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ComSin: database of protein structures in bound (complex) and unbound (single) states in relation to their intrinsic disorder

Most of the proteins in a cell assemble into complexes to carry out their function. In this work, we have created a new database (named ComSin) of protein structures in bound (complex) and unbound (single) states to provide a researcher with exhaustive information on structures of the same or homolo...

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Autores principales: Lobanov, Michail Yu., Shoemaker, Benjamin A., Garbuzynskiy, Sergiy O., Fong, Jessica H., Panchenko, Anna R., Galzitskaya, Oxana V.
Formato: Texto
Lenguaje:English
Publicado: Oxford University Press 2010
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2808974/
https://www.ncbi.nlm.nih.gov/pubmed/19906708
http://dx.doi.org/10.1093/nar/gkp963
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author Lobanov, Michail Yu.
Shoemaker, Benjamin A.
Garbuzynskiy, Sergiy O.
Fong, Jessica H.
Panchenko, Anna R.
Galzitskaya, Oxana V.
author_facet Lobanov, Michail Yu.
Shoemaker, Benjamin A.
Garbuzynskiy, Sergiy O.
Fong, Jessica H.
Panchenko, Anna R.
Galzitskaya, Oxana V.
author_sort Lobanov, Michail Yu.
collection PubMed
description Most of the proteins in a cell assemble into complexes to carry out their function. In this work, we have created a new database (named ComSin) of protein structures in bound (complex) and unbound (single) states to provide a researcher with exhaustive information on structures of the same or homologous proteins in bound and unbound states. From the complete Protein Data Bank (PDB), we selected 24 910 pairs of protein structures in bound and unbound states, and identified regions of intrinsic disorder. For 2448 pairs, the proteins in bound and unbound states are identical, while 7129 pairs have sequence identity 90% or larger. The developed server enables one to search for proteins in bound and unbound states with several options including sequence similarity between the corresponding proteins in bound and unbound states, and validation of interaction interfaces of protein complexes. Besides that, through our web server, one can obtain necessary information for studying disorder-to-order and order-to-disorder transitions upon complex formation, and analyze structural differences between proteins in bound and unbound states. The database is available at http://antares.protres.ru/comsin/.
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spelling pubmed-28089742010-01-20 ComSin: database of protein structures in bound (complex) and unbound (single) states in relation to their intrinsic disorder Lobanov, Michail Yu. Shoemaker, Benjamin A. Garbuzynskiy, Sergiy O. Fong, Jessica H. Panchenko, Anna R. Galzitskaya, Oxana V. Nucleic Acids Res Articles Most of the proteins in a cell assemble into complexes to carry out their function. In this work, we have created a new database (named ComSin) of protein structures in bound (complex) and unbound (single) states to provide a researcher with exhaustive information on structures of the same or homologous proteins in bound and unbound states. From the complete Protein Data Bank (PDB), we selected 24 910 pairs of protein structures in bound and unbound states, and identified regions of intrinsic disorder. For 2448 pairs, the proteins in bound and unbound states are identical, while 7129 pairs have sequence identity 90% or larger. The developed server enables one to search for proteins in bound and unbound states with several options including sequence similarity between the corresponding proteins in bound and unbound states, and validation of interaction interfaces of protein complexes. Besides that, through our web server, one can obtain necessary information for studying disorder-to-order and order-to-disorder transitions upon complex formation, and analyze structural differences between proteins in bound and unbound states. The database is available at http://antares.protres.ru/comsin/. Oxford University Press 2010-01 2009-11-11 /pmc/articles/PMC2808974/ /pubmed/19906708 http://dx.doi.org/10.1093/nar/gkp963 Text en © The Author(s) 2009. Published by Oxford University Press. http://creativecommons.org/licenses/by-nc/2.5/uk/ This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.5/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Articles
Lobanov, Michail Yu.
Shoemaker, Benjamin A.
Garbuzynskiy, Sergiy O.
Fong, Jessica H.
Panchenko, Anna R.
Galzitskaya, Oxana V.
ComSin: database of protein structures in bound (complex) and unbound (single) states in relation to their intrinsic disorder
title ComSin: database of protein structures in bound (complex) and unbound (single) states in relation to their intrinsic disorder
title_full ComSin: database of protein structures in bound (complex) and unbound (single) states in relation to their intrinsic disorder
title_fullStr ComSin: database of protein structures in bound (complex) and unbound (single) states in relation to their intrinsic disorder
title_full_unstemmed ComSin: database of protein structures in bound (complex) and unbound (single) states in relation to their intrinsic disorder
title_short ComSin: database of protein structures in bound (complex) and unbound (single) states in relation to their intrinsic disorder
title_sort comsin: database of protein structures in bound (complex) and unbound (single) states in relation to their intrinsic disorder
topic Articles
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2808974/
https://www.ncbi.nlm.nih.gov/pubmed/19906708
http://dx.doi.org/10.1093/nar/gkp963
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