Literature DB >> 3011070

Control of the redox potential of cytochrome c and microscopic dielectric effects in proteins.

A K Churg, A Warshel.   

Abstract

X-ray structural information provides the opportunity to explore quantitatively the relation between the microenvironments of heme proteins and their redox potentials. This can be done by considering the protein as a "solvent" for its redox center and calculating the difference between the electrostatic energy of the reduced and oxidized heme. Such calculations are presented here, applying the protein dipoles-Langevin dipoles (PDLD) model to cytochrome c. The calculations focus on an evaluation of the difference between the redox potentials of cytochrome c and the octapeptide-methionine complex formed by hydrolysis of cytochrome c. The corresponding difference (approximately 7 kcal/mol) is accounted for by the PDLD calculations. It is found that the protein provides basically a low dielectric environment for the heme, which destabilizes the oxidized heme (relative to its energy in water). The effect of the charged propionic acids on the heme is examined in a preliminary way. It is found that the negative charges of these groups are in a hydrophilic rather than a hydrophobic environment and that the protein-water system provides an effective high dielectric constant for their interaction with the heme. The dual nature of the dielectric effect of the cytochrome (a low dielectric constant for the self-energy of the heme and a high dielectric constant for charge-charge interactions) is discussed. The findings of this work are consistent with the difference between the folding energies of the reduced and oxidized cytochrome c.

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Year:  1986        PMID: 3011070     DOI: 10.1021/bi00355a035

Source DB:  PubMed          Journal:  Biochemistry        ISSN: 0006-2960            Impact factor:   3.162


  48 in total

1.  Gaussian fluctuations and linear response in an electron transfer protein.

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Journal:  Proc Natl Acad Sci U S A       Date:  2002-05-14       Impact factor: 11.205

2.  Computer simulations of protein functions: searching for the molecular origin of the replication fidelity of DNA polymerases.

Authors:  Jan Florián; Myron F Goodman; Arieh Warshel
Journal:  Proc Natl Acad Sci U S A       Date:  2005-04-29       Impact factor: 11.205

3.  Monte Carlo simulations of proton pumps: on the working principles of the biological valve that controls proton pumping in cytochrome c oxidase.

Authors:  Mats H M Olsson; Arieh Warshel
Journal:  Proc Natl Acad Sci U S A       Date:  2006-04-13       Impact factor: 11.205

4.  Exploring pathways and barriers for coupled ET/PT in cytochrome c oxidase: a general framework for examining energetics and mechanistic alternatives.

Authors:  Mats H M Olsson; Per E M Siegbahn; Margareta R A Blomberg; Arieh Warshel
Journal:  Biochim Biophys Acta       Date:  2007-01-30

5.  High tolerance for ionizable residues in the hydrophobic interior of proteins.

Authors:  Daniel G Isom; Brian R Cannon; Carlos A Castañeda; Aaron Robinson; Bertrand García-Moreno
Journal:  Proc Natl Acad Sci U S A       Date:  2008-11-12       Impact factor: 11.205

6.  Effect of active site and surface mutations on the reduction potential of yeast cytochrome c peroxidase and spectroscopic properties of the oxidized and reduced enzyme.

Authors:  Cory M DiCarlo; Lidia B Vitello; James E Erman
Journal:  J Inorg Biochem       Date:  2006-12-20       Impact factor: 4.155

7.  Multiscale modeling of biological functions: from enzymes to molecular machines (Nobel Lecture).

Authors:  Arieh Warshel
Journal:  Angew Chem Int Ed Engl       Date:  2014-07-24       Impact factor: 15.336

8.  Electrochemical and NMR spectroscopic studies of distal pocket mutants of nitrophorin 2: stability, structure, and dynamics of axial ligand complexes.

Authors:  Tatjana Kh Shokhireva; Robert E Berry; Elizabeth Uno; Celia A Balfour; Hongjun Zhang; F Ann Walker
Journal:  Proc Natl Acad Sci U S A       Date:  2003-03-17       Impact factor: 11.205

Review 9.  The role of key residues in structure, function, and stability of cytochrome-c.

Authors:  Sobia Zaidi; Md Imtaiyaz Hassan; Asimul Islam; Faizan Ahmad
Journal:  Cell Mol Life Sci       Date:  2013-04-25       Impact factor: 9.261

Review 10.  Progress in ab initio QM/MM free-energy simulations of electrostatic energies in proteins: accelerated QM/MM studies of pKa, redox reactions and solvation free energies.

Authors:  Shina C L Kamerlin; Maciej Haranczyk; Arieh Warshel
Journal:  J Phys Chem B       Date:  2009-02-05       Impact factor: 2.991

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