(Q40118108)

17 September 2017

Molecular dynamics simulation of cytochrome c3: studying the reduction processes using free energy calculations (English)

1 reference

17 September 2017

Soares CM

1

1 reference

17 September 2017

Martel PJ

series ordinal

2

1 reference

17 September 2017

Mendes J

series ordinal

3

1 reference

17 September 2017

Carrondo MA

series ordinal

4

1 reference

17 September 2017

language of work or name

English

0 references

publication date

1 April 1998

1 reference

17 September 2017

14

1 reference

based on heuristic

inferred from page(s)

published in

Biophysical Journal

1 reference

17 September 2017

74

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17 September 2017

4

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17 September 2017

1708-1721

1 reference

Calculated coupling of electron and proton transfer in the photosynthetic reaction center of Rhodopseudomonas viridis

17 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299516

Ab initio determination of the crystal structure of cytochrome c6 and comparison with plastocyanin

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299516

The role of a conserved internal water molecule and its associated hydrogen bond network in cytochrome c

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299516

Molecular dynamics simulations of oxidized and reduced Clostridium beijerinckii flavodoxin

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299516

Crystal structure of cytochrome c3 from Desulfovibrio desulfuricans Norway at 1.7 A resolution

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299516

22 September 2017

Tetraheme cytochromes.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299516

Structural and functional effects of multiple mutations at distal sites in cytochrome c

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299516

Comparison of MD Simulations and NMR Experiments for Hen Lysozyme. Analysis of Local Fluctuations, Cooperative Motions, and Global Changes

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299516

Molecular dynamics simulations of rubredoxin from Clostridium pasteurianum: changes in structure and electrostatic potential during redox reactions

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299516

Refined structure of cytochrome c3 at 1.8 A resolution

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299516

Factors influencing redox potentials of electron transfer proteins

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299516

Comparison of the crystal structures of a flavodoxin in its three oxidation states at cryogenic temperatures

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299516

Electrostatic control of midpoint potentials in the cytochrome subunit of the Rhodopseudomonas viridis reaction center

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299516

Oxidation state-dependent conformational changes in cytochrome c

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299516

Redox bohr-effects in the cytochrome system of mitochondria

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299516

Growth yields and growth rates of Desulfovibrio vulgaris (Marburg) growing on hydrogen plus sulfate and hydrogen plus thiosulfate as the sole energy sources

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299516

On the stability and plastic properties of the interior L3 loop in R. capsulatus porin. A molecular dynamics study

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299516

L3 loop-mediated mechanisms of pore closing in porin: a molecular dynamics perturbation approach.

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299516

Computed redox potentials and the design of bioreductive agents

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299516

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

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299516

Molecular conformational space analysis using computer graphics: going beyond FRODO.

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299516

Cytochrome c3 from Desulfovibrio gigas: crystal structure at 1.8 A resolution and evidence for a specific calcium-binding site

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299516

Influence of protein flexibility on the redox potential of rubredoxin: energy minimization studies.

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299516

Calculation of the redox potentials of iron-sulfur proteins: the 2-/3-couple of [Fe4S*4Cys4] clusters in Peptococcus aerogenes ferredoxin, Azotobacter vinelandii ferredoxin I, and Chromatium vinosum high-potential iron protein.

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299516

Decomposition of the Free Energy of a System in Terms of Specific Interactions

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299516

A new method for predicting binding affinity in computer-aided drug design

2 December 2018

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977882-8

Isolation and characterization of Desulfovibrio growing on hydrogen plus sulfate as the sole energy source

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977882-8

Molecular dynamics with coupling to an external bath

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977882-8

Are unit charges always negligible?

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977882-8

Control of the redox potential in c-type cytochromes: importance of the entropic contribution

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977882-8

Comparison of low oxidoreduction potential cytochrome c553 from Desulfovibrio vulgaris with the class I cytochrome c family

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977882-8

A molecular model for the redox potential difference between thioredoxin and DsbA, based on electrostatics calculations

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977882-8

Conserved nonplanar heme distortions in cytochromes c

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977882-8

MOLSCRIPT: a program to produce both detailed and schematic plots of protein structures

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977882-8

Redox-Bohr effect in electron/proton energy transduction: cytochrome c 3 coupled to hydrogenase works as a 'proton thruster' in Desulfovibrio vulgaris

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977882-8

Structure analysis of cytochrome c3 from Desulfovibrio vulgaris Hildenborough at 1.9 A resolution

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977882-8

Structure of the tetraheme cytochrome from Desulfovibrio desulfuricans ATCC 27774: X-ray diffraction and electron paramagnetic resonance studies

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977882-8

Numerical integration of the cartesian equations of motion of a system with constraints: molecular dynamics of n-alkanes

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977882-8

Assignment of the redox potentials to the four haems in Desulfovibrio vulgaris cytochrome c 3 by 2D-NMR

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977882-8

Theoretical studies on the redox-Bohr effect in cytochrome c 3 from Desulfovibrio vulgaris Hildenborough

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977882-8

Conformation change of cytochrome c. I. Ferrocytochrome c structure refined at 1.5 A resolution

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977882-8

Conformation change of cytochrome c. II. Ferricytochrome c refinement at 1.8 A and comparison with the ferrocytochrome structure

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977882-8

Homotropic and heterotropic cooperativity in the tetrahaem cytochrome c3 from Desulfovibrio vulgaris

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977882-8

NMR studies of cooperativity in the tetrahaem cytochrome c3 from Desulfovibrio vulgaris

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977882-8

High‐Temperature Equation of State by a Perturbation Method. I. Nonpolar Gases

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977882-8

Simulation of protein conformational freedom as a function of pH: constant-pH molecular dynamics using implicit titration

7 January 2021

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/9545034

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1016/S0006-3495(98)77882-8

1 reference

17 September 2017

1 reference

17 September 2017

PubMed publication ID

9545034

1 reference