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作者:

Lai, Zaizhi (Lai, Zaizhi.) | Su, Jiguo (Su, Jiguo.) | Chen, Weizu (Chen, Weizu.) | Wang, Cunxin (Wang, Cunxin.)

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摘要:

The conformation spaces generated by short hydrophobic-hydrophilic (HP) lattice chains are mapped to conformation space networks (CSNs). The vertices (nodes) of the network are the conformations and the links are the transitions between them. It has been found that these networks have "small-world" properties without considering the interaction energy of the monomers in the chain, i.e. the hydrophobic or hydrophilic amino acids inside the chain. When the weight based on the interaction energy of the monomers in the chain is added to the CSNs, it is found that the weighted networks show the "scale-free" characteristic. In addition, it reveals that there is a connection between the scale-free property of the weighted CSN and the folding dynamics of the chain by investigating the relationship between the scale-free structure of the weighted CSN and the noted parameter Z score. Moreover, the modular (community) structure of weighted CSNs is also studied. These results are helpful to understand the topological properties of the CSN and the underlying free-energy landscapes.

关键词:

Complex Network Conformation Space Protein Folding

作者机构:

  • [ 1 ] [Lai, Zaizhi]Beijing Univ Technol, Coll Life Sci & Bioengn, Beijing 100124, Peoples R China
  • [ 2 ] [Su, Jiguo]Beijing Univ Technol, Coll Life Sci & Bioengn, Beijing 100124, Peoples R China
  • [ 3 ] [Chen, Weizu]Beijing Univ Technol, Coll Life Sci & Bioengn, Beijing 100124, Peoples R China
  • [ 4 ] [Wang, Cunxin]Beijing Univ Technol, Coll Life Sci & Bioengn, Beijing 100124, Peoples R China
  • [ 5 ] [Su, Jiguo]Yanshan Univ, Coll Sci, Qinhuangdao 066004, Peoples R China

通讯作者信息:

  • [Wang, Cunxin]Beijing Univ Technol, Coll Life Sci & Bioengn, Beijing 100124, Peoples R China

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来源 :

INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

ISSN: 1422-0067

年份: 2009

期: 4

卷: 10

页码: 1808-1823

5 . 6 0 0

JCR@2022

ESI学科: CHEMISTRY;

JCR分区:2

中科院分区:1

被引次数:

WoS核心集被引频次: 10

SCOPUS被引频次: 12

ESI高被引论文在榜: 0 展开所有

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