Related Experiment Video
Updated: Sep 17, 2025
08:51
Identification of Mouse and Human Antibody Repertoires by Next-Generation Sequencing
Published on: March 15, 2019
12.6K
SAAINT-DB: a comprehensive structural antibody database for antibody modeling and design.
Xiaoqiang Huang1, Jun Zhou2, Shuang Chen2
1Center for Advanced Models for Translational Sciences and Therapeutics, University of Michigan Medical School, Ann Arbor, MI, 48109, USA. xiaoqiah@umich.edu.
Acta Pharmacologica Sinica
|June 30, 2025
Summary
SAAINT-parser accurately extracts antibody structures and interactions from PDB data. This new computational tool and database (SAAINT-DB) improve upon existing resources like SAbDab for antibody research.
Area of Science:
- Structural Biology
- Immunology
- Bioinformatics
Background:
- Antibody (Ab) structures and antibody-antigen interactions (AAIs) are crucial for immune recognition and therapeutic development.
- Existing structural Ab databases have limitations in data accuracy, completeness, and update frequency.
Purpose of the Study:
- To develop a computational workflow (SAAINT-parser) for rapid, accurate, and robust extraction of Ab and AAI information from the Protein Data Bank (PDB).
- To create an updated and comprehensive database (SAAINT-DB) for antibody structural information.
Main Methods:
- Implementation of SAAINT-parser for precise detection and pairing of Ab chains.
- Reliable identification of antibody-antigen interactions (AAIs) within PDB structures.
- Creation of SAAINT-DB with 19,128 entries from 9757 PDB structures, last updated May 1, 2025.
Main Results:
- SAAINT-DB demonstrates superior data accuracy and completeness compared to SAbDab.
- SAAINT-DB offers nearly double the non-redundant, manually curated Ab-Ag binding affinity entries compared to SAbDab.
- The SAAINT-parser workflow ensures precise Ab chain detection, accurate pairing, and reliable AAI identification.
Conclusions:
- SAAINT-parser and SAAINT-DB provide a valuable, up-to-date resource for antibody research.
- The developed tools enhance the accuracy and completeness of structural antibody data.
- Open access to SAAINT-parser, SAAINT-DB, and processed models facilitates broader scientific advancement.
Related Concept Videos
01:10Antibody Structure
61.4K
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...
61.4K
01:25Antibody Structure and Classes
4.7K
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.
4.7K