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Structure-based functional annotation of protein sequences guided by comparative models

机译：基于比较模型的蛋白质序列的基于结构的功能注释

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摘要

A strategy for functionally annotating protein sequences using sequence and predicted structural information is proposed. First, structural models are built using standard, web-based tools. The models are then annotated using the sequence and structure-based annotation method SeSAW, and the structure based ligand binding site alignment method GIRAF. Annotations for several sequences (ATPase-like domains 1 and 2 from mouse RIG-Ⅰ, the TIR domain from mouse Toll-like receptor 9, and alternative oxidase from Blastocystis) are made and compared with known functional information. We find that the annotations in general make functional sense and provide more specific information than would be available from a purely sequence-based approach.
机译：提出了使用序列和预测的结构信息对蛋白序列进行功能注释的策略。首先，使用基于网络的标准工具构建结构模型。然后使用基于序列和结构的注释方法SeSAW和基于结构的配体结合位点比对方法GIRAF对模型进行注释。做出了几个序列的注释（来自小鼠RIG-Ⅰ的ATPase样结构域1和2，来自小鼠Toll样受体9的TIR结构域，以及来自囊胚的替代氧化酶），并与已知功能信息进行了比较。我们发现注释通常具有功能意义，并且比纯基于序列的方法提供的注释更具体。

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  • 来源
    《Optimization and Systems Biology》|2008年|395-403|共9页
  • 会议地点 Lijiang(CN);Lijiang(CN)
  • 作者

    ZHU Jianming; rnLIU Xianquan; rnFENG Jinyan; rnWU Jianping;

  • 作者单位

    Daron.M.Standley@Systems Immunology Laboratory, Immunology Frontier Research Center, Osaka University, 3-2 Yamadaoka, Suita, Osaka 565-0871, Japan.--Akira R.Kinjo@Research Center of Structural and Functional Proteomics, Institute for Protein Research, Osaka University, 3-2 Yamadaoka, Suita, Osaka 565-0871, Japan--Miesko Lis@MIT Computer Science and Artificial Intelligence Laboratory, 32 Vassar Street, Cambridge, MA 02139, USA--Mark van der Giezen@Centre for Eukaryotic Evolutionary Microbiology, School of Bioscienees, University of Exeter, Stocker Road, Exeter EX4 4QD, UK.--Haruki Nakamura@Research Center of Structural and Functional Proteomics, Institute for Protein Research, Osaka University, 3-2 Yamadaoka, Suita, Osaka 565-0871, Japan--;

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  • 原文格式 PDF
  • 正文语种 eng
  • 中图分类 生物工程学（生物技术）;
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