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pyGOMoDo: GPCRs modeling and docking with python
MOTIVATION: We present pyGOMoDo, a Python library to perform homology modeling and docking, specifically designed for human GPCRs. pyGOMoDo is a python wrap-up of the updated functionalities of GOMoDo web server (https://molsim.sci.univr.it/gomodo). It was developed having in mind its usage through...
Autores principales: | , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2023
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10182849/ https://www.ncbi.nlm.nih.gov/pubmed/37137232 http://dx.doi.org/10.1093/bioinformatics/btad294 |
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author | Ribeiro, Rui P Giorgetti, A |
author_facet | Ribeiro, Rui P Giorgetti, A |
author_sort | Ribeiro, Rui P |
collection | PubMed |
description | MOTIVATION: We present pyGOMoDo, a Python library to perform homology modeling and docking, specifically designed for human GPCRs. pyGOMoDo is a python wrap-up of the updated functionalities of GOMoDo web server (https://molsim.sci.univr.it/gomodo). It was developed having in mind its usage through Jupyter notebooks, where users can create their own protocols of modeling and docking of GPCRs. In this article, we focus on the internal structure and general capabilities of pyGOMoDO and on how it can be useful for carrying out structural biology studies of GPCRs. RESULTS: The source code is freely available at https://github.com/rribeiro-sci/pygomodo under the Apache 2.0 license. Tutorial notebooks containing minimal working examples can be found at https://github.com/rribeiro-sci/pygomodo/tree/main/examples. |
format | Online Article Text |
id | pubmed-10182849 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-101828492023-05-14 pyGOMoDo: GPCRs modeling and docking with python Ribeiro, Rui P Giorgetti, A Bioinformatics Applications Note MOTIVATION: We present pyGOMoDo, a Python library to perform homology modeling and docking, specifically designed for human GPCRs. pyGOMoDo is a python wrap-up of the updated functionalities of GOMoDo web server (https://molsim.sci.univr.it/gomodo). It was developed having in mind its usage through Jupyter notebooks, where users can create their own protocols of modeling and docking of GPCRs. In this article, we focus on the internal structure and general capabilities of pyGOMoDO and on how it can be useful for carrying out structural biology studies of GPCRs. RESULTS: The source code is freely available at https://github.com/rribeiro-sci/pygomodo under the Apache 2.0 license. Tutorial notebooks containing minimal working examples can be found at https://github.com/rribeiro-sci/pygomodo/tree/main/examples. Oxford University Press 2023-05-03 /pmc/articles/PMC10182849/ /pubmed/37137232 http://dx.doi.org/10.1093/bioinformatics/btad294 Text en © The Author(s) 2023. Published by Oxford University Press. https://creativecommons.org/licenses/by/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Applications Note Ribeiro, Rui P Giorgetti, A pyGOMoDo: GPCRs modeling and docking with python |
title | pyGOMoDo: GPCRs modeling and docking with python |
title_full | pyGOMoDo: GPCRs modeling and docking with python |
title_fullStr | pyGOMoDo: GPCRs modeling and docking with python |
title_full_unstemmed | pyGOMoDo: GPCRs modeling and docking with python |
title_short | pyGOMoDo: GPCRs modeling and docking with python |
title_sort | pygomodo: gpcrs modeling and docking with python |
topic | Applications Note |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10182849/ https://www.ncbi.nlm.nih.gov/pubmed/37137232 http://dx.doi.org/10.1093/bioinformatics/btad294 |
work_keys_str_mv | AT ribeiroruip pygomodogpcrsmodelinganddockingwithpython AT giorgettia pygomodogpcrsmodelinganddockingwithpython |