在RCSB蛋白质数据库中探索实验确定的PDB结构和计算结构模型的更新资源。

Updated resources for exploring experimentally-determined PDB structures and Computed Structure Models at the RCSB Protein Data Bank.

作者信息

Burley Stephen K, Bhatt Rusham, Bhikadiya Charmi, Bi Chunxiao, Biester Alison, Biswas Pratyoy, Bittrich Sebastian, Blaumann Santiago, Brown Ronald, Chao Henry, Chithari Vivek Reddy, Craig Paul A, Crichlow Gregg V, Duarte Jose M, Dutta Shuchismita, Feng Zukang, Flatt Justin W, Ghosh Sutapa, Goodsell David S, Green Rachel Kramer, Guranovic Vladimir, Henry Jeremy, Hudson Brian P, Joy Michael, Kaelber Jason T, Khokhriakov Igor, Lai Jhih-Siang, Lawson Catherine L, Liang Yuhe, Myers-Turnbull Douglas, Peisach Ezra, Persikova Irina, Piehl Dennis W, Pingale Aditya, Rose Yana, Sagendorf Jared, Sali Andrej, Segura Joan, Sekharan Monica, Shao Chenghua, Smith James, Trumbull Michael, Vallat Brinda, Voigt Maria, Webb Ben, Whetstone Shamara, Wu-Wu Amy, Xing Tongji, Young Jasmine Y, Zalevsky Arthur, Zardecki Christine

机构信息

Research Collaboratory for Structural Bioinformatics Protein Data Bank, Rutgers, The State University of New Jersey, Piscataway, NJ 08854, USA.

Institute for Quantitative Biomedicine, Rutgers, The State University of New Jersey, Piscataway, NJ 08854, USA.

出版信息

Nucleic Acids Res. 2025 Jan 6;53(D1):D564-D574. doi: 10.1093/nar/gkae1091.

The Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB, RCSB.org), the US Worldwide Protein Data Bank (wwPDB, wwPDB.org) data center for the global PDB archive, provides access to the PDB data via its RCSB.org research-focused web portal. We report substantial additions to the tools and visualization features available at RCSB.org, which now delivers more than 227000 experimentally determined atomic-level three-dimensional (3D) biostructures stored in the global PDB archive alongside more than 1 million Computed Structure Models (CSMs) of proteins (including models for human, model organisms, select human pathogens, crop plants and organisms important for addressing climate change). In addition to providing support for 3D structure motif searches with user-provided coordinates, new features highlighted herein include query results organized by redundancy-reduced Groups and summary pages that facilitate exploration of groups of similar proteins. Newly released programmatic tools are also described, as are enhanced training opportunities.

结构生物信息学蛋白质数据库研究协作实验室（RCSB PDB，RCSB.org）是全球PDB存档的美国全球蛋白质数据库（wwPDB，wwPDB.org）数据中心，通过其以研究为重点的RCSB.org门户网站提供对PDB数据的访问。我们报告了RCSB.org上可用工具和可视化功能的大量增加，该网站现在提供存储在全球PDB存档中的超过227000个通过实验确定的原子级三维（3D）生物结构，以及超过100万个蛋白质的计算结构模型（CSM）（包括人类、模式生物、选定的人类病原体、农作物和对应对气候变化重要的生物的模型）。除了支持使用用户提供的坐标进行3D结构基序搜索外，本文突出介绍的新功能包括按减少冗余的组组织的查询结果和便于探索相似蛋白质组的汇总页面。还介绍了新发布的编程工具以及增强的培训机会。