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1.
J. Health Sci. Inst ; 41(3): 147-152, jul-sep 2023. Figuras
Article in Portuguese | LILACS | ID: biblio-1531513

ABSTRACT

Objetivos ­ Avaliar o potencial inibitório do ácido elágico sobre as interações do complexo Keap1-Nrf2, com o intuito de esclarecer um dos eventuais mecanismos associado à atividade antioxidante do ácido elágico. Métodos ­ Foram empregadas simulações de docagem molecular para prever o modo de ligação do ácido elágico no sítio ligante da proteína Keap1, o qual foi comparado com o modo de ligação obtido experimentalmente e descrito na literatura para o ligante natural, a proteína Nrf2, e um potente inibidor monoácido do complexo Keap1-Nrf2. Resultados ­ As simulações de docagem revelaram que o ácido elágico apresenta potencial para realizar uma rede de ligações de hidrogênio com resíduos de aminoácidos da proteína Keap1 considerados importantes para o reconhecimento do Nrf2, se assemelhando ao perfil observado para inibidores do complexo Keap1-Nrf2 descritos na literatura. Conclusão ­ O ácido elágico apresenta características químicas e espaciais favoráveis para a inibição do complexo Keap1-Nrf2 e a elucidação do seu modo de ligação pode auxiliar na identificação de novos produtos naturais com propriedades antioxidantes e potencializar o desenvolvimento de fármacos contra doenças crônico-degenerativas.


Subject(s)
Humans , Biological Products , Drug Design , Oxidative Stress , Ellagic Acid , Molecular Docking Simulation , Kelch-Like ECH-Associated Protein 1 , Antioxidants
2.
Arq. ciências saúde UNIPAR ; 27(1): 50-72, Jan-Abr. 2023.
Article in Portuguese | LILACS | ID: biblio-1414723

ABSTRACT

Através da edição da Norma Operacional de Assistência à Saúde realizada em 2001 e da publicação do Pacto pela Saúde realizado em 2006 o processo de acesso à saúde, ganhou maior ênfase no quesito de inovações e melhorias do sistema de saúde. A assistência farmacêutica sobreveio como parte fundamental nos serviços e programas de saúde. Neste sentido, o objetivo do presente estudo foi de expor as principais políticas públicas acerca da temática de medicamentos essenciais. Para tanto, foi realizada uma revisão integrativa de literatura, tendo como base de dados o Ministério da Saúde, as Resoluções da Agência Nacional de Vigilância Sanitária, artigos científicos e as publicações da Relação Nacional de Medicamentos (RENAME). No ano de 1998 através da portaria nº 3.916, de 30 de outubro 1998, apresenta-se a população a terminologia de Políticas públicas e, como resposta às diretrizes resultantes desta política, no presente artigo teremos ênfase na RENAME, criada através da portaria nº 3.047, de 28 de novembro de 2019, a qual atende aos princípios básicos e fundamentais do Sistema Único de Saúde: universalidade, equidade e a integralidade, para atender aos tratamentos das diversas doenças e agravos que acometem a população brasileira. Sendo assim, conclui- se que não se trata apenas de políticas públicas, e sim de manter o direito do cidadão estabelecidos pela Constituição da República Federativa do Brasil, para que o paciente consiga adquirir a medicação adequada e na quantidade necessária, permitindo aos profissionais alcançar mais aproveitamento no gerenciamento do ciclo da assistência farmacêutica.


Through the edition of the Operational Norm for Health Care carried out in 2001 and the publication of the Pact for Health carried out in 2006, the process of access to health gained greater emphasis on the issue of innovations and improvements in the health system. Pharmaceutical assistance emerged as a fundamental part of health services and programs. In this sense, the objective of the present study was to expose the main public policies on the subject of essential medicines. Therefore, an integrative literature review was carried out, using the Ministry of Health, the National Health Surveillance Agency's Resolutions, scientific articles and the publications of the National Medicines List (RENAME) as a database. In 1998, through ordinance nº 3.916, of October 30, 1998, the public policy terminology is presented to the population and, in response to the guidelines resulting from this policy, in this article we will emphasize RENAME, created through ordinance nº 3.047 , of November 28, 2019, which meets the basic and fundamental principles of the Unified Health System: universality, equity and integrality, to meet the treatments of the various diseases and conditions that affect the Brazilian population. Therefore, it is concluded that it is not just about public policies, but about maintaining the right of the citizen established by the Constitution of the Federative Republic of Brazil, so that the patient can acquire the appropriate medication and in the necessary quantity, allowing professionals to achieve more use in the management of the pharmaceutical care cycle.


A través de la edición de la Norma Operativa de Atención a la Salud realizada en 2001 y de la publicación del Pacto por la Salud realizada en 2006, el proceso de acceso a la salud ganó mayor énfasis en el tema de innovaciones y mejoras en el sistema de salud. La asistencia farmacéutica surgió como parte fundamental de los servicios y programas de salud. En este sentido, el objetivo del presente estudio fue exponer las principales políticas públicas sobre el tema de los medicamentos esenciales. Para ello, se realizó una revisión bibliográfica integradora, utilizando como base de datos el Ministerio de Salud, las Resoluciones de la Agencia Nacional de Vigilancia Sanitaria, artículos científicos y las publicaciones de la Lista Nacional de Medicamentos (RENAME). En 1998, a través de la ordenanza nº 3.916, de 30 de octubre de 1998, se presenta a la población la política pública de terminología y, en respuesta a las directrices resultantes de esta política, en este artículo haremos hincapié en el RENAME, creado a través de la ordenanza nº 3.047, de 28 de noviembre de 2019, que cumple con los principios básicos y fundamentales del Sistema Único de Salud: universalidad, equidad e integralidad, para atender los tratamientos de las diversas enfermedades y afecciones que afectan a la población brasileña. Por lo tanto, se concluye que no se trata sólo de políticas públicas, sino de mantener el derecho del ciudadano establecido por la Constitución de la República Federativa de Brasil, para que el paciente pueda adquirir el medicamento adecuado y en la cantidad necesaria, permitiendo que los profesionales logren un mayor aprovechamiento en la gestión del ciclo de atención farmacéutica.


Subject(s)
Public Policy/legislation & jurisprudence , Drugs, Essential/pharmacology , Drug Prescriptions/nursing , Unified Health System , Pharmaceutical Preparations , Drug Design , Review , Database , Fee Schedules
3.
Braz. J. Pharm. Sci. (Online) ; 59: e22373, 2023. tab, graf
Article in English | LILACS | ID: biblio-1439538

ABSTRACT

Abstract Quantitative Structure-Activity Relationship (QSAR) is a computer-aided technology in the field of medicinal chemistry that seeks to clarify the relationships between molecular structures and their biological activities. Such technologies allow for the acceleration of the development of new compounds by reducing the costs of drug design. This work presents 3D-QSARpy, a flexible, user-friendly and robust tool, freely available without registration, to support the generation of QSAR 3D models in an automated way. The user only needs to provide aligned molecular structures and the respective dependent variable. The current version was developed using Python with packages such as scikit-learn and includes various techniques of machine learning for regression. The diverse techniques employed by the tool is a differential compared to known methodologies, such as CoMFA and CoMSIA, because it expands the search space of possible solutions, and in this way increases the chances of obtaining relevant models. Additionally, approaches for select variables (dimension reduction) were implemented in the tool. To evaluate its potentials, experiments were carried out to compare results obtained from the proposed 3D-QSARpy tool with the results from already published works. The results demonstrated that 3D-QSARpy is extremely useful in the field due to its expressive results.


Subject(s)
Drug Design , Quantitative Structure-Activity Relationship , Machine Learning/classification , Costs and Cost Analysis/classification , Health Services Needs and Demand/classification
4.
China Journal of Chinese Materia Medica ; (24): 2868-2875, 2023.
Article in Chinese | WPRIM | ID: wpr-981421

ABSTRACT

With the advances in medicine, people have deeply understood the complex pathogenesis of diseases. Revealing the mechanism of action and therapeutic effect of drugs from an overall perspective has become the top priority of drug design. However, the traditional drug design methods cannot meet the current needs. In recent years, with the rapid development of systems biology, a variety of new technologies including metabolomics, genomics, and proteomics have been used in drug research and development. As a bridge between traditional pharmaceutical theory and modern science, computer-aided drug design(CADD) can shorten the drug development cycle and improve the success rate of drug design. The application of systems biology and CADD provides a methodological basis and direction for revealing the mechanism and action of drugs from an overall perspective. This paper introduces the research and application of systems biology in CADD from different perspectives and proposes the development direction, providing reference for promoting the application.


Subject(s)
Humans , Systems Biology , Drug Design , Drug Development , Genomics , Medicine
5.
RECIIS (Online) ; 16(2): 366-387, abr.-jun. 2022. ilus, graf
Article in Portuguese | LILACS | ID: biblio-1378397

ABSTRACT

Doenças negligenciadas impõem um fardo humano, social e econômico devastador a mais de um bilhão de pessoas em todo o mundo. Embora existam ferramentas para controlar e até mesmo eliminar muitas dessas doenças, novos produtos terapêuticos precisam urgentemente ser desenvolvidos. Este artigo se baseia em um estudo que buscou quantificar e caracterizar a produção científica global sobre desenvolvimento de novos medicamentos para doenças negligenciadas, por meio de uma análise bibliométrica. De modo a investigar a pesquisa relacionada ao desenvolvimento de novos medicamentos para as doenças negligenciadas em âmbito global na última década, foi utilizada a base de dados Scopus. Observou-se aumento da produção de conhecimento sobre o tema, com relevante participação de autores, instituições e financiamento brasileiros, sobretudo de instituições públicas. Contudo, os esforços realizados têm sido insuficientes, sendo necessária a implementação de estratégias futuras de pesquisa e de financiamento que propiciem maior produção científica e uma tradução da pesquisa básica para a prática clínica.


Neglected diseases impose a devastating human, social, and economic burden on more than one billion people worldwide. While tools exist to control and even eliminate many of these diseases, new therapeutic products urgently need to be developed. This article is based on a study that sought to quantify and characterize the global scientific production on new drug development for neglected diseases through a bibliometric analysis. The Scopus database was used to investigate the research related to the development of new drugs for neglected diseases globally in the last decade. An increase in the production of knowledge about the theme and the relevant participation of Brazilian authors, institutions and funding, especially from public institutions were observed. However, their efforts have been insufficient, and the implementation of future research and funding strategies that provide greater scientific production and a translation of basic research into clinical practice is necessary.


Las enfermedades desatendidas imponen una carga humana, social y económica devastadora a más de mil millones de personas en todo el mundo. A pesar de haber herramientas para controlar y incluso eliminar muchas de estas enfermedades, es necesario desarrollar con urgencia nuevos productos terapéuticos. Este artículo se basa en un estudio lo cual ha buscado cuantificar y caracterizar la producción científica global sobre el desarrollo de nuevos fármacos para enfermedades desatendidas, a través de un análisis bibliométrico. Para inspeccionar investigaciones relacionadas con el desarrollo de nuevos medicamentos para enfermedades desatendidas en ámbito mundial durante la última década se utilizó la base de datos Scopus. Hubo un aumento de la producción de conocimiento sobre el tema, con una participación relevante de autores, instituciones y financiamiento brasileños, especialmente de instituciones públicas. Sin embargo, los esfuerzos realizados siguen siendo insuficientes, requiriendo la implementación de futuras estrategias de investigación y financiamiento que propicien una mayor producción científica y una traducción de la investigación básica a la práctica clínica.


Subject(s)
Humans , Drug Design , Bibliometrics , Scientific Research and Technological Development , Neglected Diseases , Drug Development , Research Design , Therapeutics , Analysis of Situation , Research Financing
6.
Braz. J. Pharm. Sci. (Online) ; 58: e20030, 2022. graf
Article in English | LILACS | ID: biblio-1403680

ABSTRACT

Abstract N-(9,13b-dihydro-1H-dibenzo[c,f]imidazo[1,5-a]azepin-3-yl)-2-hydroxybenzamide (DDIAHB) is a new drug developed through molecular modelling and rational drug design by the molecular association of epinastine and salicylic acid. The present study was designed to assess the possible antinociceptive effects of DDIAHB on different pain models in male ICR mice. DDIAHB exerted the reductions of writhing numbers and pain behavior observed during the second phase in the formalin test in a dose-dependent manner. Moreover, DDIAHB increased the latency in the hot-plate test in a dose-dependent manner. Furthermore, intragastric administration DDIAHB caused reversals of decreased pain threshold observed in both streptozotocin-induced diabetic neuropathy and vincristine-induced peripheral neuropathy models. Additionally, intragastric pretreatment with DDIAHB also caused reversal of decreased pain threshold observed in monosodium urate-induced pain model. We also characterized the possible signaling molecular mechanism of the antinociceptive effect-induced by DDIAHB in the formalin model. DDIAHB caused reductions of spinal iNOS, p-STAT3, p-ERK and p-P38 levels induced by formalin injection. Our results suggest that DDIAHB shows an antinociceptive property in various pain models. Moreover, the antinociceptive effect of DDIAHB appear to be mediated by the reductions of the expression of iNOS, p-STAT3, p-ERK and p-P38 levels in the spinal cord in the formalin-induced pain model.


Subject(s)
Animals , Male , Mice , Pain Measurement , Analgesics/adverse effects , Organization and Administration , Pain/classification , Spinal Cord/abnormalities , Pharmaceutical Preparations/administration & dosage , Drug Design , Dosage
7.
Braz. J. Pharm. Sci. (Online) ; 58: e19704, 2022. tab, graf
Article in English | LILACS | ID: biblio-1384007

ABSTRACT

Abstract Due to the fact that different isoforms of carbonic anhydrase play distinct physiological roles, their diseases/disorders involvement are different as well. Involvement in major disorders such as glaucoma, epilepsy, Alzheimer's disease, obesity and cancers, have turned carbonic anhydrase into a popular case study in the field of rational drug design. Since carbonic anhydrases are highly similar with regard to their structures, selective inhibition of different isoforms has been a significant challenge. By applying a proteochemometrics approach, herein the chemical interaction space governed by acyl selenoureido benzensulfonamides and human carbonic anhydrases is explored. To assess the validity, robustness and predictivity power of the proteochemometrics model, a diverse set of validation methods was used. The final model is shown to provide valuable structural information that can be considered for new selective inhibitors design. Using the supplied information and to show the applicability of the constructed model, new compounds were designed. Monitoring of selectivity ratios of new designs shows very promising results with regard to their selectivity for a specific isoform of carbonic anhydrase.


Subject(s)
Selenium/agonists , Drug Design , Carbonic Anhydrases/analysis , Carbonic Anhydrases/adverse effects , Protein Isoforms , Epilepsy/pathology , Alzheimer Disease/pathology , Neoplasms/pathology
8.
São Paulo; s.n; s.n; 2022. 113 p. tab, graf, ilus.
Thesis in Portuguese | LILACS | ID: biblio-1415035

ABSTRACT

As doenças negligenciadas são causadas por agentes infecciosos e parasitários, como vírus, bactérias, protozoários e helmintos. Essas doenças são prevalentes em populações de baixa renda que vivem em países em desenvolvimento e são responsáveis por incapacitar e levar milhares de pessoas à morte. Este nome se dá pois, apesar de sua grande relevância médica, recebem pouca atenção dos governos e indústrias farmacêuticas. Dentre essas doenças podemos destacar a Doença de Chagas, doença infecciosa causada pelo parasita hemoflagelado Trypanosoma cruzi. Endêmica em 21 países, com 6 a 7 milhões de pessoas infectadas resultando em 7500 mortes por ano. A quimioterapia disponível contra essa parasitose é baseada em apenas dois medicamentos, o benznidazol e o nifurtimox, ativos principalmente na fase aguda da doença e com efeitos adversos graves que comprometem a adesão ao tratamento e, além disso, apesar dos enormes esforços na pesquisa de novos agentes antichagásicos em nível nacional e internacional, na maioria realizada academicamente, ainda não foram encontradas alternativas terapêuticas para a doença, persistindo, assim, a necessidade de descoberta e desenvolvimento de novos fármacos. O início de um planejamento de um novo fármaco se dá pela definição de um alvo bioquímico a ser utilizado na busca de moléculas que possam exercer a função de inibidores ou moduladores, conforme a atividade biológica desejada. Neste sentido, as sirtuínas 2 (Sir2) são enzimas que se mostraram essenciais para o crescimento in vitro do T. cruzi em suas formas amastigota e epimastigota. No caso de tripanossomatídeos, em geral, a superexpressão de Sir2 está relacionada à sobrevivência de formas amastigotas. Assim, essas evidências indicam que a Sir2 de tripanosomatídeos tem grande potencial como alvo biológico na busca e desenvolvimento de novos fármacos antichagásicos. O objetivo principal deste projeto foi identificar moléculas que apresentaram atividade inibitória para a sirtuína 2 de T. cruzi por meio da utilização da estratégia de Planejamento de Fármacos Baseada no Ligante - Ligand Based Drug Design (LBDD) e o desenvolvimento de análogos dos inibidores da Sir2. A modificação molecular está entre algumas das técnicas tradicionais usadas no desenvolvimento racional de um fármaco, e é usada principalmente no desenvolvimento de análogos, e busca melhorar as propriedades farmacocinéticas e/ou farmacodinâmicas de um protótipo, obter propriedades de interação semelhantes ao alvo e, em alguns casos, revelar uma atividade biológica. Com este intuito, análogos do sirtinol e da salermida foram sintetizados e uma nova rota sintética utilizando o microrreator em fluxo contínuo foi desenvolvida e apresentou rendimento superior quando comparado à síntese em bancada. A partir desta metodologia foram obtidos 20 compostos. Os ensaios in vitro contra formas amastigotas do T. cruzi indicaram que 8 compostos inibiram a atividade parasitária em mais de 50%, na dose de 10 µM, sendo que alguns destes apresentaram maior inibição parasitária quando comparados ao benznidazol, o fármaco de referência e único disponível no Brasil. Com estes resultados preliminares, novos ensaios estão sendo realizados para identificar potência e mecanismo de ação destes candidatos a agentes tripanomicidas


Neglected diseases are caused by infectious and parasitic agents such as viruses, bacteria, protozoa and helminths. These diseases are prevalent in low-income populations living in developing countries and are responsible for disabling and killing thousands of people. They get this name because, despite their great medical relevance, they end up receiving little attention from governments and pharmaceutical industries. Among these diseases, we can highlight Chagas disease, an infectious endemic disease caused by the hemoflagellate parasite Trypanosoma cruzi. This disease is endemic in 21 countries, with 6 to 7 million people infected resulting in 7,500 deaths per year. Chemotherapy is based on just two drugs, benznidazole and nifurtimox, which are mainly active in the acute phase of the disease. These drugs have adverse effects that compromise adherence, even more, considering that they are not effective from the point of view of the chronic phase of the disease. Despite the enormous efforts in researching new anti-chagasic agents at the national and international level, and mostly carried out academically, therapeutic alternatives for the disease have not yet been found, thus, the need for the discovery and development of new drugs persists. Sirtuins 2 (Sir2) are enzymes that have been shown to be essential for the in vitro growth of T. cruzi in its amastigote and epimastigote forms. In the case of trypanosomatids in general, Sir2 overexpression is related to the survival of amastigote forms. Sir2 inhibitors, such as sirtinol, have shown efficacy in leishmanicides. Thus, these evidences indicate that Sir2 from trypanosomatids can be considered as a biological target in the search and development of new anti-chagasic drugs. The beginning of a new drug planning study is the definition of a biochemical target to be used in the search for molecules that can play the role of inhibitors or modulators, according to the desired biological activity. The main objective of this project was to identify molecules that presented inhibitory activity to sirtuin 2 of T. cruzi using the Ligand Based Drug Design (LBDD) strategy of planning and the development of analogues of Sir2 inhibitors. Molecular modification is a traditional technique used in the rational development of a drug, as well as the use of natural products, combinatorial chemistry, high-throughput screening (HTS), among others. Mainly used in the development of analogues, molecular modification is applied for different purposes, among them, it seeks to improve the pharmacokinetic and/or pharmacodynamic properties of a prototype, obtain target-like interaction properties and, in some cases, reveal an activity biological. For this purpose, analogues of sirtinol and salermide were synthesized and a new synthetic route using the microreactor in continuous flow was developed and presented superior yield when compared to benchtop synthesis. From this methodology, 20 compounds were obtained. in vitro assays against amastigote forms of T. cruzi indicated that 8 compounds inhibited parasitic activity by more than 50% at a dose of 10 µM, and some of these showed greater parasitic inhibition when compared to benznidazole, the reference drug, and only available in Brazil. With these preliminary results, new assays are being carried out to identify the potency and mechanism of action of these candidate trypanocidal agents


Subject(s)
Pharmaceutical Preparations/analysis , Chemistry , Health Strategies , Drug Therapy/classification , Sirtuin 2/antagonists & inhibitors , In Vitro Techniques/methods , Drug Design , Continuous Flow , Communicable Diseases/complications , Chagas Disease/pathology , Endemic Diseases/prevention & control , Drug-Related Side Effects and Adverse Reactions , Methodology as a Subject , High-Throughput Screening Assays/instrumentation , Neglected Diseases/complications , Epigenomics/classification , Treatment Adherence and Compliance
9.
Journal of Biomedical Engineering ; (6): 1247-1253, 2022.
Article in Chinese | WPRIM | ID: wpr-970664

ABSTRACT

Antimicrobial peptides (AMPs) are a class of peptides widely existing in nature with broad-spectrum antimicrobial activity. It is considered as a new alternative to traditional antibiotics because of its unique mechanism of antimicrobial activity. The development and application of natural AMPs are limited due to their drawbacks such as low antimicrobial activity and unstable metabolism. Therefore, the design and optimization of derived peptides based on natural antimicrobial peptides have become recent research hotspots. In this paper, we focus on ribosomal AMPs and summarize the design and optimization strategies of some related derived peptides, which include reasonable primary structure modification, cyclization strategy and computer-aided strategy. We expect to provide ideas for the design and optimization of antimicrobial peptides and the development of anti-infective drugs through analysis and summary in this paper.


Subject(s)
Antimicrobial Cationic Peptides/chemistry , Antimicrobial Peptides , Drug Design , Anti-Infective Agents/pharmacology , Anti-Bacterial Agents
10.
China Journal of Chinese Materia Medica ; (24): 1942-1954, 2022.
Article in Chinese | WPRIM | ID: wpr-928191

ABSTRACT

Angelicae Sinensis Radix excels in activating blood, but the scientific mechanism has not been systematically analyzed, thus limiting the development of the medicinal. This study employed the computer-aided drug design methods, such as structural similarity-based target reverse prediction, complex network analysis, molecular docking, binding free energy calculation, cluster analysis, and ADMET(absorption, distribution, metabolism, excretion, toxicity) calculation, and enzyme activity assay in vitro, to explore the components and mechanism of Angelicae Sinensis Radix in activating blood. Target reverse prediction and complex network analysis yielded 40 potential anticoagulant targets of the medicinal. Gene Ontology(GO) term enrichment and Kyoto Encyclopedia of Genes and Genomes(KEGG) pathway enrichment analysis indicated that the targets mainly acted on the complement and coagulation cascade signaling pathway to exert the anticoagulant function. Among them, the key enzymes thrombin(THR) and coagulation factor Xa(FXa) in coagulation cascade and thrombosis were the drug targets for thromboembolic diseases. At the same time, molecular docking and cluster analysis showed that the medicinal had high selectivity for FXa. According to binding free energy score, 8 potential active components were selected for enzyme activity assay in vitro. The results demonstrated that 8 components inhibited THR and FXa, and the inhibition was stronger on FXa than on THR. The pharmacophore model of 8 active compounds was constructed, which suggested that the components had the common pharmacophore AAHH. The ADMET calculation result indicated that they had good pharmacokinetic properties and were safe. Based on target reverse prediction, complex network analysis, molecular docking and binding free energy calculation, anticoagulant activity in vitro, spatial binding conformation of molecules and targets, pharmacophore model construction, and ADMET calculation, this study preliminarily clarified the material basis and molecular mechanism of Angelicae Sinensis Radix in activating blood from the perspective of big data, and calculated the pharmacology and toxicology parameters of the active components. Our study, for the first time, revealed that the medicinal had obvious selectivity and pertinence for different coagulation proteins, reflecting the unique effect of different Chinese medicinals and the biological basis. Therefore, this study can provide clues for precision application of Angelicae Sinensis Radix and the development of the blood-activating components with modern technology.


Subject(s)
Anticoagulants/pharmacology , Blood Coagulation , Drug Design , Drugs, Chinese Herbal/pharmacology , Molecular Docking Simulation
11.
Cienc. tecnol. salud ; 9(2)2022. il 27
Article in Spanish | LILACS, DIGIUSAC, LIGCSA | ID: biblio-1416678

ABSTRACT

La obtención de información estructural tridimensional de una proteína es de suma importancia en campos tan variados como la bioquímica funcional, las ciencias de materiales o biomédicas. Siendo actualmente la difracción de rayos X de monocristal el estándar de oro para la consecución de este objetivo, la obtención de dicho monocristal sigue siendo un cuello de botella desde el punto de vista práctico, y poco entendido desde el punto de vista teórico. En este artículo se revisa desde la perspectiva estructural de la proteína la forma en que los rayos X permiten obtener la información estructural y las condiciones fisicoquímicas que permiten la formación de un cristal adecuado para estos experimentos.


Obtaining three-dimensional structural information of a protein is of utmost importance in various fields such as functional biochemistry, materials science, or biomedical sciences. Even though single crystal X-ray diffraction is currently the gold standard for this purpose, growing said single crystal is still a bottleneck from a practical viewpoint, and not fully understood from a theoretical point of view. In this article, we review, from a protein structure perspective, the way X-rays provide structural information, and the physicochemical conditions that promote the formation of an adequate crystal for these experiments.


Subject(s)
X-Ray Diffraction/methods , Proteins/pharmacology , Protein Structural Elements , Biochemistry , Drug Design , Amino Acids
12.
Batna Journal of Medical Sciences (online) ; 9(2): 53-56, 2022. figures, tables
Article in English | AIM | ID: biblio-1412158

ABSTRACT

The emergence of certain bacterial strains resistant to antibiotics has become a major public health problem, hence the need to develop new antibiotic molecules. Bacterial DNA gyrase, a type II DNA topoisomerase found in all bacteria is a proven target for antibacterial chemotherapy. Our objective is designing novel DNA Gyrase inhibitors using Quantitative StructureActivity Relationships and Structure-Based Drug Design Approaches. We used bioinformatics tools, biological databases like PDB (Protein DataBank), Binding Databases and software's like, MarvinView, MarvinSketch, PyMOL, AutoDockTools-1.5.6. The 3D crystal structure of DNA Gyrase was extracted from PDB (code: 4DHU) and we characterized the active site. Using 83 compounds with different Ki were extracted from Binding Databases, we built and validated a QSAR Model (PLS regression) and we confirmed the interesting correlation between predicted and experimental Ki (R2=0,843). Four molecules were chosen to be docked into DNA Gyrase active site using AutoDockTools. The compound which has the low Ki (Benzimidazole urea analogue 5) shows more binding affinity with score value of ΔG= -8,6 kcal/mol than the others compounds. So, it would be very interesting to synthesis this promising compound and to test in vitro its antibacterial properties.


Subject(s)
DNA, Bacterial , Drug Design , DNA Gyrase , Quantitative Structure-Activity Relationship , Anti-Bacterial Agents
13.
China Journal of Chinese Materia Medica ; (24): 6130-6138, 2021.
Article in Chinese | WPRIM | ID: wpr-921771

ABSTRACT

The effective material basis of Chinese medicine is the key and difficult point in the quality control and modernization research of Chinese medicine. With the increasing application of pharmacophore-based virtual screening in computer-aided drug design, it is possible to employ this technology in the modernization of Chinese medicine. Based on the systematic research method of the pharmacophore model, the present study systematically reviewed the pharmacophore-based technologies and strategies in the identification of active components in Chinese medicine.


Subject(s)
Drug Design , Drugs, Chinese Herbal , Medicine, Chinese Traditional
14.
Cienc. tecnol. salud ; 7(3): 347-362, 26 de noviembre 2020. ^c27 cmilus
Article in Spanish | LILACS, DIGIUSAC, LIGCSA | ID: biblio-1141471

ABSTRACT

El reposicionamiento de fármacos como la derivatización química, que se han aplicado en los estudios de descubrimiento y diseño de fármacos contra el SARS-CoV-2, dependen del ciclo de vida del virus, las dianas moleculares identificadas y un diseño basado en su estructura e interacciones moleculares. Se realizó una revisión extensa en las bases de datos públicas e institucionales RSCB-Protein Data Bank, ZINC, NCBI (PubMed, PMC), PubChem, Science Direct e instituciones como CDC, NIH y revistas científicas especializadas sobre los avances en la búsqueda de nuevas moléculas contra el nuevo coronavirus basadas en estudios in silico, detectándose más de 40,000 publicaciones sobre SARS-CoV-2 y cerca de 200 relacionadas a dichos estudios, las consideradas más relevantes fueron analizadas e incluidas en este artículo. Su análisis evidencia el avance acelerado de las herramientas computacionales y fortaleza del diseño de fármacos asistido por computadora (in silico approach) para la generación de nuevas moléculas con posibilidad de ser activas contra COVID-19 y presenta las principales dianas moleculares sobre la que actúan estos agentes con potencial antiviral.


The search of new applications for approved drugs by the regulatory authorities around the world, as well as their chemical derivatization in the search for new and effective drugs against SARS-CoV-2 depends of the viral life cycle, action of the drug and a receptor-based design. We performed a deep bibliographic research in peer reviewed scientific journals, data bases RSCB-Protein Data Bank, ZINC, NCBI (PubMed, PMC), PubChem, Science Direct and institutions (CDC, NIH) in the search of new molecules tested in silico against the novel coronavirus. As a result, we found more than 40,000 research papers related to SARS-CoV-2 and nearby 200 look on in silico studies, taking into consideration for this work all the more relevant for us, evidenced the accelerated advance and strength of the drug design assisted by computer (in silico approach) to develop new molecules that can be effective against COVID-19 and, at the same time, it exposes the main molecular targets.


Subject(s)
Humans , Computer Simulation , Coronavirus Infections/therapy , Betacoronavirus , SARS-CoV-2 , Antiviral Agents/analysis , Pharmaceutical Preparations/analysis , Drug Design , COVID-19
15.
Journal of Zhejiang University. Medical sciences ; (6): 1-19, 2020.
Article in Chinese | WPRIM | ID: wpr-828529

ABSTRACT

Cullin-RING E3 ligases (CRLs) are the major components of ubiquitin-proteasome system, responsible for ubiquitylation and subsequent degradation of thousands of cellular proteins. CRLs play vital roles in the regulation of multiple cellular processes, including cell cycle, cell apoptosis, DNA replication, signalling transduction among the others, and are frequently dysregulated in many human cancers. The discovery of specific neddylation inhibitors, represented by MLN4924, has validated CRLs as promising targets for anti-cancer therapies with a growing market. Recent studies have focused on the discovery of the CRLs inhibitors by a variety of approaches, including high through-put screen, virtual screen or structure-based drug design. The field is, however, still facing the major challenging, since CRLs are a large multi-unit protein family without typical active pockets to facilitate the drug design, and enzymatic activity is mainly dependent on undruggable protein-protein interactions and dynamic conformation changes. Up to now, most reported CRLs inhibitors are aiming at targeting the F-box family proteins (e.g., SKP2, β-TrCP and FBXW7), the substrate recognition subunit of SCF E3 ligases. Other studies reported few small molecule inhibitors targeting the UBE2M-DCN1 interaction, which specifically inhibits CRL3/CRL1 by blocking the cullin neddylation. On the other hand, several CRL activators have been reported, such as plant auxin and immunomodulatory imide drugs, thalidomide. Finally, proteolysis-targeting chimeras (PROTACs) has emerged as a new technology in the field of drug discovery, specifically targeting the undruggable protein-protein interaction. The technique connects the small molecule that selectively binds to a target protein to a CRL E3 via a chemical linker to trigger the degradation of target protein. The PROTAC has become a hotspot in the field of E3-ligase-based anti-cancer drug discovery.


Subject(s)
Humans , Antineoplastic Agents , Pharmacology , Therapeutic Uses , Drug Design , Drug Discovery , Enzyme Inhibitors , Pharmacology , Therapeutic Uses , Neoplasms , Ubiquitin-Protein Ligases , Metabolism , Ubiquitination
16.
Arch. endocrinol. metab. (Online) ; 63(6): 601-607, Nov.-Dec. 2019. tab
Article in English | LILACS | ID: biblio-1055017

ABSTRACT

ABSTRACT Growth hormone therapy with daily injections of recombinant human growth hormone has been available since 1985, and is shown to be safe and effective treatment for short stature in children and for adult growth hormone deficiency. In an effort to produce a product that would improve patient adherence, there has been a strong effort from industry to create a long acting form of growth hormone to ease the burden of use. Technologies used to increase half-life include depot formulations, PEGylated formulations, pro-drug formulations, non-covalent albumin binding growth hormone and growth hormone fusion proteins. At present, two long acting formulations are on the market in China and South Korea, and several more promising agents are under clinical investigation at various stages of development throughout the world. Arch Endocrinol Metab. 2019;63(6):601-7


Subject(s)
Humans , Child , Adult , Human Growth Hormone/administration & dosage , Growth Disorders/drug therapy , Drug Administration Schedule , Drug Design , Chemistry, Pharmaceutical , Human Growth Hormone/pharmacokinetics , Human Growth Hormone/chemistry , Delayed-Action Preparations
17.
Rev. peru. med. exp. salud publica ; 36(3): 414-422, jul.-sep. 2019. tab, graf
Article in Spanish | LILACS | ID: biblio-1058748

ABSTRACT

RESUMEN Objetivos. Diseñar y evaluar una proteína multiepítope como candidato a vacuna contra la enfermedad de Carrión. Materiales y métodos. Mediante herramientas bioinformáticas se seleccionó epítopes de proteínas de membrana externa y se diseñó una proteína multiepítope. El gen de la proteína multiepítope fue subclonado en el plásmido de expresión pET28b y transformado en E. coli BL21 pLys. La proteína multiepítope fue expresada usando isopropil-β-D-1-tiogalactopiranósido y purificada usando resina. Esta proteína purificada fue utilizada para inmunizar ratones BALB/c y se obtuvo anticuerpos policlonales. Se realizaron ensayos de invasión in vitro usando una cepa de Bartonella bacilliformis (B. bacilliformis) a eritrocitos humanos. Resultados. La proteína multiepítope M1 presenta epítopes conservados entre aislamientos de B. bacilliformis, no tóxicos, no homólogos a proteínas humanas y superficiales. Los ratones inmunizados presentaron niveles de anticuerpos IgG capaces de reducir in vitro la tasa de invasión de B. bacilliformis a eritrocitos humanos. Conclusiones. La proteína multiepítope M1 podría servir como candidato a vacuna contra la enfermedad de Carrión; sin embargo, se requiere de más estudios para caracterizar el uso de este antígeno como vacuna.


ABSTRACT Objectives. To design and assess a multiepitopic protein as a candidate for a vaccine against Carrion disease. Materials and Methods. Using bioinformatics tools, epitopes of external membrane proteins were selected and a multiepitopic protein was designed. The multiepitopic protein gene was subcloned into the expression plasmid pET28b and transformed into E. coli BL21 pLys. The multiepitopic protein was expressed using isopropyl-β-D-1-thiogalactopyranoside and purified using resin. This purified protein was used to immunize BALB/c mice obtaining polyclonal antibodies. In vitro invasion assays were conducted using a strain of Bartonella bacilliformis (B. bacilliformis) in human red blood cells. Results. The multiepitopic protein M1 presents preserved epitopes between isolates of B. bacilliformis with are non-toxic, and not homologous to human and surface proteins. Immunized mice presented IgG antibody levels capable of reducing in vitro the rate of invasion of B. bacilliformis into human red blood cells. Conclusions. Multiepitopic protein M1 may serve as a candidate for a Carrion disease vaccine; however, more studies are needed to characterize the use of this antigen as a vaccine.


Subject(s)
Animals , Female , Bacterial Proteins/biosynthesis , Bartonella Infections/prevention & control , Bacterial Vaccines/biosynthesis , Drug Design , Computational Biology , Mice, Inbred BALB C , Epitopes
18.
Rio de Janeiro; s.n; 2019. 111 p. ilus.
Thesis in Portuguese | LILACS | ID: biblio-1047181

ABSTRACT

O câncer de pulmão é a principal causa de morte relacionada ao câncer no mundo. Entre os seus subtipos, o câncer de pulmão de células não-pequenas (CPCNP) é o mais frequente. Apesar dos tratamentos disponíveis, a taxa de sobrevida ainda é baixa para este subtipo, enfatizando a necessidade de novas alternativas terapêuticas. Recentemente, a isoforma mitocondrial da enzima fosfoenolpiruvato carboxiquinase (HsPEPCK-M) foi apontada como responsável pela adaptação metabólica no CPCNP capaz de permitir o crescimento tumoral mesmo em condições de deficiência de glicose. Esta adaptação é possível devido a função da HsPEPCK-M na gliconeogênese, convertendo o oxaloacetato em fosfoenolpiruvato na presença de GTP, o que representa um papel importante no suporte energético desses tumores. Neste contexto, foi demonstrado que a inibição ou knockdown desta enzima foi capaz de induzir a apoptose em CPCNP em condições de baixa glicose. Estes dados realçam a importância de identificar inibidores eficazes para HsPEPCK-M que possam, potencialmente, se tornar uma alternativa para o tratamento do CPCNP


Neste estudo, novos inibidores putativos foram propostos para a PEPCK-M humana (HsPEPCK-M) com base em uma abordagem guiada por computador, incluindo a modelagem de farmacóforo baseada em estrutura e triagem por atracamento molecular. As hipóteses de farmacóforo geradas foram utilizadas para a triagem virtual do conjunto de compostos naturais do banco ZINC, produzindo 7.124 compostos candidatos. Estes foram submetidos à estudos de atracamento molecular utilizando três conformações de HsPEPCK-M geradas por modelagem comparativa. O objetivo foi selecionar compostos com alta afinidade de ligação predita em relação a pelo menos uma das conformações de HsPEPCK-M. Após o atracamento molecular, 612 moléculas foram selecionadas como potenciais inibidores de HsPEPCK-M. Estes compostos foram então agrupados de acordo com sua similaridade estrutural. A análise do perfil químico e as análises do modo de ligação destes compostos permitiram a proposta de quatro compostos promissores: ZINC01656421, ZINC895296, ZINC00895535 e ZINC02571340. Estes compostos podem ser considerados potenciais candidatos a inibidores de HsPEPCK-M e também podem ser utilizados como compostos líderes para o desenvolvimento de novos inibidores de HsPEPCK-M. (AU)


Subject(s)
Humans , Phosphoenolpyruvate Carboxykinase (GTP) , Drug Design , Lung Neoplasms
19.
Mem. Inst. Oswaldo Cruz ; 114: e180465, 2019. tab, graf
Article in English | LILACS | ID: biblio-984757

ABSTRACT

BACKGROUND Owing to increased spending on pharmaceuticals since 2010, discussions about rising costs for the development of new medical technologies have been focused on the pharmaceutical industry. Computational techniques have been developed to reduce costs associated with new drug development. Among these techniques, virtual high-throughput screening (vHTS) can contribute to the drug discovery process by providing tools to search for new drugs with the ability to bind a specific molecular target. OBJECTIVES In this context, Brazilian malaria molecular targets (BraMMT) was generated to execute vHTS experiments on selected molecular targets of Plasmodium falciparum. METHODS In this study, 35 molecular targets of P. falciparum were built and evaluated against known antimalarial compounds. FINDINGS As a result, it could predict the correct molecular target of market drugs, such as artemisinin. In addition, our findings suggested a new pharmacological mechanism for quinine, which includes inhibition of falcipain-II and a potential new antimalarial candidate, clioquinol. MAIN CONCLUSIONS The BraMMT is available to perform vHTS experiments using OCTOPUS or Raccoon software to improve the search for new antimalarial compounds. It can be retrieved from www.drugdiscovery.com.br or download of Supplementary data.


Subject(s)
Humans , Computational Biology/organization & administration , Molecular Docking Simulation , Drug Design
20.
Frontiers of Medicine ; (4): 277-284, 2019.
Article in English | WPRIM | ID: wpr-771310

ABSTRACT

The development of new proton-pump inhibitors (PPIs) with less adverse effects by lowering the pKa values of nitrogen atoms in pyrimidine rings has been previously suggested by our group. In this work, we proposed that new PPIs should have the following features: (1) number of ring II = number of ring I + 1; (2) preferably five, six, or seven-membered heteroatomic ring for stability; and (3) 1 < pKa1 < 4. Six molecular scaffolds based on the aforementioned criteria were constructed, and R groups were extracted from compounds in extensive data sources. A virtual molecule dataset was established, and the pKa values of specific atoms on the molecules in the dataset were calculated to select the molecules with required pKa values. Drug-likeness screening was further conducted to obtain the candidates that significantly reduced the adverse effects of long-term PPI use. This study provided insights and tools for designing targeted molecules in silico that are suitable for practical applications.


Subject(s)
Humans , Computer Simulation , Drug Design , Proton Pump Inhibitors , Toxicity , Toxicological Phenomena
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