Author, as appears in the article.: Viñuales, Y. Negrete, J. Palau, J.
Department: Bioquímica i Biotecnologia
URV's Author/s: VIÑUALES ELIAS, YOLANDA Negrete, J. Palau, J.
Keywords: helical patterns hydrophilic residues hydrophobic residues
Abstract: We made several statistical analyses in a large sample of nearly 4,000 helices (from 546 redundancy-controlled PDB protein subunits), which give new insights into the helical properties of globular proteins. In a first experiment, the amino acid composition of the whole sample was compared with the composition of two helical sample subgroups (the “mainly-α” and the “(α/β)8 barrel” domain classes); we reached the conclusion that composition-based helical propensities for secondary structure prediction do not depend on the structural class.
Running a five-residue window through the whole sample, the positional composition revealed that positive and negative residues are located throughout the helices and tend to neutralize the macrodipole effect. On this basis, we analyzed charged triplets using a running five-residue window. The conclusion was that only mixed charged residues [positive (+) and negative (-)] located at positions 1-2-5 and 1-4-5 are clearly favored. In these locations the most abundant are (–.+) and (-.++), and this shows the existence of side chain microdipoles, which neutralize the large macrodipole of the helix.
Thematic Areas: Antropologia Antropología Anthropology
licence for use: https://creativecommons.org/licenses/by/3.0/es/
ISSN: 0961-8368
Author identifier: n/a n/a n/a
Record's date: 2015-02-19
Last page: 1379
Journal volume: 7
Papper version: info:eu-repo/semantics/publishedVersion
Licence document URL: https://repositori.urv.cat/ca/proteccio-de-dades/
Entity: Universitat Rovira i Virgili
Journal publication year: 1998
First page: 1368
Publication Type: Article Artículo Article
Repositori URV