Author, as appears in the article.: Magyar, C; Gromiha, MM; Pujadas, G; Tusnady, GE; Simon, I;
Department: Bioquímica i Biotecnologia
e-ISSN: 1362-4962
URV's Author/s: Pujadas Anguiano, Gerard
Keywords: Long-range interactions Identification Folded proteins Centers
Abstract: Residues expected to play key roles in the stabilization of proteins [stabilizing residues (SRs)] are selected by combining several methods based mainly on the interactions of a given residue with its spatial, rather than its sequential neighborhood and by considering the evolutionary conservation of the residues. A residue is selected as a stabilizing residue if it has high surrounding hydrophobicity, high long-range order, high conservation score and if it belongs to a stabilization center. The definition of all these parameters and the thresholds used to identify the SRs are discussed in detail. The algorithm for identifying SRs was originally developed for TIM-barrel proteins [M. M. Gromiha, G. Pujadas, C. Magyar, S. Selvaraj, and I. Simon (2004), Proteins, 55, 316-329] and is now generalized for all proteins of known 3D structure. SRs could be applied in protein engineering and homology modeling and could also help to explain certain folds with significant stability. The SRide server is located at http://sride.enzim.hu.
Thematic Areas: Zootecnia / recursos pesqueiros Saúde coletiva Química Nutrição Medicina ii Medicina i Matemática / probabilidade e estatística Interdisciplinar Genetics Farmacia Engenharias ii Ciências biológicas iii Ciências biológicas ii Ciências biológicas i Ciências agrárias i Ciência da computação Biotecnología Biodiversidade Biochemistry & molecular biology Astronomia / física
licence for use: https://creativecommons.org/licenses/by/3.0/es/
ISSN: 0305-1048
Author's mail: gerard.pujadas@urv.cat
Author identifier: 0000-0003-2598-8089
Last page: W305
Record's date: 2023-02-18
Journal volume: 33
Papper version: info:eu-repo/semantics/publishedVersion
Link to the original source: https://academic.oup.com/nar/article/33/suppl_2/W303/2505549
Papper original source: Nucleic Acids Research. 33 (Supl 2): W303-W305
APA: Magyar, C; Gromiha, MM; Pujadas, G; Tusnady, GE; Simon, I; (2005). SRide: a server for identifying stabilizing residues in proteins. Nucleic Acids Research, 33(Supl 2), W303-W305. DOI: 10.1093/nar/gki409
Licence document URL: https://repositori.urv.cat/ca/proteccio-de-dades/
Article's DOI: 10.1093/nar/gki409
Entity: Universitat Rovira i Virgili
Journal publication year: 2005
First page: W303
Publication Type: Journal Publications
Repositori URV