Abstract
Background and Objective: The rapidly growing number of protein data available creates necessity of computational methods with low complexity to infer accurate protein structure, function, and evolution.
Method: A new description of proteins based on five topological indices of star-like graph representation and the occurrence frequency of 20 amino acids was proposed to compare the similarities of proteins. Results: A phylogenetic tree of eight ND6 proteins was constructed to demonstrate the effectiveness and rationality of our approach. Analogously, we applied this method to RNA polymerase proteins of some subtypes of influenza virus to infer their phylogenetic relationship. The results showed that the phylogenetic relationship among RNA polymerase of influenza virus is closely related to distributions of species virus host and geographical distribution. Conclusion: This novel approach is based on a mapping which can be recaptured mathematically without loss of information.Keywords: RNA polymerase, star-like graph, pseudo amino acids composition, phylogenetic tree, alignment-free, topological indices.
Combinatorial Chemistry & High Throughput Screening
Title:A Novel Protein Characterization Based on Pseudo Amino Acids Composition and Star-Like Graph Topological Indices
Volume: 20 Issue: 4
Author(s): Ping-an He*, Hong Tao, Tingting Ma, Qi Dai and Yuhua Yao
Affiliation:
- School of Science, Zhejiang Sci-Tech University, Hangzhou 310018,China
Keywords: RNA polymerase, star-like graph, pseudo amino acids composition, phylogenetic tree, alignment-free, topological indices.
Abstract: Background and Objective: The rapidly growing number of protein data available creates necessity of computational methods with low complexity to infer accurate protein structure, function, and evolution.
Method: A new description of proteins based on five topological indices of star-like graph representation and the occurrence frequency of 20 amino acids was proposed to compare the similarities of proteins. Results: A phylogenetic tree of eight ND6 proteins was constructed to demonstrate the effectiveness and rationality of our approach. Analogously, we applied this method to RNA polymerase proteins of some subtypes of influenza virus to infer their phylogenetic relationship. The results showed that the phylogenetic relationship among RNA polymerase of influenza virus is closely related to distributions of species virus host and geographical distribution. Conclusion: This novel approach is based on a mapping which can be recaptured mathematically without loss of information.Export Options
About this article
Cite this article as:
He Ping-an*, Tao Hong, Ma Tingting, Dai Qi and Yao Yuhua, A Novel Protein Characterization Based on Pseudo Amino Acids Composition and Star-Like Graph Topological Indices, Combinatorial Chemistry & High Throughput Screening 2017; 20 (4) . https://dx.doi.org/10.2174/1386207320666170217152811
DOI https://dx.doi.org/10.2174/1386207320666170217152811 |
Print ISSN 1386-2073 |
Publisher Name Bentham Science Publisher |
Online ISSN 1875-5402 |
Call for Papers in Thematic Issues
Artificial Intelligence Methods for Biomedical, Biochemical and Bioinformatics Problems
Recently, a large number of technologies based on artificial intelligence have been developed and applied to solve a diverse range of problems in the areas of biomedical, biochemical and bioinformatics problems. By utilizing powerful computing resources and massive amounts of data, methods based on artificial intelligence can significantly improve the ...read more
Eco-friendly Agents for Biological Control of Pathogenic Diseases
The discovery of an alternative biological approach to disease management includes work on medicinal products derived from natural sources as a starting point for the development of eco-friendly agents for these diseases and the injuries they cause, as well as reducing human contact with hazardous chemicals and their residues. We ...read more
Emerging trends in diseases mechanisms, noble drug targets and therapeutic strategies: focus on immunological and inflammatory disorders
Recently infectious and inflammatory diseases have been a key concern worldwide due to tremendous morbidity and mortality world Wide. Recent, nCOVID-9 pandemic is a good example for the emerging infectious disease outbreak. The world is facing many emerging and re-emerging diseases out breaks at present however, there is huge lack ...read more
Exploring Spectral Graph Theory in Combinatorial Chemistry
Scope of the Thematic Issue: Combinatorial chemistry involves the synthesis and analysis of a large number of diverse compounds simultaneously. Traditional methods rely on brute force experimentation, which can be time-consuming and resource-intensive. Spectral Graph Theory, a branch of mathematics dealing with the properties of graphs in relation to the ...read more
- Author Guidelines
- Graphical Abstracts
- Fabricating and Stating False Information
- Research Misconduct
- Post Publication Discussions and Corrections
- Publishing Ethics and Rectitude
- Increase Visibility of Your Article
- Archiving Policies
- Peer Review Workflow
- Order Your Article Before Print
- Promote Your Article
- Manuscript Transfer Facility
- Editorial Policies
- Allegations from Whistleblowers