title: Simulation of Top7-CFr: a transient helix extension guides folding.
abstract: Protein structures often feature beta-sheets in which adjacent beta-strands have large sequence separation. How the folding process orchestrates the formation and correct arrangement of these strands is not comprehensively understood. Particularly challenging are proteins in which beta-strands at the N and C termini are neighbors in a beta-sheet. The N-terminal beta-strand is synthesized early on, but it can not bind to the C terminus before the chain is fully synthesized. During this time, there is a danger that the beta-strand at the N terminus interacts with nearby molecules, leading to potentially harmful aggregates of incompletely folded proteins. Simulations of the C-terminal fragment of Top7 show that this risk of misfolding and aggregation can be avoided by a "caching" mechanism that relies on the "chameleon" behavior of certain segments.
authors.affiliation: John von Neumann Institute for Computing, Research Centre Jülich, 52425 Jülich, Germany.
authors.forename: Sandipan
authors.initials: S
authors.lastname: Mohanty
authors.forename: Jan H
authors.initials: JH
authors.lastname: Meinke
authors.forename: Olav
authors.initials: O
authors.lastname: Zimmermann
authors.forename: Ulrich H E
authors.initials: UH
authors.lastname: Hansmann
mesh_terms: D003198:Computer Simulation; D010446:Peptide Fragments / Q000737:chemistry*; D017510:Protein Folding; D017433:Protein Structure, Secondary; D011506:Proteins / Q000737:chemistry* / Q000378:metabolism*; D013696:Temperature; D013816:Thermodynamics
chemical_list: D010446:Peptide Fragments; D011506:Proteins