Small-world view of the amino acids that play a key role in protein folding

M. Vendruscolo, N. V. Dokholyan, E. Paci, M. Karplus

Research output: Contribution to journalArticle

260 Citations (Scopus)

Abstract

We use geometrical considerations to provide a different perspective on the fact that a few selected amino acids, the so-called "key residues," act as nucleation centers for protein folding. By constructing graphs corresponding to protein structures we show that they have the "small-world" feature of having a limited set of vertices with large connectivity. These vertices correspond to the key residues that play the role of "hubs" in the network of interactions that stabilize the structure of the transition state.

Original languageEnglish (US)
Article number061910
Pages (from-to)061910/1-061910/4
JournalPhysical Review E - Statistical, Nonlinear, and Soft Matter Physics
Volume65
Issue number6
DOIs
StatePublished - Jun 1 2002

Fingerprint

Protein Folding
Small World
folding
amino acids
Amino Acids
apexes
proteins
Transition State
hubs
Protein Structure
Nucleation
Connectivity
nucleation
Graph in graph theory
Interaction
interactions

All Science Journal Classification (ASJC) codes

  • Statistical and Nonlinear Physics
  • Statistics and Probability
  • Condensed Matter Physics

Cite this

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Small-world view of the amino acids that play a key role in protein folding. / Vendruscolo, M.; Dokholyan, N. V.; Paci, E.; Karplus, M.

In: Physical Review E - Statistical, Nonlinear, and Soft Matter Physics, Vol. 65, No. 6, 061910, 01.06.2002, p. 061910/1-061910/4.

Research output: Contribution to journalArticle

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