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QAUST:protein Function prediction Using Structure Similarity,protein Interaction,and Functional Motifs

Genomics, proteomics & Bioinformatics 2021年第6期19卷 998-1011页

作者： Fatima Zohra Smaili Shuye Tian Ambrish Roy Meshari Alazmi Stefan T.Arold Srayanta Mukherjee p.scott hefty Wei Chen Xin Gao Computational Bioscience Research Center(CBRC) ComputerElectrical and Mathematical Sciences and Engineering(CEMSE)DivisionKing Abdullah University of Science and Technology(KAUST)Thuwal 23955Saudi Arabia Department of Biology Southern University of Science and Technology of China(SUSTC)Shenzhen 518055China Department of Computational Medicine and Bioinformatics University of MichiganAnn ArborMI 48109USA College of Computer Science and Engineering University of Ha’ilHa'il 55476Saudi Arabia Biological and Environmental Sciences and Engineering(BESE)Division King Abdullah University of Science and Technology(KAUST)Thuwal 23955Saudi Arabia Department of Molecular Bioscience University of KansasLawrenceKS 66047USA

The number of available protein sequences in public databases is increasing ***,a sig-nificant percentage of these sequences lack functional annotation,which is essential for the understanding of how bio-logical systems ***,we propose a novel method,Quantitative Annotation of Unknown STructure(QAUST),to infer protein functions,specifically Gene Ontology(GO)terms and Enzyme Commission(EC)*** uses three sources of information:structure information encoded by global and local structure similarity search,biological network information inferred by protein–protein interaction data,and sequence information extracted from functionally discriminative sequence *** three pieces of information are combined by consensus averaging to make the final *** approach has been tested on 500 protein targets from the Critical Assessment of Functional Annotation(CAFA)benchmark *** results show that our method provides accurate functional annotation and outperforms other prediction methods based on sequence similarity search or *** further demonstrate that a previously unknown function of human tripartite motif-containing 22(TRIM22)protein predicted by QAUST can be experimentally validated.

关键词： protein function prediction GO term EC number protein structure similarity Functionally discriminative motif

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