Literature DB >> 21978577

Residual structure in unfolded proteins.

Bruce E Bowler1.   

Abstract

The denatured state ensemble (DSE) of unfolded proteins, once considered to be well-modeled by an energetically featureless random coil, is now well-known to contain flickering elements of residual structure. The position and nature of DSE residual structure may provide clues toward deciphering the protein folding code. This review focuses on recent advances in our understanding of the nature of DSE collapse under folding conditions, the quantification of the stability of residual structure in the DSE, the determination of the location and types of residues involved in thermodynamically significant residual structure and advances in detection of long-range interactions in the DSE. Copyright Â
© 2011 Elsevier Ltd. All rights reserved.

Entities:  

Mesh:

Substances:

Year:  2011        PMID: 21978577      PMCID: PMC3440947          DOI: 10.1016/j.sbi.2011.09.002

Source DB:  PubMed          Journal:  Curr Opin Struct Biol        ISSN: 0959-440X            Impact factor:   6.809


  61 in total

1.  Denatured-state energy landscapes of a protein structural database reveal the energetic determinants of a framework model for folding.

Authors:  Suwei Wang; Jenny Gu; Scott A Larson; Steven T Whitten; Vincent J Hilser
Journal:  J Mol Biol       Date:  2008-06-24       Impact factor: 5.469

2.  Early closure of a long loop in the refolding of adenylate kinase: a possible key role of non-local interactions in the initial folding steps.

Authors:  Tomer Orevi; Eldad Ben Ishay; Menachem Pirchi; Maik H Jacob; Dan Amir; Elisha Haas
Journal:  J Mol Biol       Date:  2008-11-05       Impact factor: 5.469

3.  Modeling transient collapsed states of an unfolded protein to provide insights into early folding events.

Authors:  Daniel J Felitsky; Michael A Lietzow; H Jane Dyson; Peter E Wright
Journal:  Proc Natl Acad Sci U S A       Date:  2008-04-23       Impact factor: 11.205

Review 4.  The protein folding problem.

Authors:  Ken A Dill; S Banu Ozkan; M Scott Shell; Thomas R Weikl
Journal:  Annu Rev Biophys       Date:  2008       Impact factor: 12.981

5.  Atomistic simulations of the effects of polyglutamine chain length and solvent quality on conformational equilibria and spontaneous homodimerization.

Authors:  Andreas Vitalis; Xiaoling Wang; Rohit V Pappu
Journal:  J Mol Biol       Date:  2008-09-18       Impact factor: 5.469

6.  The low-pH unfolded state of the C-terminal domain of the ribosomal protein L9 contains significant secondary structure in the absence of denaturant but is no more compact than the low-pH urea unfolded state.

Authors:  Bing Shan; Shibani Bhattacharya; David Eliezer; Daniel P Raleigh
Journal:  Biochemistry       Date:  2008-08-16       Impact factor: 3.162

Review 7.  Structure and energetics of the hydrogen-bonded backbone in protein folding.

Authors:  D Wayne Bolen; George D Rose
Journal:  Annu Rev Biochem       Date:  2008       Impact factor: 23.643

8.  Effects of denaturants and osmolytes on proteins are accurately predicted by the molecular transfer model.

Authors:  Edward P O'Brien; Guy Ziv; Gilad Haran; Bernard R Brooks; D Thirumalai
Journal:  Proc Natl Acad Sci U S A       Date:  2008-08-29       Impact factor: 11.205

Review 9.  Biophysical characterization of intrinsically disordered proteins.

Authors:  David Eliezer
Journal:  Curr Opin Struct Biol       Date:  2009-01-21       Impact factor: 6.809

10.  Urea, but not guanidinium, destabilizes proteins by forming hydrogen bonds to the peptide group.

Authors:  Woon Ki Lim; Jörg Rösgen; S Walter Englander
Journal:  Proc Natl Acad Sci U S A       Date:  2009-02-05       Impact factor: 11.205

View more
  26 in total

1.  Insights into Unfolded Proteins from the Intrinsic ϕ/ψ Propensities of the AAXAA Host-Guest Series.

Authors:  Clare-Louise Towse; Jiri Vymetal; Jiri Vondrasek; Valerie Daggett
Journal:  Biophys J       Date:  2016-01-19       Impact factor: 4.033

2.  Folding of a large protein at high structural resolution.

Authors:  Benjamin T Walters; Leland Mayne; James R Hinshaw; Tobin R Sosnick; S Walter Englander
Journal:  Proc Natl Acad Sci U S A       Date:  2013-11-04       Impact factor: 11.205

3.  A compact native 24-residue supersecondary structure derived from the villin headpiece subdomain.

Authors:  Henry G Hocking; Florian Häse; Tobias Madl; Martin Zacharias; Matthias Rief; Gabriel Žoldák
Journal:  Biophys J       Date:  2015-02-03       Impact factor: 4.033

4.  Stepwise protein folding at near amino acid resolution by hydrogen exchange and mass spectrometry.

Authors:  Wenbing Hu; Benjamin T Walters; Zhong-Yuan Kan; Leland Mayne; Laura E Rosen; Susan Marqusee; S Walter Englander
Journal:  Proc Natl Acad Sci U S A       Date:  2013-04-19       Impact factor: 11.205

5.  Effect of an Imposed Contact on Secondary Structure in the Denatured State of Yeast Iso-1-cytochrome c.

Authors:  Travis A Danielson; Jessica M Stine; Tanveer A Dar; Klara Briknarova; Bruce E Bowler
Journal:  Biochemistry       Date:  2017-12-08       Impact factor: 3.162

Review 6.  Hypothesis: structural heterogeneity of the unfolded proteins originating from the coupling of the local clusters and the long-range distance distribution.

Authors:  Satoshi Takahashi; Aya Yoshida; Hiroyuki Oikawa
Journal:  Biophys Rev       Date:  2018-02-14

7.  Exploring the Denatured State Ensemble by Single-Molecule Chemo-Mechanical Unfolding: The Effect of Force, Temperature, and Urea.

Authors:  Emily J Guinn; Susan Marqusee
Journal:  J Mol Biol       Date:  2017-08-04       Impact factor: 5.469

8.  Improving the Accuracy of Protein Thermostability Predictions for Single Point Mutations.

Authors:  Jianxin Duan; Dmitry Lupyan; Lingle Wang
Journal:  Biophys J       Date:  2020-05-29       Impact factor: 4.033

9.  Minimal effects of macromolecular crowding on an intrinsically disordered protein: a small-angle neutron scattering study.

Authors:  David P Goldenberg; Brian Argyle
Journal:  Biophys J       Date:  2014-02-18       Impact factor: 4.033

10.  Advances in turbulent mixing techniques to study microsecond protein folding reactions.

Authors:  Sagar V Kathuria; Alexander Chan; Rita Graceffa; R Paul Nobrega; C Robert Matthews; Thomas C Irving; Blair Perot; Osman Bilsel
Journal:  Biopolymers       Date:  2013-11       Impact factor: 2.505

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.