RepeatsDB in 2025: expanding annotations of structured tandem repeats proteins on AlphaFoldDB

Autores
Clementel, Damiano; Arrías, Paula Nazarena; Mozaffari, Soroush; Osmanli, Zarifa; Castro, Ximena Aixa; Borucki, Estefanía Lorena; Cabrera, Maia Diana Eliana; Chinestrad, Patricio Manuel; Czarnowski, Ian; Lombardo, Jose Francisco; Lorenzano Menna, Pablo; Mogro, Ezequiel Gerardo; Padilla Franzotti, Carla Luciana; Santillan, Julia Yamila; Ferrari, Carlo; Kajava, Andrey V.; Tosatto, Silvio C. E.; Monzon, Alexander Miguel
Año de publicación
2025
Idioma
inglés
Tipo de recurso
artículo
Estado
versión publicada
Descripción
RepeatsDB (URL: https://repeatsdb.org) stands as a key resource for the classification and annotation of Structured Tandem Repeat Proteins (STRPs), incorporating data from both the Protein Data Bank (PDB) and AlphaFoldDB. This latest release features substantial advancements, including annotations for over 34 000 unique protein sequences from >2000 organisms, representing a fifteenfold increase in coverage. Leveraging state-of-the-art structural alignment tools, RepeatsDB now offers faster and more precise detection of STRPs across both experimental and predicted structures. Key improvements also include a redesigned user interface and enhanced web server, providing an intuitive browsing experience with improved data searchability and accessibility. A new statistics page allows users to explore database metrics based on repeat classifications, while API enhancements support scalability to manage the growing volume of data. These advancements not only refine the understanding of STRPs but also streamline annotation processes, further strengthening RepeatsDB’s role in advancing our understanding of STRP functions.
Fil: Clementel, Damiano. Universita Degli Studi Di Padova. Dipartimento Di Scienze Chimiche.;
Fil: Arrías, Paula Nazarena. Royal Institute of Technology; Suecia
Fil: Mozaffari, Soroush. Universita Degli Studi Di Padova. Dipartimento Di Scienze Chimiche.;
Fil: Osmanli, Zarifa. Universita Degli Studi Di Padova. Dipartimento Di Scienze Chimiche.;
Fil: Castro, Ximena Aixa. Universita Degli Studi Di Padova. Dipartimento Di Scienze Chimiche.;
Fil: Borucki, Estefanía Lorena. Universita Degli Studi Di Padova. Dipartimento Di Scienze Chimiche.; . Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Cabrera, Maia Diana Eliana. Universidad Nacional de Quilmes. Departamento de Ciencia y Tecnologia. Laboratorio de Farmacologia Molecular.; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Chinestrad, Patricio Manuel. Universidad Nacional de Quilmes. Departamento de Ciencia y Tecnologia. Laboratorio de Farmacologia Molecular.; Argentina
Fil: Czarnowski, Ian. Universidad Nacional de Quilmes. Departamento de Ciencia y Tecnologia. Laboratorio de Farmacologia Molecular.; Argentina
Fil: Lombardo, Jose Francisco. Universita Degli Studi Di Padova. Dipartimento Di Scienze Chimiche.; . Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Lorenzano Menna, Pablo. Universidad Nacional de Quilmes. Departamento de Ciencia y Tecnologia. Laboratorio de Farmacologia Molecular.; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Mogro, Ezequiel Gerardo. Universita Degli Studi Di Padova. Dipartimento Di Scienze Chimiche.; . Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Padilla Franzotti, Carla Luciana. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Universita Degli Studi Di Padova. Dipartimento Di Scienze Chimiche.;
Fil: Santillan, Julia Yamila. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Universidad Nacional de Quilmes; Argentina
Fil: Ferrari, Carlo. Dipartamento Di Ingegneria Dell' Informazione ; Universita Degli Studi Di Padova;
Fil: Kajava, Andrey V.. Université Montpellier II; Francia
Fil: Tosatto, Silvio C. E.. Universita Degli Studi Di Padova. Dipartimento Di Scienze Chimiche.;
Fil: Monzon, Alexander Miguel. Dipartamento Di Ingegneria Dell' Informazione ; Universita Degli Studi Di Padova;
Materia
Tandem Repeat Proteins
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:11336/280820
Acceder
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spelling RepeatsDB in 2025: expanding annotations of structured tandem repeats proteins on AlphaFoldDBClementel, DamianoArrías, Paula NazarenaMozaffari, SoroushOsmanli, ZarifaCastro, Ximena AixaBorucki, Estefanía LorenaCabrera, Maia Diana ElianaChinestrad, Patricio ManuelCzarnowski, IanLombardo, Jose FranciscoLorenzano Menna, PabloMogro, Ezequiel GerardoPadilla Franzotti, Carla LucianaSantillan, Julia YamilaFerrari, CarloKajava, Andrey V.Tosatto, Silvio C. E.Monzon, Alexander MiguelTandem Repeat Proteinshttps://purl.org/becyt/ford/1.2https://purl.org/becyt/ford/1RepeatsDB (URL: https://repeatsdb.org) stands as a key resource for the classification and annotation of Structured Tandem Repeat Proteins (STRPs), incorporating data from both the Protein Data Bank (PDB) and AlphaFoldDB. This latest release features substantial advancements, including annotations for over 34 000 unique protein sequences from >2000 organisms, representing a fifteenfold increase in coverage. Leveraging state-of-the-art structural alignment tools, RepeatsDB now offers faster and more precise detection of STRPs across both experimental and predicted structures. Key improvements also include a redesigned user interface and enhanced web server, providing an intuitive browsing experience with improved data searchability and accessibility. A new statistics page allows users to explore database metrics based on repeat classifications, while API enhancements support scalability to manage the growing volume of data. These advancements not only refine the understanding of STRPs but also streamline annotation processes, further strengthening RepeatsDB’s role in advancing our understanding of STRP functions.Fil: Clementel, Damiano. Universita Degli Studi Di Padova. Dipartimento Di Scienze Chimiche.;Fil: Arrías, Paula Nazarena. Royal Institute of Technology; SueciaFil: Mozaffari, Soroush. Universita Degli Studi Di Padova. Dipartimento Di Scienze Chimiche.;Fil: Osmanli, Zarifa. Universita Degli Studi Di Padova. Dipartimento Di Scienze Chimiche.;Fil: Castro, Ximena Aixa. Universita Degli Studi Di Padova. Dipartimento Di Scienze Chimiche.;Fil: Borucki, Estefanía Lorena. Universita Degli Studi Di Padova. Dipartimento Di Scienze Chimiche.; . Consejo Nacional de Investigaciones Científicas y Técnicas; ArgentinaFil: Cabrera, Maia Diana Eliana. Universidad Nacional de Quilmes. Departamento de Ciencia y Tecnologia. Laboratorio de Farmacologia Molecular.; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; ArgentinaFil: Chinestrad, Patricio Manuel. Universidad Nacional de Quilmes. Departamento de Ciencia y Tecnologia. Laboratorio de Farmacologia Molecular.; ArgentinaFil: Czarnowski, Ian. Universidad Nacional de Quilmes. Departamento de Ciencia y Tecnologia. Laboratorio de Farmacologia Molecular.; ArgentinaFil: Lombardo, Jose Francisco. Universita Degli Studi Di Padova. Dipartimento Di Scienze Chimiche.; . Consejo Nacional de Investigaciones Científicas y Técnicas; ArgentinaFil: Lorenzano Menna, Pablo. Universidad Nacional de Quilmes. Departamento de Ciencia y Tecnologia. Laboratorio de Farmacologia Molecular.; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; ArgentinaFil: Mogro, Ezequiel Gerardo. Universita Degli Studi Di Padova. Dipartimento Di Scienze Chimiche.; . Consejo Nacional de Investigaciones Científicas y Técnicas; ArgentinaFil: Padilla Franzotti, Carla Luciana. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Universita Degli Studi Di Padova. Dipartimento Di Scienze Chimiche.;Fil: Santillan, Julia Yamila. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Universidad Nacional de Quilmes; ArgentinaFil: Ferrari, Carlo. Dipartamento Di Ingegneria Dell' Informazione ; Universita Degli Studi Di Padova;Fil: Kajava, Andrey V.. Université Montpellier II; FranciaFil: Tosatto, Silvio C. E.. Universita Degli Studi Di Padova. Dipartimento Di Scienze Chimiche.;Fil: Monzon, Alexander Miguel. Dipartamento Di Ingegneria Dell' Informazione ; Universita Degli Studi Di Padova;Oxford University Press2025-01info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfapplication/pdfapplication/pdfapplication/pdfapplication/pdfhttp://hdl.handle.net/11336/280820Clementel, Damiano; Arrías, Paula Nazarena; Mozaffari, Soroush; Osmanli, Zarifa; Castro, Ximena Aixa; et al.; RepeatsDB in 2025: expanding annotations of structured tandem repeats proteins on AlphaFoldDB; Oxford University Press; Nucleic Acids Research; 53; D1; 1-2025; 575-5810305-10481362-4962CONICET DigitalCONICETenginfo:eu-repo/semantics/altIdentifier/url/https://academic.oup.com/nar/article/53/D1/D575/7850956info:eu-repo/semantics/altIdentifier/doi/10.1093/nar/gkae965info:eu-repo/semantics/openAccesshttps://creativecommons.org/licenses/by-nc-sa/2.5/ar/reponame:CONICET Digital (CONICET)instname:Consejo Nacional de Investigaciones Científicas y Técnicas2026-02-26T09:57:29Zoai:ri.conicet.gov.ar:11336/280820instacron: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:34982026-02-26 09:57:29.859CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicasfalse
dc.title.none.fl_str_mv RepeatsDB in 2025: expanding annotations of structured tandem repeats proteins on AlphaFoldDB
title RepeatsDB in 2025: expanding annotations of structured tandem repeats proteins on AlphaFoldDB
spellingShingle RepeatsDB in 2025: expanding annotations of structured tandem repeats proteins on AlphaFoldDB
Clementel, Damiano
Tandem Repeat Proteins
title_short RepeatsDB in 2025: expanding annotations of structured tandem repeats proteins on AlphaFoldDB
title_full RepeatsDB in 2025: expanding annotations of structured tandem repeats proteins on AlphaFoldDB
title_fullStr RepeatsDB in 2025: expanding annotations of structured tandem repeats proteins on AlphaFoldDB
title_full_unstemmed RepeatsDB in 2025: expanding annotations of structured tandem repeats proteins on AlphaFoldDB
title_sort RepeatsDB in 2025: expanding annotations of structured tandem repeats proteins on AlphaFoldDB
dc.creator.none.fl_str_mv Clementel, Damiano
Arrías, Paula Nazarena
Mozaffari, Soroush
Osmanli, Zarifa
Castro, Ximena Aixa
Borucki, Estefanía Lorena
Cabrera, Maia Diana Eliana
Chinestrad, Patricio Manuel
Czarnowski, Ian
Lombardo, Jose Francisco
Lorenzano Menna, Pablo
Mogro, Ezequiel Gerardo
Padilla Franzotti, Carla Luciana
Santillan, Julia Yamila
Ferrari, Carlo
Kajava, Andrey V.
Tosatto, Silvio C. E.
Monzon, Alexander Miguel
author Clementel, Damiano
author_facet Clementel, Damiano
Arrías, Paula Nazarena
Mozaffari, Soroush
Osmanli, Zarifa
Castro, Ximena Aixa
Borucki, Estefanía Lorena
Cabrera, Maia Diana Eliana
Chinestrad, Patricio Manuel
Czarnowski, Ian
Lombardo, Jose Francisco
Lorenzano Menna, Pablo
Mogro, Ezequiel Gerardo
Padilla Franzotti, Carla Luciana
Santillan, Julia Yamila
Ferrari, Carlo
Kajava, Andrey V.
Tosatto, Silvio C. E.
Monzon, Alexander Miguel
author_role author
author2 Arrías, Paula Nazarena
Mozaffari, Soroush
Osmanli, Zarifa
Castro, Ximena Aixa
Borucki, Estefanía Lorena
Cabrera, Maia Diana Eliana
Chinestrad, Patricio Manuel
Czarnowski, Ian
Lombardo, Jose Francisco
Lorenzano Menna, Pablo
Mogro, Ezequiel Gerardo
Padilla Franzotti, Carla Luciana
Santillan, Julia Yamila
Ferrari, Carlo
Kajava, Andrey V.
Tosatto, Silvio C. E.
Monzon, Alexander Miguel
author2_role author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
dc.subject.none.fl_str_mv Tandem Repeat Proteins
topic Tandem Repeat Proteins
purl_subject.fl_str_mv https://purl.org/becyt/ford/1.2
https://purl.org/becyt/ford/1
dc.description.none.fl_txt_mv RepeatsDB (URL: https://repeatsdb.org) stands as a key resource for the classification and annotation of Structured Tandem Repeat Proteins (STRPs), incorporating data from both the Protein Data Bank (PDB) and AlphaFoldDB. This latest release features substantial advancements, including annotations for over 34 000 unique protein sequences from >2000 organisms, representing a fifteenfold increase in coverage. Leveraging state-of-the-art structural alignment tools, RepeatsDB now offers faster and more precise detection of STRPs across both experimental and predicted structures. Key improvements also include a redesigned user interface and enhanced web server, providing an intuitive browsing experience with improved data searchability and accessibility. A new statistics page allows users to explore database metrics based on repeat classifications, while API enhancements support scalability to manage the growing volume of data. These advancements not only refine the understanding of STRPs but also streamline annotation processes, further strengthening RepeatsDB’s role in advancing our understanding of STRP functions.
Fil: Clementel, Damiano. Universita Degli Studi Di Padova. Dipartimento Di Scienze Chimiche.;
Fil: Arrías, Paula Nazarena. Royal Institute of Technology; Suecia
Fil: Mozaffari, Soroush. Universita Degli Studi Di Padova. Dipartimento Di Scienze Chimiche.;
Fil: Osmanli, Zarifa. Universita Degli Studi Di Padova. Dipartimento Di Scienze Chimiche.;
Fil: Castro, Ximena Aixa. Universita Degli Studi Di Padova. Dipartimento Di Scienze Chimiche.;
Fil: Borucki, Estefanía Lorena. Universita Degli Studi Di Padova. Dipartimento Di Scienze Chimiche.; . Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Cabrera, Maia Diana Eliana. Universidad Nacional de Quilmes. Departamento de Ciencia y Tecnologia. Laboratorio de Farmacologia Molecular.; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Chinestrad, Patricio Manuel. Universidad Nacional de Quilmes. Departamento de Ciencia y Tecnologia. Laboratorio de Farmacologia Molecular.; Argentina
Fil: Czarnowski, Ian. Universidad Nacional de Quilmes. Departamento de Ciencia y Tecnologia. Laboratorio de Farmacologia Molecular.; Argentina
Fil: Lombardo, Jose Francisco. Universita Degli Studi Di Padova. Dipartimento Di Scienze Chimiche.; . Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Lorenzano Menna, Pablo. Universidad Nacional de Quilmes. Departamento de Ciencia y Tecnologia. Laboratorio de Farmacologia Molecular.; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Mogro, Ezequiel Gerardo. Universita Degli Studi Di Padova. Dipartimento Di Scienze Chimiche.; . Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Padilla Franzotti, Carla Luciana. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Universita Degli Studi Di Padova. Dipartimento Di Scienze Chimiche.;
Fil: Santillan, Julia Yamila. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Universidad Nacional de Quilmes; Argentina
Fil: Ferrari, Carlo. Dipartamento Di Ingegneria Dell' Informazione ; Universita Degli Studi Di Padova;
Fil: Kajava, Andrey V.. Université Montpellier II; Francia
Fil: Tosatto, Silvio C. E.. Universita Degli Studi Di Padova. Dipartimento Di Scienze Chimiche.;
Fil: Monzon, Alexander Miguel. Dipartamento Di Ingegneria Dell' Informazione ; Universita Degli Studi Di Padova;
description RepeatsDB (URL: https://repeatsdb.org) stands as a key resource for the classification and annotation of Structured Tandem Repeat Proteins (STRPs), incorporating data from both the Protein Data Bank (PDB) and AlphaFoldDB. This latest release features substantial advancements, including annotations for over 34 000 unique protein sequences from >2000 organisms, representing a fifteenfold increase in coverage. Leveraging state-of-the-art structural alignment tools, RepeatsDB now offers faster and more precise detection of STRPs across both experimental and predicted structures. Key improvements also include a redesigned user interface and enhanced web server, providing an intuitive browsing experience with improved data searchability and accessibility. A new statistics page allows users to explore database metrics based on repeat classifications, while API enhancements support scalability to manage the growing volume of data. These advancements not only refine the understanding of STRPs but also streamline annotation processes, further strengthening RepeatsDB’s role in advancing our understanding of STRP functions.
publishDate 2025
dc.date.none.fl_str_mv 2025-01
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/11336/280820
Clementel, Damiano; Arrías, Paula Nazarena; Mozaffari, Soroush; Osmanli, Zarifa; Castro, Ximena Aixa; et al.; RepeatsDB in 2025: expanding annotations of structured tandem repeats proteins on AlphaFoldDB; Oxford University Press; Nucleic Acids Research; 53; D1; 1-2025; 575-581
0305-1048
1362-4962
CONICET Digital
CONICET
url http://hdl.handle.net/11336/280820
identifier_str_mv Clementel, Damiano; Arrías, Paula Nazarena; Mozaffari, Soroush; Osmanli, Zarifa; Castro, Ximena Aixa; et al.; RepeatsDB in 2025: expanding annotations of structured tandem repeats proteins on AlphaFoldDB; Oxford University Press; Nucleic Acids Research; 53; D1; 1-2025; 575-581
0305-1048
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/https://academic.oup.com/nar/article/53/D1/D575/7850956
info:eu-repo/semantics/altIdentifier/doi/10.1093/nar/gkae965
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
application/pdf
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 13.176822

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