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相关概念视频

Other Glycolytic Pathways01:24

Other Glycolytic Pathways

831
The pentose phosphate pathway (PPP) operates in parallel with glycolysis, facilitating the metabolism of both pentoses and glucose. This pathway consists of two distinct phases: the oxidative and non-oxidative phases. While it does not directly generate ATP, the intermediates formed during the process can integrate into glycolysis, contributing to cellular energy metabolism when required.Oxidative Phase: NADPH ProductionThe oxidative phase of the pentose phosphate pathway is primarily...
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Energy Diagrams, Transition States, and Intermediates02:13

Energy Diagrams, Transition States, and Intermediates

20.1K
Free-energy diagrams, or reaction coordinate diagrams, are graphs showing the energy changes that occur during a chemical reaction. The reaction coordinate represented on the horizontal axis shows how far the reaction has progressed structurally. Positions along the x-axis close to the reactants have structures resembling the reactants, while positions close to the products resemble the products.  Peaks on the energy diagram represent stable structures with measurable lifetimes, while...
20.1K
Free Energy01:21

Free Energy

51.7K
Free energy—abbreviated as G for the scientist Gibbs who discovered it—is a measurement of useful energy that can be extracted from a reaction to do work. It is the energy in a chemical reaction that is available after entropy is accounted for. Reactions that take in energy are considered endergonic and reactions that release energy are exergonic. Plants carry out endergonic reactions by taking in sunlight and carbon dioxide to produce glucose and oxygen. Animals, in turn, break...
51.7K
Glycolysis: Preparatory Phase01:21

Glycolysis: Preparatory Phase

16.5K
In cellular metabolism (the complete breakdown of glucose to extract energy),  glycolysis is the first step. Glycolysis takes place in the cytoplasm of both prokaryotic and eukaryotic cells. Glucose enters heterotrophic cells in two ways. One method is through secondary active transport, where the transport takes place against the glucose concentration gradient. The other mechanism uses a group of integral proteins called GLUT proteins, also known as glucose transporter proteins. These...
16.5K
Glycolysis01:23

Glycolysis

1.6K
Glycolysis, the Embden-Meyerhof pathway, is a central metabolic pathway involved in glucose catabolism. It is highly conserved across most organisms, reflecting its fundamental role in cellular energy production. This process occurs in the cytoplasm and can function both in the presence and absence of oxygen, making it versatile for various organisms and environmental conditions.Stages of GlycolysisGlycolysis is a ten-step pathway that converts glucose into pyruvate, generating a net gain of...
1.6K
Catalytically Perfect Enzymes01:07

Catalytically Perfect Enzymes

4.9K
The theory of catalytically perfect enzymes was first proposed by W.J. Albery and J. R. Knowles in 1976. These enzymes catalyze biochemical reactions at high-speed. Their catalytic efficiency values range from 108-109 M-1s-1. These enzymes are also called 'diffusion-controlled' as the only rate-limiting step in the catalysis is that of the substrate diffusion into the active site. Examples include triose phosphate isomerase, fumarase, and superoxide dismutase.
 
Most enzymes...
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相关实验视频

Updated: Jan 17, 2026

A Web Tool for Generating High Quality Machine-readable Biological Pathways
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A Web Tool for Generating High Quality Machine-readable Biological Pathways

Published on: February 8, 2017

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导航未知:在没有预定义的最终状态的情况下发现最小自由能量路径

Zhicheng Zhong1, Qian Wang1,2

  • 1Department of Physics, University of Science and Technology of China, Hefei, Anhui 230026, China.

Journal of chemical theory and computation
|September 17, 2025
PubMed
概括

研究人员开发了一种新的算法,可以在不需要已知的开始和结束结构的情况下找到蛋白质通路. 该方法使用局部采样进行高效的结构变化分析,特别是当实验数据有限时.

科学领域:

  • 计算生物学 计算生物学
  • 生物物理学的生物物理.
  • 分子动力学分子动力学

背景情况:

  • 蛋白质的结构变化对于生物功能至关重要.
  • 目前用于确定最小自由能量通路 (MFEPs) 的方法通常依赖于实验终点结构,限制了它们的广泛应用.
  • 存在对多功能算法的需求,即使没有预定义的结构终点,也可适用.

研究的目的:

  • 介绍一种新的,可概括的蛋白质构造变化的路径搜索算法.
  • 在MFEP确定中克服对实验终点构造的依赖.
  • 为蛋白质动态的机械学理解提供一个计算工具.

主要方法:

  • 开发一种使用本地采样的新路径搜索算法.
  • 算法从单个状态启动,并自主优化搜索方向.
  • 通过对模型系统的应用和与实验数据和常规模拟的比较进行验证.

主要成果:

  • 这种新的算法成功地确定了MFEP,而不需要先前了解终点结构.
  • 在各种模型系统中证明了有效性.
  • 在特定场景中,性能与传统方法相比或超过.

更多相关视频

Protein WISDOM: A Workbench for In silico De novo Design of BioMolecules
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Protein WISDOM: A Workbench for In silico De novo Design of BioMolecules

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相关实验视频

Last Updated: Jan 17, 2026

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Published on: February 8, 2017

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Protein WISDOM: A Workbench for In silico De novo Design of BioMolecules
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Protein WISDOM: A Workbench for In silico De novo Design of BioMolecules

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Author Spotlight: Tackling Challenges in Synthetic Cell Engineering
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Author Spotlight: Tackling Challenges in Synthetic Cell Engineering

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结论:

  • 新的基于局部采样的算法提供了一种强大且广泛适用的方法来研究蛋白质构造转换.
  • 这种方法增强了对功能相关分子运动的调查,特别是在没有实验结构数据的情况下.
  • 扩大了计算生物物理学家和分子建模人员的工具包.