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A Modified Amino Acid Network Model Contains Similar and Dissimilar Weight
For a more detailed description of the interaction between residues, this paper proposes an amino acid network model, which contains two types of weight—similar weight and dissimilar weight. The weight of the link is based on a self-consistent statistical contact potential between different types of...
Autores principales: | , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Hindawi Publishing Corporation
2013
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3549380/ https://www.ncbi.nlm.nih.gov/pubmed/23365624 http://dx.doi.org/10.1155/2013/197892 |
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author | Jiao, Xiong Yang, Lifeng An, Meiwen Chen, Weiyi |
author_facet | Jiao, Xiong Yang, Lifeng An, Meiwen Chen, Weiyi |
author_sort | Jiao, Xiong |
collection | PubMed |
description | For a more detailed description of the interaction between residues, this paper proposes an amino acid network model, which contains two types of weight—similar weight and dissimilar weight. The weight of the link is based on a self-consistent statistical contact potential between different types of amino acids. In this model, we can get a more reasonable representation of the distance between residues. Furthermore, with the network parameter, average shortest path length, we can get a more accurate reflection of the molecular size. This amino acid network is a “small-world” network, and the network parameter is sensitive to the conformation change of protein. For some disease-related proteins, the highly central residues of the amino acid network are highly correlated with the hot spots. In the compound with the related drug, these residues either interacted directly with the drug or with the residue which is in contact with the drug. |
format | Online Article Text |
id | pubmed-3549380 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2013 |
publisher | Hindawi Publishing Corporation |
record_format | MEDLINE/PubMed |
spelling | pubmed-35493802013-01-30 A Modified Amino Acid Network Model Contains Similar and Dissimilar Weight Jiao, Xiong Yang, Lifeng An, Meiwen Chen, Weiyi Comput Math Methods Med Research Article For a more detailed description of the interaction between residues, this paper proposes an amino acid network model, which contains two types of weight—similar weight and dissimilar weight. The weight of the link is based on a self-consistent statistical contact potential between different types of amino acids. In this model, we can get a more reasonable representation of the distance between residues. Furthermore, with the network parameter, average shortest path length, we can get a more accurate reflection of the molecular size. This amino acid network is a “small-world” network, and the network parameter is sensitive to the conformation change of protein. For some disease-related proteins, the highly central residues of the amino acid network are highly correlated with the hot spots. In the compound with the related drug, these residues either interacted directly with the drug or with the residue which is in contact with the drug. Hindawi Publishing Corporation 2013 2013-01-02 /pmc/articles/PMC3549380/ /pubmed/23365624 http://dx.doi.org/10.1155/2013/197892 Text en Copyright © 2013 Xiong Jiao et al. https://creativecommons.org/licenses/by/3.0/ This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Research Article Jiao, Xiong Yang, Lifeng An, Meiwen Chen, Weiyi A Modified Amino Acid Network Model Contains Similar and Dissimilar Weight |
title | A Modified Amino Acid Network Model Contains Similar and Dissimilar Weight |
title_full | A Modified Amino Acid Network Model Contains Similar and Dissimilar Weight |
title_fullStr | A Modified Amino Acid Network Model Contains Similar and Dissimilar Weight |
title_full_unstemmed | A Modified Amino Acid Network Model Contains Similar and Dissimilar Weight |
title_short | A Modified Amino Acid Network Model Contains Similar and Dissimilar Weight |
title_sort | modified amino acid network model contains similar and dissimilar weight |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3549380/ https://www.ncbi.nlm.nih.gov/pubmed/23365624 http://dx.doi.org/10.1155/2013/197892 |
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