channel in the form of a dimer and prevents the release of cell death factors from mitochondria to the cytoplasm. Studies have shown that blocking the binding of hexokinase II enzyme to (VDAC1) led to the initiation of apoptosis in cancer cells. No peptide has been designed so far to inhibit hexokinase II. The aim of this study was to inhibit the dimerization of enzyme subunits in order to inhibition the formation of (VDAC1) and the hexokinase II complex. In this study, the molecular dynamics simulation of the enzyme in monomer and dimer states was investigated in terms of RMSF, RMSD and radius of gyration. The following process involves extracting and designing variable-length peptides from the interacting segments of enzyme monomers. Using molecular dynamics simulation, the stability of the peptide was determined in terms of RMSD. Molecular docking was used to investigate the interaction between the designed peptides. Finally, the inhibitory effect of peptides on subunit association was measured using dynamic light scattering (DLS) technique. Our results showed that the designed peptides, which mimic common amino acids in dimerization, interrupt the bona fide form of the enzyme subunits. The result of this study provides a new way to disrupt the assembly process and thereby decreased the function of the hexokinase II. Supplementary Information: The online version contains supplementary material available at 10.1007/s40203-024-00201-8.

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