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相关概念视频

Induced-fit Model01:13

Induced-fit Model

Most chemical reactions in cells require enzymes—biological catalysts that speed up the reaction without being consumed or permanently changed. They reduce the activation energy needed to convert the reactants into products. Enzymes are proteins, that usually work by binding to a substrate—a reactant molecule that they act upon.
Enzymes exhibit substrate specificity, meaning that they can only bind to certain substrates. This is mainly determined by the shape and chemical characteristics of...
Enzymes02:34

Enzymes

Inside living organisms, enzymes act as catalysts for many biochemical reactions involved in cellular metabolism. The role of enzymes is to reduce the activation energies of biochemical reactions by forming complexes with its substrates. The lowering of activation energies favor an increase in the rates of biochemical reactions.
Enzyme deficiencies can often translate into life-threatening diseases. For example, a genetic abnormality resulting in the deficiency of the enzyme G6PD...
Protein Networks02:26

Protein Networks

An organism can have thousands of different proteins, and these proteins must cooperate to ensure the health of an organism. Proteins bind to other proteins and form complexes to carry out their functions. Many proteins interact with multiple other proteins creating a complex network of protein interactions.
These interactions can be represented through maps depicting protein-protein interaction networks, represented as nodes and edges. Nodes are circles that are representative of a protein,...
Introduction to Mechanisms of Enzyme Catalysis01:13

Introduction to Mechanisms of Enzyme Catalysis

For many years, scientists thought that enzyme-substrate binding took place in a simple "lock-and-key" fashion. This model stated that the enzyme and substrate fit together perfectly in one instantaneous step. However, current research supports a more refined view scientists call induced fit. The induced-fit model expands upon the lock-and-key model by describing a more dynamic interaction between enzyme and substrate. As the enzyme and substrate come together, their interaction causes a mild...
Protein Organization01:24

Protein Organization

Proteins are polymers of amino acid residues. They are versatile and responsible for different cellular functions, including DNA replication, molecular transport, catalysis, and structural support. Proteins have a hierarchical structure comprising at least three levels of organization: primary, secondary, and tertiary structure. Some large proteins have a quaternary structure where individual protein subunits are linked together.
The primary structure of a protein is its amino acid sequence.
Transducer Mechanism: Enzyme-Linked Receptors01:27

Transducer Mechanism: Enzyme-Linked Receptors

Enzyme-linked receptors are cell-surface receptors acting as an enzyme or associating with an enzyme intracellularly. They make excellent drug targets. Drugs can bind to the extracellular ligand-binding domain or directly affect their enzymatic domain and alter their activity.
Major types that are helpful drug targets include:

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相关实验视频

Updated: Jul 8, 2026

A Protocol for Computer-Based Protein Structure and Function Prediction
16:41

A Protocol for Computer-Based Protein Structure and Function Prediction

Published on: November 3, 2011

通过对接高能中间体与酶结构来预测基质.

Johannes C Hermann1, Eman Ghanem, Yingchun Li

  • 1Department of Pharmaceutical Chemistry, University of California, San Francisco, MC 2550, San Francisco, California 94158-2330, USA.

Journal of the American Chemical Society
|December 7, 2006
PubMed
概括

预测酶活性至关重要. 这项研究表明,对接高能中间体可以准确预测酶基质和立体选择性,优于标准方法.

科学领域:

  • 生物化学 生物化学
  • 结构生物学 结构生物学
  • 计算化学计算化学

背景情况:

  • 从蛋白质结构来确定酶功能是一个越来越大的挑战.
  • 基于结构的酶活性预测需要准确的基质识别.

研究的目的:

  • 开发和验证一种使用基于结构的对接来预测酶基质和活性的方法.
  • 为了评估与基底形式相比,对接基底的高能中间形式的有效性.

主要方法:

  • 创建了一个来自KEGG代谢物的高能量过渡状态类似物数据库.
  • 在基态和高能量中间体形式中对接的代谢物转化为氨基酶酶.
  • 使用奇拉基质基质测试了对三酶的酶选择性预测.

主要成果:

  • 与地面状态对接相比,对接高能中间体显著改善了基板歧视.
  • 该方法对20种基质/酶组合中的18种正确预测了立体选择性.
  • 观察到立体选择率和开关的显著差异,并准确地预测了这些差异.

结论:

  • 对接高能中间体是一种可靠的方法,用于预测酶基质和活性.

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Computational Prediction of Amino Acid Preferences of Potentially Multispecific Peptide-Binding Domains Involved in Protein-Protein Interactions
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A Protocol for Computer-Based Protein Structure and Function Prediction
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Published on: November 3, 2011

Analyzing Dynamic Protein Complexes Assembled On and Released From Biolayer Interferometry Biosensor Using Mass Spectrometry and Electron Microscopy
09:30

Analyzing Dynamic Protein Complexes Assembled On and Released From Biolayer Interferometry Biosensor Using Mass Spectrometry and Electron Microscopy

Published on: August 6, 2018

Computational Prediction of Amino Acid Preferences of Potentially Multispecific Peptide-Binding Domains Involved in Protein-Protein Interactions
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Computational Prediction of Amino Acid Preferences of Potentially Multispecific Peptide-Binding Domains Involved in Protein-Protein Interactions

Published on: January 26, 2024

  • 这种方法提高了基于结构的酶功能预测的准确性.
  • 该方法显示了对更广泛的酶应用的希望.