IgStrand:一种针对免疫球蛋白 (Ig) 的通用残基编号方案,用于研究Ig蛋白质和Ig相互作用
Caesar Tawfeeq1, Jiyao Wang2, Umesh Khaniya3
1Department of Chemistry and Biochemistry, California State University Northridge, Northridge, California, United States of America.
PLoS computational biology
|April 14, 2025
概括
免疫球蛋白 (Ig) 折叠的新通用编号方案有助于在所有物种中识别和分析Ig域. 这种标准化的方法增强了蛋白质注释,并揭示了隐藏的结构相似性,推进了结构生物学和蛋白质工程.
科学领域:
- 结构生物学 结构生物学
- 生物信息学是一种生物信息学.
- 基因组学就是基因组学.
背景情况:
- 免疫球蛋白 (Ig) 折叠是所有生命领域中普遍存在的蛋白质结构,对细胞识别,粘附和信号传递至关重要.
- 目前对Ig域的分类和注释方法有限,这阻碍了对Ig蛋白质组和Ig-Ig相互作用组的全面分析.
研究的目的:
- 为所有Ig-fold共享域引入一种通用残留物编号方案,即"IgStrand编号方案".
- 为了能够系统地识别,注释和对物种之间的Ig域及其进化关系进行比较分析.
主要方法:
- 基于保留的Ig-fold架构开发了"IgStrand编号方案".
- 在iCn3D软件中实现一个算法来识别,注释和比较Ig域.
- 分析蛋白质结构以识别Ig域,Ig类域和Ig扩展架构.
主要成果:
- 该IgStrand方案有助于识别Ig结构蛋白质和相互作用体,从而实现跨物种的比较分析.
- 该方案揭示了所有Ig域共同的"Ig-fold不可减少的结构特征",无论其拓或来源如何.
- 发现了可疑的结构同质性,包括与其他折叠的共享签名,如果卷,以及Ig扩展架构的识别.
结论:
- 该IgStrand编号方案为系统的蛋白质注释提供了坚实的基础,改善了当前的数据库限制.
- 这种通用方案支持精确的机器学习应用程序,并阐明了贝塔三明治结构的自然蛋白质折叠算法.
- 该方案在蛋白质工程中具有直接应用,通过提供一种标准化的框架来理解和操纵Ig架构.
更多相关视频
06:50Author Spotlight: A Computational Approach to Decipher Amino Acid Preferences in Multispecific Protein-Protein Interactions
Published on: January 26, 2024
913
11:19Label-Free Immunoprecipitation Mass Spectrometry Workflow for Large-scale Nuclear Interactome Profiling
Published on: November 17, 2019
15.9K
相关概念视频
02:47Protein Families
15.2K
Protein families are groups of homologous proteins; that is, they have similarities in amino acid sequences and three-dimensional structures. Protein families usually occur because of gene duplication, where an additional copy of a gene is inserted into the genome of an organism. Mutations that change the amino acids but still allow the protein to be properly synthesized, will lead to new protein family members. If these new proteins contain similar amino acids in key...
15.2K
01:10Antibody Structure
58.1K
Overview
Antibodies, also known as immunoglobulins (Ig), are essential players of the adaptive immune system. These antigen-binding proteins are produced by B cells and make up 20 percent of the total blood plasma by weight. In mammals, antibodies fall into five different classes, which each elicits a different biological response upon antigen binding.
The Y-Shaped Structure of Antibodies Consists of Four Polypeptide Chains
Antibodies consist of four polypeptide chains: two identical heavy...
Antibodies, also known as immunoglobulins (Ig), are essential players of the adaptive immune system. These antigen-binding proteins are produced by B cells and make up 20 percent of the total blood plasma by weight. In mammals, antibodies fall into five different classes, which each elicits a different biological response upon antigen binding.
The Y-Shaped Structure of Antibodies Consists of Four Polypeptide Chains
Antibodies consist of four polypeptide chains: two identical heavy...
58.1K
02:26Protein Networks
3.9K
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,...
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,...
3.9K
01:25Antibody Structure and Classes
658
Antibodies, also known as immunoglobulins, are produced by B cells in response to foreign substances, such as bacteria and viruses. These proteins are critical for recognizing and neutralizing these substances, protecting the body from potential harm.
The basic structure of an antibody consists of four protein chains: two identical heavy chains and two identical light chains. These chains are held together by disulfide bonds and other non-covalent interactions, forming a Y-shaped structure.
The basic structure of an antibody consists of four protein chains: two identical heavy chains and two identical light chains. These chains are held together by disulfide bonds and other non-covalent interactions, forming a Y-shaped structure.
658
02:04Protein-protein Interfaces
12.4K
Many proteins form complexes to carry out their functions, making protein-protein interactions (PPIs) essential for an organism's survival. Most PPIs are stabilized by numerous weak noncovalent chemical forces. The physical shape of the interfaces determines the way two proteins interact. Many globular proteins have closely-matching shapes on their surfaces, which form a large number of weak bonds. Additionally, many PPIs occur between two helices or between a surface cleft and a...
12.4K