PDBe: improved accessibility of macromolecular structure data from PDB and EMDB.
PDBe: improved accessibility of macromolecular structure data from PDB and EMDB.
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DOI：
10.1093/nar/gkv1047
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发表时间：
2016-01-04
影响因子：
14.9
通讯作者：
Kleywegt GJ
中科院分区：
文献类型：
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作者：
Velankar S;van Ginkel G;Alhroub Y;Battle GM;Berrisford JM;Conroy MJ;Dana JM;Gore SP;Gutmanas A;Haslam P;Hendrickx PM;Lagerstedt I;Mir S;Fernandez Montecelo MA;Mukhopadhyay A;Oldfield TJ;Patwardhan A;Sanz-García E;Sen S;Slowley RA;Wainwright ME;Deshpande MS;Iudin A;Sahni G;Salavert Torres J;Hirshberg M;Mak L;Nadzirin N;Armstrong DR;Clark AR;Smart OS;Korir PK;Kleywegt GJ
欧洲蛋白质数据库（pdbe.org）接受并注释PDB和EMDB档案中的大分子结构数据，并以各种方式丰富、整合和传播结构信息。PDBe网站根据对用户需求的分析进行了重新设计，现在可以直观地访问改进和增值的大分子结构信息。独特的增值信息包括引用或提及PDB条目的综述和研究文章列表，以及访问描述PDB条目的全文开放获取出版物中的数字和图例。一个功能强大的新查询系统不仅显示所有与给定查询匹配的PDB条目，而且还使用来自wwPDB验证报告的数据质量信息显示给定大分子，配体复合物或序列家族的“最佳结构”。开发了PDBe RESTful API，以提供对PDB和EMDB档案中可用的大分子结构数据以及增值注释的统一访问，例如关于结构质量和来自SIFTS资源的最新交叉引用信息。总之，这些新的发展促进了非专家用户以直观的方式统一访问大分子结构数据，并支持专家用户分析大分子结构数据。
The Protein Data Bank in Europe (http://pdbe.org) accepts and annotates depositions of macromolecular structure data in the PDB and EMDB archives and enriches, integrates and disseminates structural information in a variety of ways. The PDBe website has been redesigned based on an analysis of user requirements, and now offers intuitive access to improved and value-added macromolecular structure information. Unique value-added information includes lists of reviews and research articles that cite or mention PDB entries as well as access to figures and legends from full-text open-access publications that describe PDB entries. A powerful new query system not only shows all the PDB entries that match a given query, but also shows the ‘best structures’ for a given macromolecule, ligand complex or sequence family using data-quality information from the wwPDB validation reports. A PDBe RESTful API has been developed to provide unified access to macromolecular structure data available in the PDB and EMDB archives as well as value-added annotations, e.g. regarding structure quality and up-to-date cross-reference information from the SIFTS resource. Taken together, these new developments facilitate unified access to macromolecular structure data in an intuitive way for non-expert users and support expert users in analysing macromolecular structure data.