2003
DOI: 10.1016/j.jmb.2003.08.061
|View full text |Cite
|
Sign up to set email alerts
|

Uncovering Network Systems Within Protein Structures

Help me understand this report

Search citation statements

Order By: Relevance

Paper Sections

Select...
2
1

Citation Types

10
271
0

Year Published

2004
2004
2018
2018

Publication Types

Select...
6
3

Relationship

0
9

Authors

Journals

citations
Cited by 264 publications
(281 citation statements)
references
References 36 publications
10
271
0
Order By: Relevance
“…In practice, a network is said to be small-world if its average path length and clustering coefficient lie between the estimated values calculated for random and regular networks with similar properties (see Methods). 32,35 All of the chemoinformatics threshold networks were found to be small-world, as their average path lengths and clustering coefficients were between those of their corresponding random and regular networks ( Figure 3). In contrast, the sequence-based network was not small-world; its clustering coefficient was higher than that of its corresponding regular networks.…”
Section: Properties Of the Threshold Networkmentioning
confidence: 99%
“…In practice, a network is said to be small-world if its average path length and clustering coefficient lie between the estimated values calculated for random and regular networks with similar properties (see Methods). 32,35 All of the chemoinformatics threshold networks were found to be small-world, as their average path lengths and clustering coefficients were between those of their corresponding random and regular networks ( Figure 3). In contrast, the sequence-based network was not small-world; its clustering coefficient was higher than that of its corresponding regular networks.…”
Section: Properties Of the Threshold Networkmentioning
confidence: 99%
“…For this purpose, we investigate the stabilization network of four proteins of various sizes. The graphs which describes contacts between residues in proteins have been widely studied in the framework of network theory [6][7][8][9][10]. However, since proteins are frustrated systems, not all contacts play the same role in stabilizing the native conformation.…”
Section: Introductionmentioning
confidence: 99%
“…Moreover, the possible transitions between free-energy minima cannot be displayed in such projections which hinder the study of pathways and folding intermediates. The characterization of the free-energy minima and the connectivity among them, i.e., possible transitions between minima, for peptides and proteins is still an unresolved problem.In the last five years many complex systems, like the World-Wide Web, metabolic pathways, and protein structures have been modeled as networks 5,6,7 . Intriguingly, common topological properties have emerged from their organization 8 .…”
mentioning
confidence: 99%
“…In the last five years many complex systems, like the World-Wide Web, metabolic pathways, and protein structures have been modeled as networks 5,6,7 . Intriguingly, common topological properties have emerged from their organization 8 .…”
mentioning
confidence: 99%