Simple approach for ranking structure determining residues
Author(s) -
Oscar D. LunaMartínez,
Abraham VidalLimon,
Miryam Villalba-Velázquez,
Rosalba SánchezAlcalá,
Ramón GarduñoJuárez,
Vladimir N. Uversky,
Baltazar Becerril
Publication year - 2016
Publication title -
peerj
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.927
H-Index - 70
ISSN - 2167-8359
DOI - 10.7717/peerj.2136
Subject(s) - ranking (information retrieval) , simple (philosophy) , computer science , globular protein , topology (electrical circuits) , task (project management) , stability (learning theory) , protein structure , identification (biology) , sequence (biology) , computational biology , data mining , machine learning , mathematics , biology , genetics , engineering , combinatorics , biochemistry , philosophy , systems engineering , epistemology , botany
Mutating residues has been a common task in order to study structural properties of the protein of interest. Here, we propose and validate a simple method that allows the identification of structural determinants; i.e., residues essential for preservation of the stability of global structure, regardless of the protein topology. This method evaluates all of the residues in a 3D structure of a given globular protein by ranking them according to their connectivity and movement restrictions without topology constraints. Our results matched up with sequence-based predictors that look up for intrinsically disordered segments, suggesting that protein disorder can also be described with the proposed methodology.
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