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Abstract

In the last decade, the structures of many components of the photosynthetic apparatus of purple bacteria, as well as the mutual organization of these components within the purple membrane, were resolved. One key question that emerged concerned the assembly of the core complex consisting of the reaction center (RC) and the light-harvesting 1 (LH1) complex. In some species, like Rhodobacter sphaeroides, the ring-shaped LH1 complex was found to be open, whereas other species, like Rhodospirillum rubrum, have a closed ring surrounding the reaction center. This poses the question of how the ubiquinone molecule that transports electrons and protons from the RC to the cytochrome bc^sub 1^ complex overcomes the apparent barrier of the LH1 ring. In this study, we investigated how, in the case of a closed LH1 ring, the ubiquinone molecule diffuses through the LH1 ring. For this purpose, the LH1 structure of R. rubrum was modeled and the potential of mean force along the diffusion pathway through the LH1 was determined by steered molecular-dynamics simulations. The potential was reconstructed using the fluctuation theorem in combination with the stiff spring approximation. An upper limit for the mean first-passage time for diffusion of ubiquinone through the LH1 ring, based on a worst-case scenario potential, was calculated as ~8 × 10^sup -3^ s, which is still in agreement with known turnover rates of RC and RC-LH1 complexes in the range of ~1000 Hz. [PUBLICATION ABSTRACT]

Details

Title
Possible Pathway for Ubiquinone Shuttling in Rhodospirillum rubrum Revealed by Molecular Dynamics Simulation
Publication title
Volume
92
Issue
1
Pages
23-33
Number of pages
11
Publication year
2007
Publication date
Jan 1, 2007
Publisher
Biophysical Society
Place of publication
New York
Country of publication
United States
Publication subject
ISSN
00063495
e-ISSN
15420086
Source type
Scholarly Journal
Language of publication
English
Document type
Journal Article
Document feature
Graphs; Illustrations; References; Equations
Accession number
17028136
ProQuest document ID
215709006
Document URL
https://www.proquest.com/scholarly-journals/possible-pathway-ubiquinone-shuttling/docview/215709006/se-2?accountid=208611
Copyright
Copyright Biophysical Society Jan 1, 2007
Last updated
2024-10-04
Database
ProQuest One Academic