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1.
Sci Rep ; 14(1): 13183, 2024 06 08.
Artículo en Inglés | MEDLINE | ID: mdl-38851799

RESUMEN

Excessive Cu2+ intake can cause neurological disorders (e.g. Wilson's disease) and adversely affect the gastrointestinal, liver, and kidney organs. The presence of Cu2+ is strongly linked to the emergence and progression of Wilson's disease (WD), and accurately measuring the amount of copper is a crucial step in diagnosing WD at an early stage in a clinical setting. In this work, CQDs were fabricated through a facile technique as a novel fluorescence-based sensing platform for detecting Cu(II) in aqueous solutions, and in the serum samples of healthy and affected individuals by WD. The CQDs interact with Cu(II) ions to produce Turn-on and Turn-off states at nano-molar and micro-molar levels, respectively, with LODs of 0.001 µM and 1 µM. In fact, the Cu2+ ions can act like a bridge between two CQDs by which the charge and electron transfer between the CQDs may increase, possibly can have significant effects on the spectroscopic features of the CQDs. To the best of our knowledge, this is the first reported research that can detect Cu(II) at low levels using two different complexation states, with promising results in testing serum. The potential of the sensor to detect Cu(II) was tested on serum samples from healthy and affected individuals by WD, and compared to results obtained by ICP-OES. Astonishingly, the results showed an excellent correlation between the measured Cu(II) levels using the proposed technique and ICP-OES, indicating the high potential of the fluorimetric CQD-based probe for Cu(II) detection. The accuracy, sensitivity, selectivity, high precision, accuracy, and applicability of the probe toward Cu(II) ions make it a potential diagnostic tool for Wilson's disease in a clinical setting.


Asunto(s)
Cobre , Degeneración Hepatolenticular , Degeneración Hepatolenticular/diagnóstico , Degeneración Hepatolenticular/sangre , Cobre/sangre , Humanos , Espectrometría de Fluorescencia/métodos , Límite de Detección
2.
J Biomol Struct Dyn ; : 1-13, 2024 Jan 29.
Artículo en Inglés | MEDLINE | ID: mdl-38285617

RESUMEN

In this study, the inhibitory potential of 99 fungal derived secondary metabolites was predicted against SARS-CoV-2 main protease by using of computational approaches. This protein plays an important role in replication and is one of the important targets to inhibit viral reproduction. Among the 99 reported compounds, the 9 of them with the highest binding energy to Mpro obtained from the molecular docking method were selected for the molecular dynamic simulations. The compounds were then investigated by using the SwissADME serve to evaluate the compounds in terms of pharmacokinetic and druglikness properties. The overall results of different analysis show that the compound RKS-1778 is potentially more effective than others and form strong complexes with viral protease. It also had better pharmacokinetic properties than other metabolites, so predicted to be a suitable candidate as anti SARS-CoV-2 bioactive.Communicated by Ramaswamy H. Sarma.

3.
J Biomol Struct Dyn ; : 1-24, 2023 Sep 18.
Artículo en Inglés | MEDLINE | ID: mdl-37723861

RESUMEN

The merger of COVID-19 and seasonal influenza infections is considered a potentially serious threat to public health. These two viral agents can cause extensive and severe lower and upper respiratory tract infections with lung damage with host factors. Today, the development of vaccination has been shown to reduce the risk of hospitalization and mortality from the COVID-19 virus and influenza epidemics. Therefore, this study contributes to an immunoinformatics approach to producing a vaccine that can elicit strong and specific immune responses against COVID-19 and influenza A and B viruses. The NCBI, GISAID, and Uniprot databases were used to retrieve sequences. Linear B cell, Cytotoxic T lymphocyte, and Helper T lymphocyte epitopes were predicted using the online servers. Population coverage of MHC I epitopes worldwide for SARS-CoV-2, Influenza virus H3N2, H3N2, and Yamagata/Victoria were 99.93%, 68.67%, 68.38%, and 85.45%, respectively. Candidate epitopes were linked by GGGGS, GPGPG, and KK linkers. Different epitopes were permutated several times to form different peptides and then screened for antigenicity, allergenicity, and toxicity. The vaccine construct was analyzed for physicochemical properties, conformational B-cell epitopes, interaction with Toll-like receptors, and IFN-gamma-induced. Immune stimulation response of final construct was evaluated using C-IMMSIM. Eventually, the final construct sequence was codon-optimized for Escherichia coli K12 and Homo sapiens to design a multi-epitope vaccine and mRNA vaccine. In conclusion, due to the variable nature of SARS-CoV-2 and influenza proteins, the design of a multi-epitope vaccine can protect against all their standard variants, but laboratory validation is required.Communicated by Ramaswamy H. Sarma.

4.
J Biomol Struct Dyn ; : 1-11, 2023 Aug 22.
Artículo en Inglés | MEDLINE | ID: mdl-37608542

RESUMEN

In this study the efficacy of different edible lipids for drug permeation enhancement of vancomycin through biological membrane was investigated using molecular dynamic simulation. In this regard, at first the ability of the lipids for complex formation with the drug was evaluated for number of most common edible lipids including tripalmitin (TPA), trimyristin (TMY), labrafil (LAB), glycerol monostearate (GMS), glycerol monooleate (GMO), Distearoylphosphorylethanolamine (DSPE), dipalmitoylphosphatidylethanolamine (DPPE), Dipalmitoylphosphatidylcholine (DPPC), cholesterol (CL), stearic acid (SA), palmitic acid (PA) and oleic acid (OA). Then the complexes were pulled thorough a bilayer membrane while the changes in force were probed. The results showed that besides the SA, PA and OA the other examined lipids were able to perform a perfect molecular complex with the drug. Also the results of pulling simulation revealed that the least of force was needed for drug transmittance through the membrane when it was covered by LAB, TMY and DSPE. These results indicated that these lipids can be the excellent materials of choice as permeation enhancer for preparing a proper oral formulation of vancomycin.Communicated by Ramaswamy H. Sarma.

5.
J Int Med Res ; 51(7): 3000605231190473, 2023 Jul.
Artículo en Inglés | MEDLINE | ID: mdl-37523589

RESUMEN

Corneal diseases are among the most common causes of blindness worldwide. Regardless of the etiology, corneal opacity- or globe integrity-threatening conditions may necessitate corneal replacement procedures. Several procedure types are currently available to address these issues, based on the complexity and extent of injury. Corneal allograft or keratoplasty is considered to be first-line treatment in many cases. However, a significant proportion of the world's population are reported to have no access to this option due to limitations in donor preparation. Thus, providing an appropriate, safe, and efficient synthetic implant (e.g., artificial cornea) may revolutionize this field. Nanotechnology, with its potential applications, has garnered a lot of recent attention in this area, however, there is seemingly a long way to go. This narrative review provides a brief overview of the therapeutic interventions for corneal pathologies, followed by a summary of current biomaterials used in corneal regeneration and a discussion of the nanotechnologies that can aid in the production of superior implants.


Asunto(s)
Enfermedades de la Córnea , Ingeniería de Tejidos , Humanos , Ingeniería de Tejidos/métodos , Materiales Biocompatibles/uso terapéutico , Córnea/cirugía , Enfermedades de la Córnea/cirugía , Nanotecnología
6.
BMC Bioinformatics ; 24(1): 65, 2023 Feb 24.
Artículo en Inglés | MEDLINE | ID: mdl-36829112

RESUMEN

BACKGROUND: It seems that several members of intestinal gut microbiota like Streptococcus bovis, Bacteroides fragilis, Helicobacter pylori, Fusobacterium nucleatum, Enterococcus faecalis, Escherichia coli, Peptostreptococcus anaerobius may be considered as the causative agents of Colorectal Cancer (CRC). The present study used bioinformatics and immunoinformatics approaches to design a potential epitope-based multi-epitope vaccine to prevent CRC with optimal population coverage. METHODS: In this study, ten amino acid sequences of CRC-related pathogens were retrieved from the NCBI database. Three ABCpred, BCPREDS and LBtope online servers were considered for B cells prediction and the IEDB server for T cells (CD4+ and CD8+) prediction. Then, validation, allergenicity, toxicity and physicochemical analysis of all sequences were performed using web servers. A total of three linkers, AAY, GPGPG, and KK were used to bind CTL, HTL and BCL epitopes, respectively. In addition, the final construct was subjected to disulfide engineering, molecular docking, immune simulation and codon adaptation to design an effective vaccine production strategy. RESULTS: A total of 19 sequences of different lengths for linear B-cell epitopes, 19 and 18 sequences were considered as epitopes of CD4+ T and CD8+ cells, respectively. The predicted epitopes were joined by appropriate linkers because they play an important role in producing an extended conformation and protein folding. The final multi-epitope construct and Toll-like receptor 4 (TLR4) were evaluated by molecular docking, which revealed stable and strong binding interactions. Immunity simulation of the vaccine showed significantly high levels of immunoglobulins, helper T cells, cytotoxic T cells and INF-γ. CONCLUSION: Finally, the results showed that the designed multi-epitope vaccine could serve as an excellent prophylactic candidate against CRC-associated pathogens, but in vitro and animal studies are needed to justify our findings for its use as a possible preventive measure.


Asunto(s)
Neoplasias Colorrectales , Epítopos de Linfocito T , Animales , Simulación del Acoplamiento Molecular , Epítopos de Linfocito T/química , Vacunas de Subunidad/química , Epítopos de Linfocito B , Biología Computacional/métodos
7.
J Biomol Struct Dyn ; 41(19): 10117-10124, 2023 11.
Artículo en Inglés | MEDLINE | ID: mdl-36476279

RESUMEN

In this study, the interaction of an anticonvulsant drug that used in the treatment of epilepsy, Lamotrigine (LTG) with the most important transport protein of the blood, human serum albumin (HSA) has been studied by using the electrochemical methods and molecular modeling techniques. For this purpose, a simple carbon paste electrode (CPE) was applied for electrocatalytic oxidation and investigation of LTG interaction with HSA. The stoichiometry of the complex between LTG and HSA and the binding constant (Kb) of the reaction were calculated from the calibration curves. The results show that binding of LTG to HSA formed two complexes with different stoichiometries with Kb1 (2.46 × 103) and Kb2 (1.75 × 107), respectively. In agreement with the experimental data, molecular modeling approach also confirmed that LTG can bind to the subdomain IIA and IB of HSA.Communicated by Ramaswamy H. Sarma.


Asunto(s)
Anticonvulsivantes , Albúmina Sérica Humana , Humanos , Albúmina Sérica Humana/química , Lamotrigina , Simulación del Acoplamiento Molecular , Unión Proteica , Sitios de Unión , Termodinámica , Espectrometría de Fluorescencia , Dicroismo Circular
8.
Environ Res ; 214(Pt 3): 113966, 2022 11.
Artículo en Inglés | MEDLINE | ID: mdl-35952738

RESUMEN

Alginate-grafted polyaniline (Alg-g-PANI) microparticles were synthesized through the grafting of aniline onto functionalized Alg followed by double crosslinking by glutaraldehyde and calcium chloride. The performance of the developed microparticles as adsorbent in simultaneous removal of malachite green (MG) and congo red (CR) dyes were examined by the batch method. Experimental parameters, including adsorbent amount, pH, initial dyes concentrations, and contact time were optimized. Langmuir and Freundlich adsorption models were employed to explore the equilibrium isotherm. As the Langmuir model results, the maximum adsorption capacities (Qm) of microparticles for the MG and CR dyes were obtained as 578.3 and 409.6 mgg-1, respectively. Adsorption kinetics for both dyes were well-fitted with the pseudo-second-order model that confirm the rate-limiting step might be the chemical adsorption. The adsorbent was regenerated via desorption process and was reusable five times without a substantial decrease in its adsorption efficacy in first three cycles. Adsorbent-dyes interactions were computationally evaluated using Gromacs package, and it was found that both MG and CR are able to interact strongly with the adsorbent. In accordance with experimental results, simulation data revealed that MG can be removed more efficiently than those of the CR. As the experimental results, we could conclude that the synthesized Alg-g-PANI microparticles can be used as a nature-inspired adsorbent for simultaneous removals of CR and MG dyes.


Asunto(s)
Colorantes , Contaminantes Químicos del Agua , Adsorción , Aniones , Cationes , Rojo Congo , Concentración de Iones de Hidrógeno , Cinética , Contaminantes Químicos del Agua/análisis
9.
Comput Biol Med ; 146: 105625, 2022 07.
Artículo en Inglés | MEDLINE | ID: mdl-35688710

RESUMEN

The outbreak of COVID-19 has resulted in millions of deaths. Despite all attempts that have been made to combat the pandemic, the re-emergence of new variants complicated SARS-CoV-2 eradication. The ongoing global spread of COVID-19 demands the incessant development of novel agents in vaccination, diagnosis, and therapeutics. Targeting receptor-binding domain (RBD) of spike protein by which the virus identifies host receptor, angiotensin-converting enzyme (ACE2), is a promising strategy for curbing viral infection. This study aims to discover novel peptide inhibitors against SARS-CoV-2 entry using computational approaches. The RBD binding domain of ACE2 was extracted and docked against the RBD. MMPBSA calculations revealed the binding energies of each residue in the template. The residues with unfavorable binding energies were considered as mutation spots by OSPREY. Binding energies of the residues in RBD-ACE2 interface was determined by molecular docking. Peptide inhibitors were designed by the mutation of RBD residues in the virus-receptors complex which had unfavorable energies. Peptide tendency for RBD binding, safety, and allergenicity were the criteria based on which the final hits were screened among the initial library. Molecular dynamics simulations also provided information on the mechanisms of inhibitory action in peptides. The results were finally validated by molecular docking simulations to make sure the peptides are capable of hindering virus-host interaction. Our results introduce three peptides P7 (RAWTFLDKFNHEAEDLRYQSSLASWN), P13 (RASTFLDKFNHEAEDLRYQSSLASWN), and P19 (RADTFLDKFNHEAEDLRYQSSLASWN) as potential effective inhibitors of SARS-CoV-2 entry which could be considered in drug development for COVID-19 treatment.


Asunto(s)
Tratamiento Farmacológico de COVID-19 , SARS-CoV-2 , Enzima Convertidora de Angiotensina 2 , Sitios de Unión , Humanos , Simulación del Acoplamiento Molecular , Simulación de Dinámica Molecular , Mutación , Péptidos/metabolismo , Péptidos/farmacología , Unión Proteica , Glicoproteína de la Espiga del Coronavirus/química
10.
Iran J Pharm Res ; 21(1): e127040, 2022 Dec.
Artículo en Inglés | MEDLINE | ID: mdl-36942065

RESUMEN

The use of nuclear magnetic resonance (NMR) spectroscopy as a tool for determining pharmaceutical molecules in bulk drugs and their dosage forms is growing. New advancements in benchtop NMR spectrometers with cryogen-free magnets have made this technique more appealing and accessible. Herein, we developed a method using a benchtop NMR spectrometer to quantify phenytoin (PhT) and phenobarbital (PhB) in bulk and combined dosage forms. The results were compared to those obtained by high performance liquid chromatography (HPLC) as a well-characterized procedure. This method is simple, low cost, relatively fast, and non-inferior to HPLC in terms of figures of merit.

11.
J Biomol Struct Dyn ; 40(19): 9042-9052, 2022.
Artículo en Inglés | MEDLINE | ID: mdl-33998953

RESUMEN

Today the nano drug delivery systems are among the hot topics in drug design and pharmacy studies. Extensive researches are conducted worldwide for obtaining more effective therapeutics and screen the best drug carrier in-vivo and in-vitro. Considering the high cost of such experiments and the ethical issues linked with in-vivo studies, the in-silico analysis provides the time and cost-effective opportunity to evaluation of physiochemical properties and the interactions between drugs and their carriers. In this study using molecular dynamics (MD) simulation, five commonly used biodegradable biopolymers in pharmaceutical formulations including Chitosan, Alginate, Cyclodextrin, Hyaluronic Acid, and Pectin were investigated as proper carriers for the erythropoietin (EPO) in heat stress. The EPO was simulated in different temperatures of 298 and 343 K and the ability of polymers for temperature stabilization of the protein was evaluated comparatively. Overall, the results obtained in this study suggest that the pectin polysaccharide is the preferable carrier than others in term of protein stability in high temperatures and using for the delivery of erythropoietin.Communicated by Ramaswamy H. Sarma.


Asunto(s)
Quitosano , Polímeros , Polímeros/química , Simulación de Dinámica Molecular , Portadores de Fármacos/química , Quitosano/química , Alginatos/química , Pectinas/química
12.
Spectrochim Acta A Mol Biomol Spectrosc ; 262: 120148, 2021 Dec 05.
Artículo en Inglés | MEDLINE | ID: mdl-34247037

RESUMEN

Gemcitabine hydrochloride is an established chemotherapeutic agent in several solid tumors. In spite of outstanding therapeutic efficacy, there are some serious fetal side effects with gemcitabine in higher concentrations which necessitate developing a sensitive sensor for its quantification. Herein, a fluorescent metal-nanoparticles conjugated carbon quantum dot (MN-CQD) was prepared by a mixture of citric acid/ammonia sulfate and different metals using hydrothermal method. Based on the primary experiments, the efficiency of Ag nanoparticle-CQDs for gemcitabine determination was found to be much better than others. The AgNp-CQDs fluorescence was quenched by gemcitabine anticancer drug via photo-induced charge transfer which renders the system into fluorescence "OFF" status. Under the experimental conditions, the linear range of detection was 0.003-0.1 µM in an aqueous solution with a correlation coefficient of 0.96 and a limit of detection equal to 0.002 µM. The relative standard deviation (RSD) for gemcitabine determination was 3.4% (n = 3). Finally, after optimizing the conditions, the concentration of analyte was determined in real samples including human plasma and urine. These results confirm that the as prepared fluorescence based nanosensor can be used for sensitive quantification of gemcitabine in real samples.


Asunto(s)
Nanopartículas del Metal , Puntos Cuánticos , Carbono , Desoxicitidina/análogos & derivados , Humanos , Plata , Gemcitabina
13.
Comput Biol Med ; 135: 104613, 2021 08.
Artículo en Inglés | MEDLINE | ID: mdl-34242870

RESUMEN

The newly emerged Coronavirus Disease 2019 (COVID-19) rapidly outspread worldwide and now is one of the biggest infectious pandemics in human society. In this study, the inhibitory potential of 99 secondary metabolites obtained from endophytic fungi was investigated against the new coronavirus RNA-dependent RNA polymerase (RdRp) using computational methods. A sequence of blind and targeted molecular dockings was performed to predict the more potent compounds on the viral enzyme. In the next step, the five selected compounds were further evaluated by molecular dynamics (MD) simulation. Moreover, the pharmacokinetics of the metabolites was assessed using SwissADME server. The results of molecular docking showed that compounds 18-methoxy cytochalasin J, (22E,24R)-stigmasta-5,7,22-trien-3-ß-ol, beauvericin, dankasterone B, and pyrrocidine A had higher binding energy than others. The findings of MD and SwissADME demonstrated that two fungal metabolites, 18-methoxy cytochalasin J and pyrrocidine A had better results than others in terms of protein instability, strong complex formation, and pharmacokinetic properties. In conclusion, it is recommended to further evaluate the compounds 18-methoxy cytochalasin J and pyrrocidine A in the laboratory as good candidates for inhibiting COVID-19.


Asunto(s)
Antivirales/farmacología , ARN Polimerasa Dependiente de ARN de Coronavirus/antagonistas & inhibidores , Hongos/química , SARS-CoV-2/efectos de los fármacos , Simulación del Acoplamiento Molecular , Simulación de Dinámica Molecular , ARN Polimerasa Dependiente del ARN
14.
Res Pharm Sci ; 16(1): 58-70, 2021 Feb.
Artículo en Inglés | MEDLINE | ID: mdl-33953775

RESUMEN

BACKGROUND AND PURPOSE: Today, color additives such as Allura red (AR) are widely used in different kinds of food products. Pepsin is a globular protein that is secreted as a digestive protease from the main cells in the stomach. Because of the important role of pepsin in protein digestion and because of its importance in digestive diseases the study of the interactions of pepsin with chemical food additives is important. EXPERIMENTAL APPROACH: In this study, the interactions between AR and pepsin were investigated by different computational and experimental approaches such as ultraviolet and fluorescence spectroscopy along with computational molecular modeling. FINDINGS/RESULTS: The experimental results of fluorescence indicated that AR can strongly quench the fluorescence of pepsin through a static quenching. Thermodynamic analysis of the binding phenomena suggests that van der Waals forces and hydrogen bonding played a major role in the complex formation. The results of synchronous fluorescence spectra and furrier transformed infra-red (FTIR) experiments showed that there are no significant structural changes in the protein conformation. Also, examined pepsin protease activity revealed that the activity of pepsin was increased upon ligand binding. In agreement with the experimental results, the computational results showed that hydrogen bonding and van der Waals interactions occurred between AR and binding sites. CONCLUSION AND IMPLICATIONS: From the pharmaceutical point of view, this interaction can help us to get a deeper understanding of the effect of this synthetic dye on food digestion.

15.
Spectrochim Acta A Mol Biomol Spectrosc ; 253: 119523, 2021 May 15.
Artículo en Inglés | MEDLINE | ID: mdl-33621938

RESUMEN

Pepsin is an aspartic protease that is involved in the digestion of food in the stomach of mammals. Continuous and long-term use of therapeutic agents will cause chronic contact of the drug with pepsin, and as a result, the structure and function of enzyme may change. In this regard the interactions of isoniazid and rifampin as the first line treatments of tuberculosis with pepsin were investigated by various methods such as fluorescence spectroscopy, FTIR, molecular docking and molecular dynamics simulation. Based on the results obtained in this study, the mentioned drugs can form stable complexes with pepsin and the structure of protein changes slightly. According to the results, the major forces in the formation of the protein-drug complex are electrostatic and hydrophobic forces for isoniazid and rifampin respectively and isoniazid shows to form a stronger binding with protein. The FTIR spectrum of the protein shows that little change was occurred in the structure of pepsin in the presence of the drugs. Molecular modeling results of the binding of isoniazid and rifampin to the pepsin confirm laboratory results and show that the binding site of drugs is close to the active site of the enzyme. Also, the activity of pepsin in the presence of both drugs has significantly increased.


Asunto(s)
Isoniazida , Pepsina A , Animales , Simulación del Acoplamiento Molecular , Pepsina A/metabolismo , Unión Proteica , Rifampin
16.
Bioelectrochemistry ; 139: 107744, 2021 Jun.
Artículo en Inglés | MEDLINE | ID: mdl-33517204

RESUMEN

Prostatic specific antigen (PSA) is known as a biomarker of prostate cancer. In males, prostate cancer is ranked second as leading cause of death out of more than 200 different cancer types1. As a result, early detection of cancer can cause a significant reduction in mortality. PSA concentration directly is related to prostate cancer, so normal serum concentrations in healthy means are 4 ng and above 10 ng as abnormal concentration. Therefore, PSA determination is important to cancer progression. In this study, a free label electrochemical immunosensor was prepared based on a new green platform for the quantitative detection of the PSA. The used platform was formed from quince seed mucilage containing green gold and silver nanoparticles and synthesized by the green method (using Calendula officinalis L. extract). The quince mucilage biopolymer was used as a sub layer to assemble nanoparticles and increase the electrochemical performance. This nanocomposite was used to increase the antibody loading and accelerate the electron transfer, which can increase the biosensor sensitivity. The antibodies of the PSA biomarker were successfully incubated on the green platform. Under the optimal conditions, the electrochemical impedance spectroscopy (EIS) was proportional to the PSA biomarker concentration from 0.1 pg mL-1 to 100 ng mL-1 with low limit of detection (0.078 pg mL-1). The proposed green immunosensor exhibited high stability and reproducibility, which can be used for the quantitative assay of the PSA biomarker in clinical analyses. The results of real sample analysis presented another tool for the PSA biomarker detection in physiologic models.


Asunto(s)
Técnicas Biosensibles/métodos , Espectroscopía Dieléctrica/métodos , Calicreínas/sangre , Antígeno Prostático Específico/sangre , Neoplasias de la Próstata/diagnóstico , Biomarcadores de Tumor/sangre , Calendula/química , Oro/química , Tecnología Química Verde/métodos , Humanos , Masculino , Nanopartículas del Metal/química , Nanocompuestos/química , Extractos Vegetales/química , Mucílago de Planta/química , Rosaceae/química , Semillas/química , Plata/química
17.
Mater Sci Eng C Mater Biol Appl ; 119: 111417, 2021 Feb.
Artículo en Inglés | MEDLINE | ID: mdl-33321578

RESUMEN

Dabigatran (DAB) is a direct thrombin inhibitor used for preventing blood clots and emboli after orthopedic surgery. The DAB - thrombin interaction was followed by fluorescence and UV-Vis spectroscopic methods. The binding of DAB to thrombin was also modeled by the molecular docking method. The obtained experimental results were consistent with theoretical results. The voltammetric method was also tested for DAB - thrombin interaction. Based on voltammetric findings, carbon paste electrode containing graphite powder, paraffin oil, MWCNTs, and DAB was constructed and used for thrombin monitoring after investigation of the DAB oxidation mechanism for the first time. The decrease in the linear sweep voltammetric (LSV) peak current of DAB in the presence of thrombin was utilized for the thrombin analysis. The calibration plot was linear in the concentration range of 1 to 70 nM (R2 = 0.9992) by LSV technique with a detection limit of 0.3 nM. The applicability of the proposed sensor was evaluated by the determination of thrombin in human serum as a real sample.


Asunto(s)
Antitrombinas , Dabigatrán , Electrodos , Humanos , Simulación del Acoplamiento Molecular , Trombina
18.
Bioorg Chem ; 106: 104355, 2021 01.
Artículo en Inglés | MEDLINE | ID: mdl-33223200

RESUMEN

In this study, we prepared a novel amino cellulose derivative (benzyl cellulose-g-poly [2-(N,N-Dimethylamino)ethyl methacrylate]) via a homogeneous ATRP method. The successful synthesis of the novel amino cellulose was confirmed by FT-IR and 1H NMR. This study addressed the different characteristics of the prepared polymer including the thermal stability, solubility, and X-ray diffraction pattern. The antibacterial activity of the synthesized cellulose derivative was investigated using the diffusion disk method against both gram-negative (Escherichia coli, Salmonella enterica) and gram-positive (Staphylococcus aureus, Bacillus subtilis) bacteria. Based on the inhibition zone, it was confirmed that the prepared benzyl cellulose-g-PDMAEMA possesses acceptable antibacterial activity against Escherichia coli, Salmonella enterica, and Staphylococcus aureus while Bacillus subtilis is resistant to the prepared polymer. Also according to the inhibition zone, it was shown that benzyl cellulose-g-PDMAEMA has more impact on E. coli and Salmonella enterica than Staphylococcus aureus. Molecular dynamics simulation was also used to study the interaction of the synthesized cellulose derivative with a model membrane which presented atomistic details of the polymer-lipid interactions. According to the results obtained from the molecular dynamics simulation, the polymer was able to destabilize the structure of the membrane and clearly express its signs of degradation.


Asunto(s)
Antibacterianos/farmacología , Celulosa/análogos & derivados , Celulosa/farmacología , Metacrilatos/farmacología , Nylons/farmacología , Antibacterianos/síntesis química , Antibacterianos/metabolismo , Bacterias/efectos de los fármacos , Celulosa/metabolismo , Membrana Dobles de Lípidos/química , Membrana Dobles de Lípidos/metabolismo , Metacrilatos/síntesis química , Metacrilatos/metabolismo , Pruebas de Sensibilidad Microbiana , Simulación de Dinámica Molecular , Nylons/síntesis química , Nylons/metabolismo , Solubilidad
19.
J Biomol Struct Dyn ; 39(13): 4633-4646, 2021 08.
Artículo en Inglés | MEDLINE | ID: mdl-32573355

RESUMEN

Non-Structural Protein 16 (nsp-16), a viral RNA methyltransferase (MTase), is one of the highly viable targets for drug discovery of coronaviruses including SARS-CoV-2. In this study, drug discovery of SARS-CoV-2 nsp-16 has been performed by a virtual drug repurposing approach. First, drug shape-based screening (among FDA approved drugs) with a known template of MTase inhibitor, sinefungin was done and best compounds with high similarity scores were selected. In addition to the selected compounds, 4 nucleoside analogs of anti-viral (Raltgravir, Maraviroc and Favipiravir) and anti-inflammatory (Prednisolone) drugs were selected for further investigations. Then, binding energies and interaction modes were found by molecular docking approaches and compouds with lower energy were selected for further investigation. After that, Molecular dynamics (MD) simulation was carried to test the potential selected compounds in a realistic environment. The results showed that Raltegravir and Maraviroc among other compounds can bind strongly to the active site of the protein compared to sinefungin, and can be potential candidates to inhibit NSP-16. Also, the MD simulation results suggested that the Maraviroc and Raltegravir are more effective drug candidates than Sinefungin for inhibiting the enzyme. It is concluded that Raltegravir and Maraviroc which may be used in the treatment of COVID-19 after Invitro and invivo studies and clinical trial for final confirmation of drug effectiveness. Communicated by Ramaswamy H. Sarma.


Asunto(s)
COVID-19 , Reposicionamiento de Medicamentos , Antivirales/farmacología , Humanos , Simulación del Acoplamiento Molecular , SARS-CoV-2
20.
J Biomol Struct Dyn ; 39(12): 4536-4546, 2021 Aug.
Artículo en Inglés | MEDLINE | ID: mdl-32579062

RESUMEN

Application of proteinous drugs can be associated with difficulties during both in storage/transportation and in the body when they are used. However, using pharmaceutical carbohydrates that are widely employed in drug delivery systems, besides the drug can be protected, these systems leading to gradually release the drug over time, or deliver it to the target cell. Using a combination of molecular modeling and simulation techniques, in this study the effects of five carbohydrate polymers of Chitosan, Alginate, Cyclodextrin, Hyaluronic acid and Pectin on structure and dynamics of interleukin2 protein at 298 K and 343 K, are investigated. Data achieved using molecular modeling methods showed that when the temperature rises, the protein stability decreases. Among different polymers, Chitosan and Cyclodextrin have shown to be able to protect protein against the negative effects of high temperatures in comparison with other polymers which suggests that the use of Cyclodextrin biopolymer for the preparation of pharmaceutical formulations of interleukin2 can be the best possible choice among other polymers investigated in this research.Communicated by Ramaswamy H. Sarma.


Asunto(s)
Quitosano , Preparaciones Farmacéuticas , Alginatos , Sistemas de Liberación de Medicamentos , Respuesta al Choque Térmico , Polímeros
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