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首页> 外文期刊>Acta crystallographica. Section D, Structural biology >Validation analysis of EMDB entries
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Validation analysis of EMDB entries

机译：验证分析EMDB条目

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The Electron Microscopy Data Bank (EMDB) is the central archive of the electron cryo-microscopy (cryo-EM) community for storing and disseminating volume maps and tomograms. With input from the community, EMDB has developed new resources for the validation of cryo-EM structures, focusing on the quality of the volume data alone and that of the fit of any models, themselves archived in the Protein Data Bank (PDB), to the volume data. Based on recommendations from community experts, the validation resources are developed in a three-tiered system. Tier 1 covers an extensive and evolving set of validation metrics, including tried and tested metrics as well as more experimental ones, which are calculated for all EMDB entries and presented in the Validation Analysis (VA) web resource. This system is particularly useful for cryo-EM experts, both to validate individual structures and to assess the utility of new validation metrics. Tier 2 comprises a subset of the validation metrics covered by the VA resource that have been subjected to extensive testing and are considered to be useful for specialists as well as nonspecialists. These metrics are presented on the entry-specific web pages for the entire archive on the EMDB website. As more experience is gained with the metrics included in the VA resource, it is expected that consensus will emerge in the community regarding a subset that is suitable for inclusion in the tier 2 system. Tier 3, finally, consists of the validation reports and servers that are produced by the Worldwide Protein Data Bank (wwPDB) Consortium. Successful metrics from tier 2 will be proposed for inclusion in the wwPDB validation pipeline and reports. The details of the new resource are described, with an emphasis on the tier 1 system. The output of all three tiers is publicly available, either through the EMDB website (tiers 1 and 2) or through the wwPDB ftp sites (tier 3), although the content of all three will evolve over time (fastest for tier 1 and slowest for tier 3). It is our hope that these validation resources will help the cryo-EM community to obtain a better understanding of the quality and of the best ways to assess the quality of cryo-EM structures in EMDB and PDB.
机译：电子显微镜数据银行(EMDB)是电子cryo-microscopy中心存档(低温电子显微镜)社区来存储和传播卷地图和x线断层照片。社区,EMDB开发了新的资源低温电子显微镜结构的验证,重点量数据的质量的适合的模型,自己存档蛋白质数据库(PDB),体积数据。基于社区专家的建议,验证资源开发的一个三层系统。和发展的验证指标,包括尝试和测试指标,以及更多实验的计算EMDB条目和验证分析(VA)的web资源。低温电子显微镜专家尤其有用,两个验证个体结构和评估效用的新验证指标。包括验证指标的一个子集由弗吉尼亚州资源受到广泛的测试和被认为是为专家以及非常有用非专业人士写的。整个的特定条目相关的网页归档EMDB网站上。获得的指标包括在弗吉尼亚州吗资源,预计会达成共识出现在社区有关的一个子集适用于包含在二级系统。层3,最后,由验证报告和服务器所产生的世界范围内的蛋白质数据银行(wwPDB)财团。成功的从二级指标将被提出列入wwPDB验证管道和报告。描述,强调一级系统。公开所有三层的输出可用,通过EMDB网站(层1和2)或通过wwPDB ftp站点(3级),虽然这三个内容的发展随着时间的推移(一级最快和最慢的层3)。我们希望,这些验证资源将有助于低温电子显微镜社区获得质量和更好的理解最好的方法来评估低温电子显微镜的质量结构在EMDB和PDB。

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