Literature DB >> 23345739

The role of solvent in protein folding and in aggregation.

S M Vaiana1, M Manno, A Emanuele, M B Palma-Vittorelli, M U Palma.   

Abstract

We discuss features of the effect of solvent on protein folding andaggregation, highlighting the physics related to the particulate nature and the peculiar structure of the aqueous solvent, and the biological significance of interactions between solvent and proteins. To this purpose we use a generalized energy landscape of extended dimensionality. A closer look at the properties of solvent induced interactions and forces proves useful for understanding the physical grounds of `ad hoc' interactions and for devising realistic ways of accounting for solvent effects. The solvent has long been known to be a crucially important part of biological systems, and times appear mature for it to be adequately accounted for in the protein folding problem. Use of the extended dimensionality energy landscape helpseliciting the possibility of coupling among conformational changes and aggregation, such as proved by experimental data in the literature.

Keywords:  Computational modeling; energy landscapes; hydration; hydrophobic interactions; protein aggregation; protein conformational changes; protein folding; protein-solvent interactions; spinodal and coexistence

Year:  2001        PMID: 23345739      PMCID: PMC3456586          DOI: 10.1023/A:1013146530021

Source DB:  PubMed          Journal:  J Biol Phys        ISSN: 0092-0606            Impact factor:   1.365


  21 in total

1.  Effects of electric charges on hydrophobic forces. II

Authors: 
Journal:  Phys Rev E Stat Phys Plasmas Fluids Relat Interdiscip Topics       Date:  2000-11

Review 2.  Understanding protein folding via free-energy surfaces from theory and experiment.

Authors:  A R Dinner; A Sali; L J Smith; C M Dobson; M Karplus
Journal:  Trends Biochem Sci       Date:  2000-07       Impact factor: 13.807

Review 3.  Dominant forces in protein folding.

Authors:  K A Dill
Journal:  Biochemistry       Date:  1990-08-07       Impact factor: 3.162

Review 4.  Polymer principles in protein structure and stability.

Authors:  H S Chan; K A Dill
Journal:  Annu Rev Biophys Biophys Chem       Date:  1991

5.  A glimpse of the Holy Grail?

Authors:  H J Berendsen
Journal:  Science       Date:  1998-10-23       Impact factor: 47.728

6.  Self-assembly of biopolymeric structures below the threshold of random cross-link percolation.

Authors:  P L San Biagio; D Bulone; A Emanuele; M U Palma
Journal:  Biophys J       Date:  1996-01       Impact factor: 4.033

7.  Amyloid fibrils. Mutations make enzyme polymerize.

Authors:  M F Perutz
Journal:  Nature       Date:  1997-02-27       Impact factor: 49.962

8.  The role of water in hemoglobin function and stability.

Authors:  D Bulone; P L San Biagio; M B Palma-Vittorelli; M U Palma
Journal:  Science       Date:  1993-02-26       Impact factor: 47.728

9.  Interaction of explicit solvent with hydrophobic/philic/charged residues of a protein: residue character vs. conformational context.

Authors:  V Martorana; G Corongiu; M U Palma
Journal:  Proteins       Date:  1998-08-01

10.  Self-assembly of bioelastomeric structures from solutions: mean-field critical behavior and Flory-Huggins free energy of interactions.

Authors:  F Sciortino; K U Prasad; D W Urry; M U Palma
Journal:  Biopolymers       Date:  1993-05       Impact factor: 2.505

View more
  8 in total

1.  Thermal aggregation of bovine serum albumin at different pH: comparison with human serum albumin.

Authors:  Valeria Vetri; Fabio Librizzi; Maurizio Leone; Valeria Militello
Journal:  Eur Biophys J       Date:  2007-07-12       Impact factor: 1.733

2.  Protein aggregation/crystallization and minor structural changes: universal versus specific aspects.

Authors:  F Pullara; A Emanuele; M B Palma-Vittorelli; M U Palma
Journal:  Biophys J       Date:  2007-07-27       Impact factor: 4.033

3.  Accelerating the Generalized Born with Molecular Volume and Solvent Accessible Surface Area Implicit Solvent Model Using Graphics Processing Units.

Authors:  Xiping Gong; Mara Chiricotto; Xiaorong Liu; Erik Nordquist; Michael Feig; Charles L Brooks; Jianhan Chen
Journal:  J Comput Chem       Date:  2019-12-24       Impact factor: 3.376

Review 4.  Proteins in binary solvents.

Authors:  Francesco Spinozzi; Paolo Mariani; Maria Grazia Ortore
Journal:  Biophys Rev       Date:  2016-03-18

5.  Amyloid beta oligomers: how pH influences over trimer and pentamer structures?

Authors:  Carla A Paredes-Rosan; Diego E Valencia; Haruna L Barazorda-Ccahuana; Jorge A Aguilar-Pineda; Badhin Gómez
Journal:  J Mol Model       Date:  2019-12-13       Impact factor: 1.810

6.  Sub-Micellar Concentration of Sodium Dodecyl Sulphate Prevents Thermal Denaturation Induced Aggregation of Plant Lectin, Jacalin.

Authors:  V Lavanya; B Anil Kumar; Shazia Jamal; Md Khurshid Alam Khan; Neesar Ahmed
Journal:  Protein J       Date:  2017-02       Impact factor: 2.371

7.  Parallelization and improvements of the generalized born model with a simple sWitching function for modern graphics processors.

Authors:  Evan J Arthur; Charles L Brooks
Journal:  J Comput Chem       Date:  2016-01-20       Impact factor: 3.376

8.  Quantitative Photo-crosslinking Mass Spectrometry Revealing Protein Structure Response to Environmental Changes.

Authors:  Fränze Müller; Andrea Graziadei; Juri Rappsilber
Journal:  Anal Chem       Date:  2019-07-05       Impact factor: 6.986

  8 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.