dorsal/arxiv
View SchemaNetwork analysis of protein dynamics
| Authors | Csaba Bode, Istvan A. Kovacs, Mate S. Szalay, Robin Palotai, Tamas Korcsmaros, Peter Csermely |
|---|---|
| Categories | |
| ArXiv ID | q-bio/0703025 |
| URL | https://arxiv.org/abs/q-bio/0703025 |
| Journal | FEBS Letters 581:2776-2782 (2007) |
Abstract
The network paradigm is increasingly used to describe the topology and dynamics of complex systems. Here we review the results of the topological analysis of protein structures as molecular networks describing their small-world character, and the role of hubs and central network elements in governing enzyme activity, allosteric regulation, protein motor function, signal transduction and protein stability. We summarize available data how central network elements are enriched in active centers and ligand binding sites directing the dynamics of the entire protein. We assess the feasibility of conformational and energy networks to simplify the vast complexity of rugged energy landscapes and to predict protein folding and dynamics. Finally, we suggest that modular analysis, novel centrality measures, hierarchical representation of networks and the analysis of network dynamics will soon lead to an expansion of this field.
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"abstract": "The network paradigm is increasingly used to describe the topology and\ndynamics of complex systems. Here we review the results of the topological\nanalysis of protein structures as molecular networks describing their\nsmall-world character, and the role of hubs and central network elements in\ngoverning enzyme activity, allosteric regulation, protein motor function,\nsignal transduction and protein stability. We summarize available data how\ncentral network elements are enriched in active centers and ligand binding\nsites directing the dynamics of the entire protein. We assess the feasibility\nof conformational and energy networks to simplify the vast complexity of rugged\nenergy landscapes and to predict protein folding and dynamics. Finally, we\nsuggest that modular analysis, novel centrality measures, hierarchical\nrepresentation of networks and the analysis of network dynamics will soon lead\nto an expansion of this field.",
"arxiv_id": "q-bio/0703025",
"authors": [
"Csaba Bode",
"Istvan A. Kovacs",
"Mate S. Szalay",
"Robin Palotai",
"Tamas Korcsmaros",
"Peter Csermely"
],
"categories": [
"q-bio.BM"
],
"journal_ref": "FEBS Letters 581:2776-2782 (2007)",
"title": "Network analysis of protein dynamics",
"url": "https://arxiv.org/abs/q-bio/0703025"
},
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