کد مقاله کد نشریه سال انتشار مقاله انگلیسی نسخه تمام متن
1393320 1501203 2009 11 صفحه PDF دانلود رایگان
عنوان انگلیسی مقاله ISI
A set of new amino acid descriptors applied in prediction of MHC class I binding peptides
موضوعات مرتبط
مهندسی و علوم پایه شیمی شیمی آلی
پیش نمایش صفحه اول مقاله
A set of new amino acid descriptors applied in prediction of MHC class I binding peptides
چکیده انگلیسی

A set of new amino acid descriptors, namely factor analysis scales of generalized amino acid information (FASGAI) involving hydrophobicity, alpha and turn propensities, bulky properties, compositional characteristics, local flexibility and electronic properties, was proposed to resolve the representation of peptide structures. FASGAI vectors were then used to represent the structures of 152 HLA-A∗0201 restrictive T-cell epitopes with 9 amino acid residues. The features that are closely related to binding affinities were selected by genetic arithmetic, and the model based on partial least squares was developed to predict binding affinities. The model revealed promising predictive power, giving relatively high predictions for training and test samples. Further, the PreMHCbinding program at significantly lower computational complexity was exploited to predict MHC class I binding peptides. Quantitative structure–affinity relationship analyses demonstrated the bulky properties and hydrophobicity of the 3rd residue, bulky properties of the 2nd residue, hydrophobicity of the 9th residue that provided high positive contribution to the binding affinities, and that the hydrophobicity of the 4th residue and local flexibility of the 3rd residue were negative to binding affinities. The results showed that FASGAI vectors can be further utilized to represent the structures of other functional peptides; moreover, it has thus showed us further direction into the potential applications on relationship between structures and functions of proteins.

A set of new amino acid descriptors was proposed to resolve the representation of peptide structures. Quantitative structure–affinity relationship analyses on the 152 HLA-A∗0201 restrictive T-cell epitopes with 9 amino acid residues were then performed using FASGAI vectors. Further, the PreMHCbinding program at significantly lower computational complexity was exploited to predict MHC class I binding peptides. Figure optionsDownload as PowerPoint slide

ناشر
Database: Elsevier - ScienceDirect (ساینس دایرکت)
Journal: European Journal of Medicinal Chemistry - Volume 44, Issue 3, March 2009, Pages 1144–1154
نویسندگان
, , , , , ,