Cargando…

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...

Descripción completa

Detalles Bibliográficos
Autores principales: Ribeiro, Rui P, Giorgetti, A
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2023
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
_version_ 1785041838842839040
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