Por favor, use este identificador para citar o enlazar a este item:
http://hdl.handle.net/10261/51825
COMPARTIR / EXPORTAR:
SHARE BASE | |
Visualizar otros formatos: MARC | Dublin Core | RDF | ORE | MODS | METS | DIDL | DATACITE | |
Título: | Interface similarity improves comparison of DNA-binding proteins: the homeobox example |
Autor: | Sebastián Yagüe, Álvaro CSIC; Pérez Cantalapiedra, Carlos CSIC ORCID; Contreras-Moreira, Bruno CSIC ORCID | Palabras clave: | protein-DNA transcription factor recognition specificity homeodomains homeobox |
Fecha de publicación: | 2012 | Editor: | Springer Nature | Citación: | Bioinformatics for Personalized Medicine (Freitas AT, Navarro A, eds.). Lecture Notes in Computer Science 6620: pp 72-82 (2012) | Resumen: | The recently published 3D-footprint database contains an up-to-date repository of protein-DNA complexes of known structure that belong to different superfamilies and bind to DNA with distinct specificities. This repository can be scanned by means of sequence alignments in order to look for similar DNA-binding proteins, which might in turn recognize similar DNA motifs. Here we take the complete set of Homeobox proteins from Drosophila melanogaster and their preferred DNA motifs, which would fall in the largest 3D-footprint superfamily and were recently characterized by Noyes and collaborators, and annotate their interface residues. We then analyze the observed amino acid substitutions at equivalent interface positions and their effect on recognition. Finally we estimate to what extent interface similarity, computed over the set of residues which mediate DNA recognition, outperforms BLAST expectation values when deciding whether two aligned Homeobox proteins might bind to the same DNA motif. | Descripción: | 10th Spanish Symposium, JBI 2010, Torremolinos, Spain, October 27-29, 2010. Revised Selected Papers | Versión del editor: | http://dx.doi.org/10.1007/978-3-642-28062-7_8 | URI: | http://hdl.handle.net/10261/51825 | DOI: | 10.1007/978-3-642-28062-7_8 | ISBN: | 978-3-642-28061-0 978-3-642-28062-7 |
ISSN: | 0302-9743 |
Aparece en las colecciones: | (EEAD) Libros y partes de libros |
Ficheros en este ítem:
Fichero | Descripción | Tamaño | Formato | |
---|---|---|---|---|
LNCS_2012_6620_72-82.pdf | 548,43 kB | Adobe PDF | Visualizar/Abrir |
CORE Recommender
Page view(s)
420
checked on 18-mar-2024
Download(s)
295
checked on 18-mar-2024
Google ScholarTM
Check
Altmetric
Altmetric
NOTA: Los ítems de Digital.CSIC están protegidos por copyright, con todos los derechos reservados, a menos que se indique lo contrario.