Literature DB >> 6572909

Calculation of volume fluctuation for globular protein models.

B Lee.   

Abstract

The extent of volume fluctuation is calculated for two simple geometrical models of globular protein molecules subjected to a potential that is proportional to the surface area freshly generated by the thermal breathing motion. The proportionality constant, gamma, has the unit of surface tension. The calculated values are compared with estimates made from the compressibility measurements. After an approximate correction for the hydration effect, the experimental values are found to be between those calculated by using gamma values of 25 and 46 cal/mol/A2 (1 cal = 4.184 J). These values bracket previously reported independent estimates of interfacial tension that presumably operates at the interface between a nonpolar molecule and water. This result appears to indicate that the solvent water plays a significant role in determining the extent of volume fluctuation of globular proteins and that the concept, and the actual value of the estimate, of the interfacial tension around a nonpolar molecule in water may, in fact, be useful in some applications.

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Year:  1983        PMID: 6572909      PMCID: PMC393430          DOI: 10.1073/pnas.80.2.622

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN: 0027-8424            Impact factor:   11.205


  12 in total

1.  Breathing mode of conformational fluctuations in globular proteins.

Authors:  Y Suezaki; N Go
Journal:  Int J Pept Protein Res       Date:  1975

2.  Thermodynamic fluctuations in protein molecules.

Authors:  A Cooper
Journal:  Proc Natl Acad Sci U S A       Date:  1976-08       Impact factor: 11.205

3.  Use of solvent cavity area and number of packed solvent molecules around a solute in regard to hydrocarbon solubilities and hydrophobic interactions.

Authors:  R B Hermann
Journal:  Proc Natl Acad Sci U S A       Date:  1977-10       Impact factor: 11.205

4.  Hydrophobic bonding and accessible surface area in proteins.

Authors:  C Chothia
Journal:  Nature       Date:  1974-03-22       Impact factor: 49.962

5.  The solubility of amino acids and two glycine peptides in aqueous ethanol and dioxane solutions. Establishment of a hydrophobicity scale.

Authors:  Y Nozaki; C Tanford
Journal:  J Biol Chem       Date:  1971-04-10       Impact factor: 5.157

6.  The interpretation of protein structures: estimation of static accessibility.

Authors:  B Lee; F M Richards
Journal:  J Mol Biol       Date:  1971-02-14       Impact factor: 5.469

7.  Increase in apparent compressibility of cytochrome c upon oxidation.

Authors:  D Eden; J B Matthew; J J Rosa; F M Richards
Journal:  Proc Natl Acad Sci U S A       Date:  1982-02       Impact factor: 11.205

8.  Solvent effects and polar interactions in the structural stability and dynamics of globular proteins.

Authors:  J L Finney; B J Gellatly; I C Golton; J Goodfellow
Journal:  Biophys J       Date:  1980-10       Impact factor: 4.033

9.  Solvent accessibility, protein surfaces, and protein folding.

Authors:  A M Lesk; C Chothia
Journal:  Biophys J       Date:  1980-10       Impact factor: 4.033

10.  Empirical correlation between hydrophobic free energy and aqueous cavity surface area.

Authors:  J A Reynolds; D B Gilbert; C Tanford
Journal:  Proc Natl Acad Sci U S A       Date:  1974-08       Impact factor: 11.205

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  15 in total

1.  Adhesive-cohesive model for protein compressibility: an alternative perspective on stability.

Authors:  Voichita M Dadarlat; Carol Beth Post
Journal:  Proc Natl Acad Sci U S A       Date:  2003-11-24       Impact factor: 11.205

2.  Decomposition of protein experimental compressibility into intrinsic and hydration shell contributions.

Authors:  Voichita M Dadarlat; Carol Beth Post
Journal:  Biophys J       Date:  2006-09-22       Impact factor: 4.033

3.  Interactions between actin and myosin filaments in skeletal muscle visualized in frozen-hydrated thin sections.

Authors:  B L Trus; A C Steven; A W McDowall; M Unser; J Dubochet; R J Podolsky
Journal:  Biophys J       Date:  1989-04       Impact factor: 4.033

4.  Gated quenching of intrinsic fluorescence and phosphorescence of globular proteins. An extended model.

Authors:  B Somogyi; J A Norman; A Rosenberg
Journal:  Biophys J       Date:  1986-07       Impact factor: 4.033

5.  Hydrogen Bond Network of Water around Protein Investigated with Terahertz and Infrared Spectroscopy.

Authors:  Keiichiro Shiraga; Yuichi Ogawa; Naoshi Kondo
Journal:  Biophys J       Date:  2016-12-20       Impact factor: 4.033

6.  Catabolic efficiency of aerobic glycolysis: the Warburg effect revisited.

Authors:  Alexei Vazquez; Jiangxia Liu; Yi Zhou; Zoltán N Oltvai
Journal:  BMC Syst Biol       Date:  2010-05-06

7.  Molecular crowding defines a common origin for the Warburg effect in proliferating cells and the lactate threshold in muscle physiology.

Authors:  Alexei Vazquez; Zoltán N Oltvai
Journal:  PLoS One       Date:  2011-04-29       Impact factor: 3.240

8.  Serine biosynthesis with one carbon catabolism and the glycine cleavage system represents a novel pathway for ATP generation.

Authors:  Alexei Vazquez; Elke K Markert; Zoltán N Oltvai
Journal:  PLoS One       Date:  2011-11-02       Impact factor: 3.240

9.  Metabolic states following accumulation of intracellular aggregates: implications for neurodegenerative diseases.

Authors:  Alexei Vazquez
Journal:  PLoS One       Date:  2013-05-07       Impact factor: 3.240

10.  Impact of the solvent capacity constraint on E. coli metabolism.

Authors:  Alexei Vazquez; Qasim K Beg; Marcio A Demenezes; Jason Ernst; Ziv Bar-Joseph; Albert-László Barabási; László G Boros; Zoltán N Oltvai
Journal:  BMC Syst Biol       Date:  2008-01-23
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