(Q40328787)

English

Water molecules and hydrogen-bonded networks in bacteriorhodopsin--molecular dynamics simulations of the ground state and the M-intermediate

scientific article published on 24 February 2005

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scholarly article

1 reference

Europe PubMed Central

PMC publication ID

19 September 2017

Water molecules and hydrogen-bonded networks in bacteriorhodopsin--molecular dynamics simulations of the ground state and the M-intermediate (English)

1 reference

Europe PubMed Central

PMC publication ID

19 September 2017

author name string

Sergei Grudinin

1

1 reference

Europe PubMed Central

PMC publication ID

19 September 2017

Georg Büldt

2

1 reference

Europe PubMed Central

PMC publication ID

19 September 2017

Valentin Gordeliy

3

1 reference

Europe PubMed Central

PMC publication ID

19 September 2017

Artur Baumgaertner

4

1 reference

Europe PubMed Central

PMC publication ID

19 September 2017

language of work or name

0 references

publication date

24 February 2005

1 reference

Europe PubMed Central

PMC publication ID

19 September 2017

Biophysical Journal

1 reference

Europe PubMed Central

PMC publication ID

19 September 2017

88

1 reference

Europe PubMed Central

PMC publication ID

19 September 2017

5

1 reference

Europe PubMed Central

PMC publication ID

19 September 2017

3252-3261

1 reference

Europe PubMed Central

PMC publication ID

19 September 2017

Dynamic water networks in cytochrome C oxidase from Paracoccus denitrificans investigated by molecular dynamics simulations

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1305474

22 September 2017

Dynamics of water molecules in the bacteriorhodopsin trimer in explicit lipid/water environment

1 reference

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22 September 2017

Crystal structure of the L intermediate of bacteriorhodopsin: evidence for vertical translocation of a water molecule during the proton pumping cycle

1 reference

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22 September 2017

Structural changes during the formation of early intermediates in the bacteriorhodopsin photocycle

1 reference

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22 September 2017

Molecular mechanism of H+ conduction in the single-file water chain of the gramicidin channel

1 reference

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22 September 2017

X-ray crystallography of bacteriorhodopsin and its photointermediates: insights into the mechanism of proton transport

1 reference

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The formation and dynamics of proton wires in channel environments

1 reference

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Residence times of water molecules in the hydration sites of myoglobin

1 reference

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Moist and soft, dry and stiff: a review of neutron experiments on hydration-dynamics-activity relations in the purple membrane of Halobacterium salinarum

1 reference

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22 September 2017

Water and bacteriorhodopsin: structure, dynamics, and function

1 reference

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22 September 2017

Role of internal water molecules in bacteriorhodopsin

1 reference

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22 September 2017

Atomic resolution structures of bacteriorhodopsin photocycle intermediates: the role of discrete water molecules in the function of this light-driven ion pump

1 reference

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22 September 2017

Chemical and physical evidence for multiple functional steps comprising the M state of the bacteriorhodopsin photocycle

1 reference

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22 September 2017

Molecular mechanism of vectorial proton translocation by bacteriorhodopsin

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1305474

22 September 2017

Structural alterations for proton translocation in the M state of wild-type bacteriorhodopsin

1 reference

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22 September 2017

Proton transfer reactions across bacteriorhodopsin and along the membrane

1 reference

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22 September 2017

Stability of a melittin pore in a lipid bilayer: a molecular dynamics study

1 reference

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22 September 2017

Water penetration and escape in proteins

1 reference

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22 September 2017

Molecular dynamics study of the nature and origin of retinal's twisted structure in bacteriorhodopsin.

1 reference

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22 September 2017

Structural changes in bacteriorhodopsin during ion transport at 2 angstrom resolution

1 reference

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22 September 2017

Structure of bacteriorhodopsin at 1.55 A resolution

1 reference

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22 September 2017

Closing in on bacteriorhodopsin: progress in understanding the molecule

1 reference

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22 September 2017

Hydration of denatured and molten globule proteins

1 reference

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22 September 2017

Bacterial rhodopsins: evolution of a mechanistic model for the ion pumps

1 reference

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22 September 2017

Disordered water within a hydrophobic protein cavity visualized by x-ray crystallography

1 reference

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22 September 2017

Free energy profiles for H+ conduction along hydrogen-bonded chains of water molecules

1 reference

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22 September 2017

Reduced surface: an efficient way to compute molecular surfaces

1 reference

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22 September 2017

Ab initio molecular dynamics study of proton transfer in a polyglycine analog of the ion channel gramicidin A.

1 reference

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22 September 2017

Molecular dynamics study of the M412 intermediate of bacteriorhodopsin

1 reference

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22 September 2017

Demonstration of positionally disordered water within a protein hydrophobic cavity by NMR.

1 reference

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22 September 2017

Molecular dynamics study of the 13-cis form (bR548) of bacteriorhodopsin and its photocycle

1 reference

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22 September 2017

Structure and Fluctuations of Bacteriorhodopsin in the Purple Membrane: A Molecular Dynamics Study

1 reference

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22 September 2017

Glutamic Acid 204 is the Terminal Proton Release Group at the Extracellular Surface of Bacteriorhodopsin

1 reference

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Hydrogen exchange and protein hydration: the deuteron spin relaxation dispersions of bovine pancreatic trypsin inhibitor and ubiquitin

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Protein hydration dynamics in aqueous solution: a comparison of bovine pancreatic trypsin inhibitor and ubiquitin by oxygen-17 spin relaxation dispersion

1 reference

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22 September 2017

Role of aspartate-96 in proton translocation by bacteriorhodopsin.

1 reference

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22 September 2017

Water: now you see it, now you don't

1 reference

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25 September 2017

Thermodynamic stability of water molecules in the bacteriorhodopsin proton channel: a molecular dynamics free energy perturbation study

1 reference

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17 June 2018

Electrostatic calculations of the pKa values of ionizable groups in bacteriorhodopsin

1 reference

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17 June 2018

Proton Affinity Changes Driving Unidirectional Proton Transport in the Bacteriorhodopsin Photocycle

1 reference

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20 August 2018

Calculation of proton transfers in Bacteriorhodopsin bR and M intermediates

1 reference

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20 August 2018

Water in protein cavities: A procedure to identify internal water and exchange pathways and application to fatty acid-binding protein

1 reference

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20 August 2018

Microsecond exchange of internal water molecules in bacteriorhodopsin

1 reference

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20 August 2018

Bacteriorhodopsin: the functional details of a molecular machine are being resolved

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1305474

20 August 2018

Existence of a proton transfer chain in bacteriorhodopsin: participation of Glu-194 in the release of protons to the extracellular surface

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1305474

20 August 2018

Bacteriorhodopsin

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1305474

2 December 2018

Protein hydration in aqueous solution

1 reference

https://pubmed.ncbi.nlm.nih.gov/15731388

12 December 2020

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Water molecules and exchangeable hydrogen ions at the active centre of bacteriorhodopsin localized by neutron diffraction. Elements of the proton pathway?

1 reference

https://pubmed.ncbi.nlm.nih.gov/15731388

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The OPLS [optimized potentials for liquid simulations] potential functions for proteins, energy minimizations for crystals of cyclic peptides and crambin

1 reference

https://pubmed.ncbi.nlm.nih.gov/15731388

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based on heuristic

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An all atom force field for simulations of proteins and nucleic acids

1 reference

https://pubmed.ncbi.nlm.nih.gov/15731388

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based on heuristic

inferred from PubMed ID database lookup

Protein hydration dynamics in aqueous solution

1 reference

https://pubmed.ncbi.nlm.nih.gov/15731388

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Glutamate-194 to cysteine mutation inhibits fast light-induced proton release in bacteriorhodopsin

1 reference

https://pubmed.ncbi.nlm.nih.gov/15731388

12 December 2020

based on heuristic

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Structure and hydration of the M-state of the bacteriorhodopsin mutant D96N studied by neutron diffraction

1 reference

https://pubmed.ncbi.nlm.nih.gov/15731388

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1529/BIOPHYSJ.104.047993

1 reference

Europe PubMed Central

PMC publication ID

19 September 2017

PMC publication ID

1 reference

Europe PubMed Central

PMC publication ID

19 September 2017

PubMed publication ID

1 reference

Europe PubMed Central

PMC publication ID

19 September 2017

ResearchGate publication ID

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