EMBL-EBI, The Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1SD, UK.
Database (Oxford). 2012 Feb 1;2012:bar068. doi: 10.1093/database/bar068. Print 2012.
InterPro amalgamates predictive protein signatures from a number of well-known partner databases into a single resource. To aid with interpretation of results, InterPro entries are manually annotated with terms from the Gene Ontology (GO). The InterPro2GO mappings are comprised of the cross-references between these two resources and are the largest source of GO annotation predictions for proteins. Here, we describe the protocol by which InterPro curators integrate GO terms into the InterPro database. We discuss the unique challenges involved in integrating specific GO terms with entries that may describe a diverse set of proteins, and we illustrate, with examples, how InterPro hierarchies reflect GO terms of increasing specificity. We describe a revised protocol for GO mapping that enables us to assign GO terms to domains based on the function of the individual domain, rather than the function of the families in which the domain is found. We also discuss how taxonomic constraints are dealt with and those cases where we are unable to add any appropriate GO terms. Expert manual annotation of InterPro entries with GO terms enables users to infer function, process or subcellular information for uncharacterized sequences based on sequence matches to predictive models. Database URL: http://www.ebi.ac.uk/interpro. The complete InterPro2GO mappings are available at: ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/external2go/interpro2go.
InterPro 将来自多个知名伙伴数据库的预测蛋白特征合并到一个单一资源中。为了帮助解释结果，InterPro 条目使用来自基因本体论（GO）的术语进行手动注释。InterPro2GO 映射由这两个资源之间的交叉引用组成，是蛋白质 GO 注释预测的最大来源。在这里，我们描述了 InterPro 管理员将 GO 术语整合到 InterPro 数据库中的协议。我们讨论了将特定的 GO 术语与可能描述一组多样化蛋白的条目进行整合所涉及的独特挑战，并通过示例说明 InterPro 层次结构如何反映越来越具体的 GO 术语。我们描述了一个修订后的 GO 映射协议，使我们能够根据单个域的功能而不是域所在家族的功能将 GO 术语分配给域。我们还讨论了如何处理分类约束以及在哪些情况下我们无法添加任何适当的 GO 术语。使用 GO 术语对 InterPro 条目进行专家手动注释，使用户能够根据与预测模型的序列匹配，推断未表征序列的功能、过程或亚细胞信息。数据库 URL：http://www.ebi.ac.uk/interpro。完整的 InterPro2GO 映射可在：ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/external2go/interpro2go 获得。
