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Using 3dRPC for RNA–protein complex structure prediction
3dRPC is a computational method designed for three-dimensional RNA–protein complex structure prediction. Starting from a protein structure and a RNA structure, 3dRPC first generates presumptive complex structures by RPDOCK and then evaluates the structures by RPRANK. RPDOCK is an FFT-based docking a...
Autores principales: | , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Springer Berlin Heidelberg
2017
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5334405/ https://www.ncbi.nlm.nih.gov/pubmed/28317012 http://dx.doi.org/10.1007/s41048-017-0034-y |
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author | Huang, Yangyu Li, Haotian Xiao, Yi |
author_facet | Huang, Yangyu Li, Haotian Xiao, Yi |
author_sort | Huang, Yangyu |
collection | PubMed |
description | 3dRPC is a computational method designed for three-dimensional RNA–protein complex structure prediction. Starting from a protein structure and a RNA structure, 3dRPC first generates presumptive complex structures by RPDOCK and then evaluates the structures by RPRANK. RPDOCK is an FFT-based docking algorithm that takes features of RNA–protein interactions into consideration, and RPRANK is a knowledge-based potential using root mean square deviation as a measure. Here we give a detailed description of the usage of 3dRPC. The source code is available at http://biophy.hust.edu.cn/3dRPC.html. |
format | Online Article Text |
id | pubmed-5334405 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2017 |
publisher | Springer Berlin Heidelberg |
record_format | MEDLINE/PubMed |
spelling | pubmed-53344052017-03-15 Using 3dRPC for RNA–protein complex structure prediction Huang, Yangyu Li, Haotian Xiao, Yi Biophys Rep Resource 3dRPC is a computational method designed for three-dimensional RNA–protein complex structure prediction. Starting from a protein structure and a RNA structure, 3dRPC first generates presumptive complex structures by RPDOCK and then evaluates the structures by RPRANK. RPDOCK is an FFT-based docking algorithm that takes features of RNA–protein interactions into consideration, and RPRANK is a knowledge-based potential using root mean square deviation as a measure. Here we give a detailed description of the usage of 3dRPC. The source code is available at http://biophy.hust.edu.cn/3dRPC.html. Springer Berlin Heidelberg 2017-02-10 2016 /pmc/articles/PMC5334405/ /pubmed/28317012 http://dx.doi.org/10.1007/s41048-017-0034-y Text en © The Author(s) 2017 Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. |
spellingShingle | Resource Huang, Yangyu Li, Haotian Xiao, Yi Using 3dRPC for RNA–protein complex structure prediction |
title | Using 3dRPC for RNA–protein complex structure prediction |
title_full | Using 3dRPC for RNA–protein complex structure prediction |
title_fullStr | Using 3dRPC for RNA–protein complex structure prediction |
title_full_unstemmed | Using 3dRPC for RNA–protein complex structure prediction |
title_short | Using 3dRPC for RNA–protein complex structure prediction |
title_sort | using 3drpc for rna–protein complex structure prediction |
topic | Resource |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5334405/ https://www.ncbi.nlm.nih.gov/pubmed/28317012 http://dx.doi.org/10.1007/s41048-017-0034-y |
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