PCDB: A database of protein conformational diversity

Autores
Juritz, Ezequiel; Fernández Alberti, Sebastián; Parisi, Gustavo Daniel
Año de publicación
2010
Idioma
inglés
Tipo de recurso
artículo
Estado
versión publicada
Descripción
PCDB (http://www.pcdb.unq.edu.ar) is a database of protein conformational diversity. For each protein,the database contains the redundant compilation of all the corresponding crystallographic structures obtained under different conditions. These structures could be considered as different instances of protein dynamism. As a measure of the conformational diversity we use the maximum RMSD obtained comparing the structures deposited for each domain. The redundant structures were extracted following CATH structural classification and cross linked with additional information. In this way it is possible to relate a given amount of conformational diversity with different levels of information,such as protein function,presence of ligands and mutations,structural classification,active site information and organism taxonomy among others. Currently the database contains 7989 domains with a total of 36581 structures from 4171 different proteins. The maximum RMSD registered is 26.7A and the average of different structures per domain is 4.5.
Fil: Juritz, Ezequiel. Universidad Nacional de Quilmes. Centro de Est.e Investigación. Prog.simulación de Proc.moleculares de Relevancia; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Fernández Alberti, Sebastián. Universidad Nacional de Quilmes. Centro de Est.e Investigación. Prog.simulación de Proc.moleculares de Relevancia; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Parisi, Gustavo Daniel. Universidad Nacional de Quilmes. Centro de Est.e Investigación. Prog.simulación de Proc.moleculares de Relevancia; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Materia
conformational diversity
Nivel de accesibilidad
acceso abierto
Condiciones de uso
https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
Repositorio
CONICET Digital (CONICET)
Institución
Consejo Nacional de Investigaciones Científicas y Técnicas
OAI Identificador
oai:ri.conicet.gov.ar:11336/191053
Acceder
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network_name_str CONICET Digital (CONICET)
spelling PCDB: A database of protein conformational diversityJuritz, EzequielFernández Alberti, SebastiánParisi, Gustavo Danielconformational diversityhttps://purl.org/becyt/ford/1.4https://purl.org/becyt/ford/1PCDB (http://www.pcdb.unq.edu.ar) is a database of protein conformational diversity. For each protein,the database contains the redundant compilation of all the corresponding crystallographic structures obtained under different conditions. These structures could be considered as different instances of protein dynamism. As a measure of the conformational diversity we use the maximum RMSD obtained comparing the structures deposited for each domain. The redundant structures were extracted following CATH structural classification and cross linked with additional information. In this way it is possible to relate a given amount of conformational diversity with different levels of information,such as protein function,presence of ligands and mutations,structural classification,active site information and organism taxonomy among others. Currently the database contains 7989 domains with a total of 36581 structures from 4171 different proteins. The maximum RMSD registered is 26.7A and the average of different structures per domain is 4.5.Fil: Juritz, Ezequiel. Universidad Nacional de Quilmes. Centro de Est.e Investigación. Prog.simulación de Proc.moleculares de Relevancia; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; ArgentinaFil: Fernández Alberti, Sebastián. Universidad Nacional de Quilmes. Centro de Est.e Investigación. Prog.simulación de Proc.moleculares de Relevancia; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; ArgentinaFil: Parisi, Gustavo Daniel. Universidad Nacional de Quilmes. Centro de Est.e Investigación. Prog.simulación de Proc.moleculares de Relevancia; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; ArgentinaOxford University Press2010-11info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfapplication/pdfhttp://hdl.handle.net/11336/191053Juritz, Ezequiel; Fernández Alberti, Sebastián; Parisi, Gustavo Daniel; PCDB: A database of protein conformational diversity; Oxford University Press; Nucleic Acids Research; 39; 11-2010; 1-51362-4962CONICET DigitalCONICETenginfo:eu-repo/semantics/altIdentifier/url/http://nar.oxfordjournals.org/content/early/2010/11/19/nar.gkq1181info:eu-repo/semantics/altIdentifier/doi/10.1093/nar/gkq1181info:eu-repo/semantics/openAccesshttps://creativecommons.org/licenses/by-nc-sa/2.5/ar/reponame:CONICET Digital (CONICET)instname:Consejo Nacional de Investigaciones Científicas y Técnicas2025-09-29T09:48:10Zoai:ri.conicet.gov.ar:11336/191053instacron:CONICETInstitucionalhttp://ri.conicet.gov.ar/Organismo científico-tecnológicoNo correspondehttp://ri.conicet.gov.ar/oai/requestdasensio@conicet.gov.ar; lcarlino@conicet.gov.arArgentinaNo correspondeNo correspondeNo correspondeopendoar:34982025-09-29 09:48:10.906CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicasfalse
dc.title.none.fl_str_mv PCDB: A database of protein conformational diversity
title PCDB: A database of protein conformational diversity
spellingShingle PCDB: A database of protein conformational diversity
Juritz, Ezequiel
conformational diversity
title_short PCDB: A database of protein conformational diversity
title_full PCDB: A database of protein conformational diversity
title_fullStr PCDB: A database of protein conformational diversity
title_full_unstemmed PCDB: A database of protein conformational diversity
title_sort PCDB: A database of protein conformational diversity
dc.creator.none.fl_str_mv Juritz, Ezequiel
Fernández Alberti, Sebastián
Parisi, Gustavo Daniel
author Juritz, Ezequiel
author_facet Juritz, Ezequiel
Fernández Alberti, Sebastián
Parisi, Gustavo Daniel
author_role author
author2 Fernández Alberti, Sebastián
Parisi, Gustavo Daniel
author2_role author
author
dc.subject.none.fl_str_mv conformational diversity
topic conformational diversity
purl_subject.fl_str_mv https://purl.org/becyt/ford/1.4
https://purl.org/becyt/ford/1
dc.description.none.fl_txt_mv PCDB (http://www.pcdb.unq.edu.ar) is a database of protein conformational diversity. For each protein,the database contains the redundant compilation of all the corresponding crystallographic structures obtained under different conditions. These structures could be considered as different instances of protein dynamism. As a measure of the conformational diversity we use the maximum RMSD obtained comparing the structures deposited for each domain. The redundant structures were extracted following CATH structural classification and cross linked with additional information. In this way it is possible to relate a given amount of conformational diversity with different levels of information,such as protein function,presence of ligands and mutations,structural classification,active site information and organism taxonomy among others. Currently the database contains 7989 domains with a total of 36581 structures from 4171 different proteins. The maximum RMSD registered is 26.7A and the average of different structures per domain is 4.5.
Fil: Juritz, Ezequiel. Universidad Nacional de Quilmes. Centro de Est.e Investigación. Prog.simulación de Proc.moleculares de Relevancia; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Fernández Alberti, Sebastián. Universidad Nacional de Quilmes. Centro de Est.e Investigación. Prog.simulación de Proc.moleculares de Relevancia; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Parisi, Gustavo Daniel. Universidad Nacional de Quilmes. Centro de Est.e Investigación. Prog.simulación de Proc.moleculares de Relevancia; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
description PCDB (http://www.pcdb.unq.edu.ar) is a database of protein conformational diversity. For each protein,the database contains the redundant compilation of all the corresponding crystallographic structures obtained under different conditions. These structures could be considered as different instances of protein dynamism. As a measure of the conformational diversity we use the maximum RMSD obtained comparing the structures deposited for each domain. The redundant structures were extracted following CATH structural classification and cross linked with additional information. In this way it is possible to relate a given amount of conformational diversity with different levels of information,such as protein function,presence of ligands and mutations,structural classification,active site information and organism taxonomy among others. Currently the database contains 7989 domains with a total of 36581 structures from 4171 different proteins. The maximum RMSD registered is 26.7A and the average of different structures per domain is 4.5.
publishDate 2010
dc.date.none.fl_str_mv 2010-11
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/publishedVersion
http://purl.org/coar/resource_type/c_6501
info:ar-repo/semantics/articulo
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv http://hdl.handle.net/11336/191053
Juritz, Ezequiel; Fernández Alberti, Sebastián; Parisi, Gustavo Daniel; PCDB: A database of protein conformational diversity; Oxford University Press; Nucleic Acids Research; 39; 11-2010; 1-5
1362-4962
CONICET Digital
CONICET
url http://hdl.handle.net/11336/191053
identifier_str_mv Juritz, Ezequiel; Fernández Alberti, Sebastián; Parisi, Gustavo Daniel; PCDB: A database of protein conformational diversity; Oxford University Press; Nucleic Acids Research; 39; 11-2010; 1-5
1362-4962
CONICET Digital
CONICET
dc.language.none.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv info:eu-repo/semantics/altIdentifier/url/http://nar.oxfordjournals.org/content/early/2010/11/19/nar.gkq1181
info:eu-repo/semantics/altIdentifier/doi/10.1093/nar/gkq1181
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
eu_rights_str_mv openAccess
rights_invalid_str_mv https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
dc.format.none.fl_str_mv application/pdf
application/pdf
dc.publisher.none.fl_str_mv Oxford University Press
publisher.none.fl_str_mv Oxford University Press
dc.source.none.fl_str_mv reponame:CONICET Digital (CONICET)
instname:Consejo Nacional de Investigaciones Científicas y Técnicas
reponame_str CONICET Digital (CONICET)
collection CONICET Digital (CONICET)
instname_str Consejo Nacional de Investigaciones Científicas y Técnicas
repository.name.fl_str_mv CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicas
repository.mail.fl_str_mv dasensio@conicet.gov.ar; lcarlino@conicet.gov.ar
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score 13.070432

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