An Accurate Method for Prediction of Protein-Ligand Binding Site on Protein Surface Using SVM and Statistical Depth Function.
Since proteins carry out their functions through interactions with other molecules, accurately identifying the protein-ligand binding site plays an important role in protein functional annotation and rational drug discovery In the past two decades, a lot of algorithms were present to predict the pro...
| Publicado en: | BioMed Research International Vol. 2013; pp. 409658 - 409659 |
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| Autores principales: | , , , , , |
| Formato: | Journal Article |
| Publicado: |
Wiley-Blackwell
2013
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| Acceso en línea: | Ver este registro en EBSCOhost |
| fields | @attributes: recordID: 1 pdfLink: plink: https://search.ebscohost.com/login.aspx?direct=true&db=ccm&AN=104111562&site=ehost-live header: @attributes: shortDbName: ccm uiTerm: 104111562 longDbName: CINAHL Complete uiTag: AN controlInfo: bkinfo: dissinfo: jinfo: jid: 23146133 FT2T jtl: BioMed Research International issn: 23146133 maglogo: N pubinfo: dt: 2013 vid: 2013 pid: 480 pub: Wiley-Blackwell place: Malden, Massachusetts artinfo: ui: 104111562 2012362297 NLM24195070 PMC3806129 104111562 ppf: 409658 ppct: 1 formats: fmt: @attributes: type: P tig: atl: An Accurate Method for Prediction of Protein-Ligand Binding Site on Protein Surface Using SVM and Statistical Depth Function. aug: au: Wang, Kui Gao, Jianzhao Shen, Shiyi Tuszynski, Jack A Ruan, Jishou Hu, Gang affil: College of Mathematical Sciences and LPMC, Nankai University, Tianjin 300071, China. sug: subj: Biochemical Phenomena Bioinformatics Proteins Software Algorithms Binding Sites Laboratory Chemicals Membrane Proteins Metabolism Molecular Structure Proteins Metabolism Sequence Analysis Surface Properties ab: Since proteins carry out their functions through interactions with other molecules, accurately identifying the protein-ligand binding site plays an important role in protein functional annotation and rational drug discovery In the past two decades, a lot of algorithms were present to predict the protein-ligand binding site. In this paper, we introduce statistical depth function to define negative samples and propose an SVM-based method which integrates sequence and structural information to predict binding site. The results show that the present method performs better than the existent ones. The accuracy, sensitivity, and specificity on training set are 77.55%, 56.15%, and 87.96%, respectively; on the independent test set, the accuracy, sensitivity, and specificity are 80.36%, 53.53%, and 92.38%, respectively. pubtype: Academic Journal doctype: Journal Article ougenre: Article language: English refInfo: holdings: @attributes: islocal: N |
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