Folding dynamics and mechanism of β-hairpin formation

Nature ◽  
10.1038/36626 ◽  
1997 ◽  
Vol 390 (6656) ◽  
pp. 196-199 ◽  
Author(s):  
Victor Muñoz ◽  
Peggy A. Thompson ◽  
James Hofrichter ◽  
William A. Eaton
Keyword(s):  
Folding Dynamics ◽  
Hairpin Formation

Monitoring the Structural Dynamics of U2 snRNA Via Single-Molecule Förster Resonance Energy Transfer

2018 ◽  
Author(s):  
Alexander Carl DeHaven
Keyword(s):  
Energy Transfer ◽  
Structural Dynamics ◽  
Single Molecule ◽  
Conformational Dynamics ◽  
Resonance Energy Transfer ◽  
Resonance Energy ◽  
Förster Resonance Energy Transfer ◽  
U2 Snrna ◽  
Folding Dynamics ◽  
The Impact

This thesis contains four topic areas: a review of single-molecule microscropy methods and splicing, conformational dynamics of stem II of the U2 snRNA, the impact of post-transcriptional modifications on U2 snRNA folding dynamics, and preliminary findings on Mango aptamer folding dynamics.

An Improved Turn Structure for Inducing β‐Hairpin Formation in Peptides

2021 ◽  
Author(s):  
James S. Nowick ◽  
Xingyue Li ◽  
Andrew L. Sabol ◽  
Michał Wierzbicki ◽  
Patrick J. Salveson
Keyword(s):  
Turn Structure ◽  
Hairpin Formation

Nanosecond Folding Dynamics of a Three-Stranded β-Sheet

2006 ◽  
Vol 128 (49) ◽  
pp. 15836-15842 ◽  
Author(s):  
Yao Xu ◽  
Pradipta Purkayastha ◽  
Feng Gai
Keyword(s):  
Folding Dynamics ◽  
Β Sheet

scholarly journals Effects of Energetic Heterogeneity on Protein Folding Dynamics Across Many Non-Homologous Proteins

2014 ◽  
Vol 106 (2) ◽  
pp. 673a
Author(s):  
Claude Sinner ◽  
Benjamin Lutz ◽  
Abhinav Verma ◽  
Alexander Schug
Keyword(s):  
Protein Folding ◽  
Homologous Proteins ◽  
Energetic Heterogeneity ◽  
Folding Dynamics

scholarly journals Approach to the unfolding and folding dynamics of add A-riboswitch upon adenine dissociation using a coarse-grained elastic network model

2016 ◽  
Vol 145 (1) ◽  
pp. 014104 ◽  
Author(s):  
Chunhua Li ◽  
Dashuai Lv ◽  
Lei Zhang ◽  
Feng Yang ◽  
Cunxin Wang ◽  
...  
Keyword(s):  
Network Model ◽  
Coarse Grained ◽  
Elastic Network Model ◽  
Elastic Network ◽  
Folding Dynamics

scholarly journals Extensive, Nonrandom Diversity of Excision Footprints Generated by Ds-Like Transposon Ascot-1Suggests New Parallels with V(D)J Recombination

1998 ◽  
Vol 18 (7) ◽  
pp. 4337-4346 ◽  
Author(s):  
Vincent Colot ◽  
Vicki Haedens ◽  
Jean-Luc Rossignol
Keyword(s):  
Extensive Study ◽  
Empty Site ◽  
Site Factors ◽  
Original Sequence ◽  
Ascobolus Immersus ◽  
High Degree ◽  
Hairpin Formation ◽  
Processing Steps ◽  
Color Gene

ABSTRACT Upon insertion, transposable elements can disrupt or alter gene function in various ways. Transposons moving through a cut-and-paste mechanism are in addition often mutagenic when excising because repair of the empty site seldom restores the original sequence. The characterization of numerous excision events in many eukaryotes indicates that transposon excision from a given site can generate a high degree of DNA sequence and phenotypic variation. Whether such variation is generated randomly remains largely to be determined. To this end, we have exploited a well-characterized system of genetic instability in the fungus Ascobolus immersus to perform an extensive study of excision events. We show that this system, which produces many phenotypically and genetically distinct derivatives, results from the excision of a novel Ds-like transposon,Ascot-1, from the spore color gene b2. A unique set of 48 molecularly distinct excision products were readily identified from a representative sample of excision derivatives. Products varied in their frequency of occurrence over 4 orders of magnitude, yet most showed small palindromic nucleotide additions. Based on these and other observations, compelling evidence was obtained for intermediate hairpin formation during the excision reaction and for strong biases in the subsequent processing steps at the empty site. Factors likely to be involved in these biases suggest new parallels between the excision reaction performed by transposons of thehAT family and V(D)J recombination. An evaluation of the contribution of small palindromic nucleotide additions produced by transposon excision to the spectrum of spontaneous mutations is also presented.

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