Protein Structure and Function Prediction Using I‐TASSER
I‐TASSER is a hierarchical protocol for automated protein structure prediction and structure‐based function annotation. Starting from the amino acid sequence of target proteins, I‐TASSER first generates full‐length atomic structural models from multiple threading alignments and iterative structural...
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Veröffentlicht in: | Current Protocols in Bioinformatics 2015-12, Vol.52 (1), p.5.8.1-5.8.15 |
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description | I‐TASSER is a hierarchical protocol for automated protein structure prediction and structure‐based function annotation. Starting from the amino acid sequence of target proteins, I‐TASSER first generates full‐length atomic structural models from multiple threading alignments and iterative structural assembly simulations followed by atomic‐level structure refinement. The biological functions of the protein, including ligand‐binding sites, enzyme commission number, and gene ontology terms, are then inferred from known protein function databases based on sequence and structure profile comparisons. I‐TASSER is freely available as both an on‐line server and a stand‐alone package. This unit describes how to use the I‐TASSER protocol to generate structure and function prediction and how to interpret the prediction results, as well as alternative approaches for further improving the I‐TASSER modeling quality for distant‐homologous and multi‐domain protein targets. © 2015 by John Wiley & Sons, Inc. |
doi_str_mv | 10.1002/0471250953.bi0508s52 |
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This unit describes how to use the I‐TASSER protocol to generate structure and function prediction and how to interpret the prediction results, as well as alternative approaches for further improving the I‐TASSER modeling quality for distant‐homologous and multi‐domain protein targets. © 2015 by John Wiley & Sons, Inc.</description><identifier>ISSN: 1934-3396</identifier><identifier>EISSN: 1934-340X</identifier><identifier>DOI: 10.1002/0471250953.bi0508s52</identifier><identifier>PMID: 26678386</identifier><language>eng</language><publisher>United States</publisher><subject>Algorithms ; Amino Acid Sequence ; Binding Sites ; Computational Biology - methods ; Databases, Protein ; Gene Ontology ; I‐TASSER ; Ligands ; Models, Molecular ; Molecular Sequence Data ; protein function annotation ; protein structure prediction ; Protein Structure, Secondary ; Protein Structure, Tertiary ; Proteins - chemistry ; Sequence Alignment ; Solvents ; threading</subject><ispartof>Current Protocols in Bioinformatics, 2015-12, Vol.52 (1), p.5.8.1-5.8.15</ispartof><rights>2015 John Wiley & Sons, Inc.</rights><rights>Copyright © 2015 John Wiley & Sons, Inc.</rights><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c4408-b7a5c0f15eb44d231c0bea8d9e655bddf2b81cf370512bc1dfe51cf9aed7af2a3</citedby><cites>FETCH-LOGICAL-c4408-b7a5c0f15eb44d231c0bea8d9e655bddf2b81cf370512bc1dfe51cf9aed7af2a3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>230,315,781,785,886,27929,27930</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/26678386$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Yang, Jianyi</creatorcontrib><creatorcontrib>Zhang, Yang</creatorcontrib><title>Protein Structure and Function Prediction Using I‐TASSER</title><title>Current Protocols in Bioinformatics</title><addtitle>Curr Protoc Bioinformatics</addtitle><description>I‐TASSER is a hierarchical protocol for automated protein structure prediction and structure‐based function annotation. Starting from the amino acid sequence of target proteins, I‐TASSER first generates full‐length atomic structural models from multiple threading alignments and iterative structural assembly simulations followed by atomic‐level structure refinement. The biological functions of the protein, including ligand‐binding sites, enzyme commission number, and gene ontology terms, are then inferred from known protein function databases based on sequence and structure profile comparisons. I‐TASSER is freely available as both an on‐line server and a stand‐alone package. This unit describes how to use the I‐TASSER protocol to generate structure and function prediction and how to interpret the prediction results, as well as alternative approaches for further improving the I‐TASSER modeling quality for distant‐homologous and multi‐domain protein targets. © 2015 by John Wiley & Sons, Inc.</description><subject>Algorithms</subject><subject>Amino Acid Sequence</subject><subject>Binding Sites</subject><subject>Computational Biology - methods</subject><subject>Databases, Protein</subject><subject>Gene Ontology</subject><subject>I‐TASSER</subject><subject>Ligands</subject><subject>Models, Molecular</subject><subject>Molecular Sequence Data</subject><subject>protein function annotation</subject><subject>protein structure prediction</subject><subject>Protein Structure, Secondary</subject><subject>Protein Structure, Tertiary</subject><subject>Proteins - chemistry</subject><subject>Sequence Alignment</subject><subject>Solvents</subject><subject>threading</subject><issn>1934-3396</issn><issn>1934-340X</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2015</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqNkM9Kw0AQxhdRtNS-gUiOXlpns7vJxoNQS6uFgsUqeFv2X3QhTXQ3UXrzEXxGn8SUatWbp_mG-eY3w4fQEYYBBohPgaY4ZpAxMlAOGPDA4h3UwRmhfULhfvdbkyw5QL0QnALMeJbwBPbRQZwkKSc86aCzua9q68poUftG1423kSxNNGlKXbuqjObeGreRd8GVD9H04-39drhYjG8O0V4ui2B7X7WL7ibj29FVf3Z9OR0NZ31NKfC-SiXTkGNmFaUmJliDspKbzCaMKWPyWHGsc5ICw7HS2OSWtX0mrUllHkvSRecb7lOjltZoW9ZeFuLJu6X0K1FJJ_5OSvcoHqoXQXmKOeYt4OQL4KvnxoZaLF3QtihkaasmCJwyoAQYTVsr3Vi1r0LwNt-ewSDWyYuf5MU2-Xbt-PeL26XvnFvD2cbw6gq7-hdUjOYX07Umn1zQkqI</recordid><startdate>201512</startdate><enddate>201512</enddate><creator>Yang, Jianyi</creator><creator>Zhang, Yang</creator><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7X8</scope><scope>5PM</scope></search><sort><creationdate>201512</creationdate><title>Protein Structure and Function Prediction Using I‐TASSER</title><author>Yang, Jianyi ; Zhang, Yang</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c4408-b7a5c0f15eb44d231c0bea8d9e655bddf2b81cf370512bc1dfe51cf9aed7af2a3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2015</creationdate><topic>Algorithms</topic><topic>Amino Acid Sequence</topic><topic>Binding Sites</topic><topic>Computational Biology - methods</topic><topic>Databases, Protein</topic><topic>Gene Ontology</topic><topic>I‐TASSER</topic><topic>Ligands</topic><topic>Models, Molecular</topic><topic>Molecular Sequence Data</topic><topic>protein function annotation</topic><topic>protein structure prediction</topic><topic>Protein Structure, Secondary</topic><topic>Protein Structure, Tertiary</topic><topic>Proteins - chemistry</topic><topic>Sequence Alignment</topic><topic>Solvents</topic><topic>threading</topic><toplevel>online_resources</toplevel><creatorcontrib>Yang, Jianyi</creatorcontrib><creatorcontrib>Zhang, Yang</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>MEDLINE - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><jtitle>Current Protocols in Bioinformatics</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Yang, Jianyi</au><au>Zhang, Yang</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Protein Structure and Function Prediction Using I‐TASSER</atitle><jtitle>Current Protocols in Bioinformatics</jtitle><addtitle>Curr Protoc Bioinformatics</addtitle><date>2015-12</date><risdate>2015</risdate><volume>52</volume><issue>1</issue><spage>5.8.1</spage><epage>5.8.15</epage><pages>5.8.1-5.8.15</pages><issn>1934-3396</issn><eissn>1934-340X</eissn><abstract>I‐TASSER is a hierarchical protocol for automated protein structure prediction and structure‐based function annotation. Starting from the amino acid sequence of target proteins, I‐TASSER first generates full‐length atomic structural models from multiple threading alignments and iterative structural assembly simulations followed by atomic‐level structure refinement. The biological functions of the protein, including ligand‐binding sites, enzyme commission number, and gene ontology terms, are then inferred from known protein function databases based on sequence and structure profile comparisons. I‐TASSER is freely available as both an on‐line server and a stand‐alone package. This unit describes how to use the I‐TASSER protocol to generate structure and function prediction and how to interpret the prediction results, as well as alternative approaches for further improving the I‐TASSER modeling quality for distant‐homologous and multi‐domain protein targets. © 2015 by John Wiley & Sons, Inc.</abstract><cop>United States</cop><pmid>26678386</pmid><doi>10.1002/0471250953.bi0508s52</doi><tpages>15</tpages><oa>free_for_read</oa></addata></record> |
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subjects | Algorithms Amino Acid Sequence Binding Sites Computational Biology - methods Databases, Protein Gene Ontology I‐TASSER Ligands Models, Molecular Molecular Sequence Data protein function annotation protein structure prediction Protein Structure, Secondary Protein Structure, Tertiary Proteins - chemistry Sequence Alignment Solvents threading |
title | Protein Structure and Function Prediction Using I‐TASSER |
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