Literature DB >> 17585870

Protein folding: then and now.

Yiwen Chen1, Feng Ding, Huifen Nie, Adrian W Serohijos, Shantanu Sharma, Kyle C Wilcox, Shuangye Yin, Nikolay V Dokholyan.   

Abstract

Over the past three decades the protein folding field has undergone monumental changes. Originally a purely academic question, how a protein folds has now become vital in understanding diseases and our abilities to rationally manipulate cellular life by engineering protein folding pathways. We review and contrast past and recent developments in the protein folding field. Specifically, we discuss the progress in our understanding of protein folding thermodynamics and kinetics, the properties of evasive intermediates, and unfolded states. We also discuss how some abnormalities in protein folding lead to protein aggregation and human diseases.

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Year:  2007        PMID: 17585870      PMCID: PMC2173875          DOI: 10.1016/j.abb.2007.05.014

Source DB:  PubMed          Journal:  Arch Biochem Biophys        ISSN: 0003-9861            Impact factor:   4.013


  231 in total

1.  Soluble pool of Abeta amyloid as a determinant of severity of neurodegeneration in Alzheimer's disease.

Authors:  C A McLean; R A Cherny; F W Fraser; S J Fuller; M J Smith; K Beyreuther; A I Bush; C L Masters
Journal:  Ann Neurol       Date:  1999-12       Impact factor: 10.422

2.  Mechanical unfolding intermediates in titin modules.

Authors:  P E Marszalek; H Lu; H Li; M Carrion-Vazquez; A F Oberhauser; K Schulten; J M Fernandez
Journal:  Nature       Date:  1999-11-04       Impact factor: 49.962

3.  A simple model for calculating the kinetics of protein folding from three-dimensional structures.

Authors:  V Muñoz; W A Eaton
Journal:  Proc Natl Acad Sci U S A       Date:  1999-09-28       Impact factor: 11.205

4.  Hydrodynamic radii of native and denatured proteins measured by pulse field gradient NMR techniques.

Authors:  D K Wilkins; S B Grimshaw; V Receveur; C M Dobson; J A Jones; L J Smith
Journal:  Biochemistry       Date:  1999-12-14       Impact factor: 3.162

5.  Experiment and theory highlight role of native state topology in SH3 folding.

Authors:  D S Riddle; V P Grantcharova; J V Santiago; E Alm; I Ruczinski; D Baker
Journal:  Nat Struct Biol       Date:  1999-11

Review 6.  Is protein folding hierarchic? II. Folding intermediates and transition states.

Authors:  R L Baldwin; G D Rose
Journal:  Trends Biochem Sci       Date:  1999-02       Impact factor: 13.807

7.  ES/IS: estimation of conformational free energy by combining dynamics simulations with explicit solvent with an implicit solvent continuum model.

Authors:  Y N Vorobjev; J Hermans
Journal:  Biophys Chem       Date:  1999-04-05       Impact factor: 2.352

8.  Protein folding bottlenecks: A lattice Monte Carlo simulation.

Authors: 
Journal:  Phys Rev Lett       Date:  1991-09-16       Impact factor: 9.161

Review 9.  Cytoarchitecture and physical properties of cytoplasm: volume, viscosity, diffusion, intracellular surface area.

Authors:  K Luby-Phelps
Journal:  Int Rev Cytol       Date:  2000

10.  Soluble amyloid beta peptide concentration as a predictor of synaptic change in Alzheimer's disease.

Authors:  L F Lue; Y M Kuo; A E Roher; L Brachova; Y Shen; L Sue; T Beach; J H Kurth; R E Rydel; J Rogers
Journal:  Am J Pathol       Date:  1999-09       Impact factor: 4.307

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  30 in total

1.  Towards an integrated understanding of the structural characteristics of protein residue networks.

Authors:  Susan Khor
Journal:  Theory Biosci       Date:  2011-09-27       Impact factor: 1.919

2.  Changes of protein stiffness during folding detect protein folding intermediates.

Authors:  Katarzyna E Małek; Robert Szoszkiewicz
Journal:  J Biol Phys       Date:  2013-08-24       Impact factor: 1.365

3.  Distinct Binding Modes of Vinculin Isoforms Underlie Their Functional Differences.

Authors:  Andrey Krokhotin; Muzaddid Sarker; Ernesto Alva Sevilla; Lindsey M Costantini; Jack D Griffith; Sharon L Campbell; Nikolay V Dokholyan
Journal:  Structure       Date:  2019-08-15       Impact factor: 5.006

4.  Ab initio RNA folding by discrete molecular dynamics: from structure prediction to folding mechanisms.

Authors:  Feng Ding; Shantanu Sharma; Poornima Chalasani; Vadim V Demidov; Natalia E Broude; Nikolay V Dokholyan
Journal:  RNA       Date:  2008-05-02       Impact factor: 4.942

5.  Physical microscopic model of proteins under force.

Authors:  Nikolay V Dokholyan
Journal:  J Phys Chem B       Date:  2012-03-15       Impact factor: 2.991

6.  Limits in accuracy and a strategy of RNA structure prediction using experimental information.

Authors:  Jian Wang; Benfeard Williams; Venkata R Chirasani; Andrey Krokhotin; Rajeshree Das; Nikolay V Dokholyan
Journal:  Nucleic Acids Res       Date:  2019-06-20       Impact factor: 16.971

7.  Identification and Characterization of an Inside-Out Folding Intermediate of T4 Phage Sliding Clamp.

Authors:  Manika Indrajit Singh; Vikas Jain
Journal:  Biophys J       Date:  2017-10-17       Impact factor: 4.033

8.  Graphene quantum dots against human IAPP aggregation and toxicity in vivo.

Authors:  Miaoyi Wang; Yunxiang Sun; Xueying Cao; Guotao Peng; Ibrahim Javed; Aleksandr Kakinen; Thomas P Davis; Sijie Lin; Jingquan Liu; Feng Ding; Pu Chun Ke
Journal:  Nanoscale       Date:  2018-11-01       Impact factor: 7.790

9.  Polyglutamine induced misfolding of huntingtin exon1 is modulated by the flanking sequences.

Authors:  Vinal V Lakhani; Feng Ding; Nikolay V Dokholyan
Journal:  PLoS Comput Biol       Date:  2010-04-29       Impact factor: 4.475

10.  The secondary structure and the thermal unfolding parameters of the S-layer protein from Lactobacillus salivarius.

Authors:  Liliana Lighezan; Ralitsa Georgieva; Adrian Neagu
Journal:  Eur Biophys J       Date:  2016-03-18       Impact factor: 1.733

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