通过代谢和结构分析,加强药物目标外发现
Sourav Chowdhury1, Daniel C Zielinski2, Christopher Dalldorf2
1Department of Chemistry and Chemical Biology, Harvard University, Cambridge, MA, USA.
Nature communications
|June 9, 2023
概括
确定特定的细胞内药物点是具有挑战性的. 这项研究介绍了一种机器学习工作流程,以精确确定非目标,成功识别HPPK作为抗生素CD15-3的非目标.
科学领域:
- 微生物学 微生物学
- 计算生物学 计算生物学
- 药物发现 药物发现 药物发现
背景情况:
- 识别细胞内药物标是药物发现中的一个重大挑战.
- 机器学习 (ML) 对omics数据的分析提供了一个有希望的途径,但需要精细化以确定特定的目标.
- 了解药物向相互作用对于开发有效治疗方法至关重要.
研究的目的:
- 开发和部署一个分层的工作流程来识别特定的细胞内药物标.
- 为了研究二基叶酸减少酶向抗生素CD15-3.的分子相互作用.
- 改进基于ML的药物标发现方法,重点关注非标识别.
主要方法:
- 采用分层工作流程,结合了代谢学数据分析和生长救援实验.
- 应用机器学习,代谢建模和蛋白质结构相似性,以优先考虑候选目标.
- 进行过度表达和体外活性测试以验证预测的目标.
主要成果:
- 通过使用集成的ML和机械分析,成功确定了候选药物目标的优先级.
- 确定了HPPK (folK) 作为抗生素化合物CD15-3.的确认非标.
- 证明了工作流程在改善药物目标识别解决方案方面的有效性.
结论:
- 开发的层次化工作流程通过将ML与机械洞察整合起来,提高了药物标发现的精度.
- 这种方法有效地识别了像CD15-3这样的代谢抑制剂的非标.
- 将计算方法与实验验证相结合是推动药物标识的关键.
更多相关视频
08:31Biosensor-based High Throughput Biopanning and Bioinformatics Analysis Strategy for the Global Validation of Drug-protein Interactions
Published on: December 1, 2020
5.1K
08:49Incorporating Target Protein Structure Flexibility and Dynamics in Computational Drug Discovery Using Ensemble-Based Docking Analysis
Published on: June 20, 2025
392
相关概念视频
Drug Discovery: Overview
8.1K
Drug discovery is a multifaceted process involving extensive screening, testing, and optimization of lead compounds to identify potential new drugs for therapeutic use. It combines several approaches, including screening large numbers of natural products, chemical modification of known active molecules, identification of new drug targets, and rational design based on biological mechanisms and drug-receptor structure. These approaches are carried out in both academic research laboratories and...
8.1K
Structure-Activity Relationships and Drug Design
800
Drug design is a dynamic field that involves discovering and developing new medications based on specific biological targets. This process heavily relies on structure-activity relationships (SAR) and quantitative structure-activity relationships (QSAR) to guide the design and optimization of efficient drugs.
SAR studies the intricate relationship between a drug's chemical structure and biological activity. It focuses on understanding how modifications to a drug's structure can influence...
SAR studies the intricate relationship between a drug's chemical structure and biological activity. It focuses on understanding how modifications to a drug's structure can influence...
800
Targets for Drug Action: Overview
6.5K
Drugs target macromolecules to modify ongoing cellular processes. Primary drug targets include receptors, ion channels, transporters, and enzymes.
Receptors are either membrane-spanning or intracellular proteins, which upon binding a ligand, get activated and transmit the signal downstream to elicit a response. Drugs bind receptors, either mimicking the action of endogenous ligands or blocking the receptor activity to bring about a modified response. Nearly 35% of approved drugs target the G...
Receptors are either membrane-spanning or intracellular proteins, which upon binding a ligand, get activated and transmit the signal downstream to elicit a response. Drugs bind receptors, either mimicking the action of endogenous ligands or blocking the receptor activity to bring about a modified response. Nearly 35% of approved drugs target the G...
6.5K
Drug Biotransformation: Overview
2.5K
Pharmaceutical substances known as xenobiotics are predominantly lipophilic and nonionized. This enables them to permeate lipid bilayers, such as cell membranes, and interact with intracellular target receptors. Lipophilic drugs have an advantage in crossing biological barriers and reaching their intended sites of action. However, lipophilic drugs often have a restricted capacity for renal expulsion or elimination from the body. When these drugs enter the kidneys and undergo glomerular...
2.5K
Pharmacodynamics: Overview and Principles
1.3K
Pharmacodynamics is a scientific field that delves into drugs' intricate biochemical, cellular, and physiological effects on the human body. The study of pharmacodynamics helps us understand how drugs interact with the body and elicit various responses.
Most drugs' effects result from their interactions with drug receptors or targets within the body. These interactions trigger specific responses at the cellular or systemic level. Drug receptors can be found on the surfaces of cells or...
Most drugs' effects result from their interactions with drug receptors or targets within the body. These interactions trigger specific responses at the cellular or systemic level. Drug receptors can be found on the surfaces of cells or...
1.3K
