Rotational Mechanism Model of the Bacterial V1 Motor Based on Structural and Computational Analyses

Frontiers in Physiology
Abhishek SingharoyTakeshi Murata

Abstract

V1-ATPase exemplifies the ubiquitous rotary motor, in which a central shaft DF complex rotates inside a hexagonally arranged catalytic A3B3 complex, powered by the energy from ATP hydrolysis. We have recently reported a number of crystal structures of the Enterococcus hirae A3B3DF (V1) complex corresponding to its nucleotide-bound intermediate states, namely the forms waiting for ATP hydrolysis (denoted as catalytic dwell), ATP binding (ATP-binding dwell), and ADP release (ADP-release dwell) along the rotatory catalytic cycle of ATPase. Furthermore, we have performed microsecond-scale molecular dynamics simulations and free-energy calculations to investigate the conformational transitions between these intermediate states and to probe the long-time dynamics of the molecular motor. In this article, the molecular structure and dynamics of the V1-ATPase are reviewed to bring forth a unified model of the motor's remarkable rotational mechanism.

References

Feb 17, 1999·Journal of Biochemistry·T MurataY Kakinuma
May 26, 1999·Journal of Bioenergetics and Biomembranes·Y KakinumaT Murata
May 2, 2000·The Journal of Biological Chemistry·T MurataI Yamato
Mar 15, 2001·Biochimica Et Biophysica Acta·T MurataY Kakinuma
Mar 26, 2003·The Journal of Biological Chemistry·Takeshi MurataJohn E Walker
Sep 23, 2003·Proceedings of the National Academy of Sciences of the United States of America·Yi Qin GaoMartin Karplus
Jan 30, 2004·Nature·Hiroyasu ItohKazuhiko Kinosita
Mar 24, 2005·Physical Review Letters·Mitsunori IkeguchiAkinori Kidera
Apr 2, 2005·Science·Takeshi MurataJohn E Walker
Dec 7, 2005·Proceedings of the National Academy of Sciences of the United States of America·Hiromi ImamuraKen Yokoyama
May 13, 2006·Journal of Bioenergetics and Biomembranes·Takeshi MurataYoshimi Kakinuma
Aug 1, 2006·Proceedings of the National Academy of Sciences of the United States of America·Kei-ichi OkazakiPeter G Wolynes
Oct 4, 2007·Nature Reviews. Molecular Cell Biology·Michael Forgac
Feb 23, 2008·The Journal of Physical Chemistry. B·Albert C PanBenoît Roux
Jun 19, 2008·Proceedings of the National Academy of Sciences of the United States of America·Takeshi MurataSo Iwata
Aug 6, 2008·Proceedings of the National Academy of Sciences of the United States of America·Kei-Ichi Okazaki, Shoji Takada
Nov 13, 2008·Proceedings of the National Academy of Sciences of the United States of America·Hendrik SielaffWolfgang Junge
Feb 11, 2011·Proceedings of the National Academy of Sciences of the United States of America·Wenfei LiShoji Takada
Aug 5, 2011·Proceedings of the National Academy of Sciences of the United States of America·Kenji MizutaniTakeshi Murata
Nov 25, 2011·Proceedings of the National Academy of Sciences of the United States of America·Shinya SaijoTakeshi Murata
Jun 27, 2012·Proceedings of the National Academy of Sciences of the United States of America·David M ReesJohn E Walker
Jan 30, 2013·Biochemical Society Transactions·John E Walker
Sep 26, 2013·Proceedings of the National Academy of Sciences of the United States of America·Kei-ichi Okazaki, Gerhard Hummer
Oct 4, 2013·The Journal of Biological Chemistry·Yoshihiro MinagawaRyota Iino
Mar 22, 2014·Biochimica Et Biophysica Acta·Gerhard GrüberVolker Müller
Sep 27, 2014·The Journal of Biological Chemistry·Hiroshi UenoRyota Iino
Mar 22, 2015·Current Opinion in Structural Biology·Ryota IinoTakeshi Murata
Jun 14, 2011·Journal of Chemical Theory and Computation·Hiroo KenzakiShoji Takada
Nov 4, 2016·Nature Communications·Kano SuzukiTakeshi Murata
Dec 8, 2016·Biophysics and Physicobiology·Ichiro YamatoTakeshi Murata
Dec 10, 2016·Journal of the American Chemical Society·Abhishek SingharoyKlaus Schulten
Apr 21, 2017·The Journal of Physical Chemistry. B·Abhishek Singharoy, Christophe Chipot
Dec 6, 2017·Biophysics Reviews·Toru Ekimoto, Mitsunori Ikeguchi
May 8, 2018·Proceedings of the National Academy of Sciences of the United States of America·Christopher R BensonAmar H Flood
May 16, 2018·Proceedings of the National Academy of Sciences of the United States of America·James L MartinWayne D Frasch

❮ Previous
Next ❯

Citations

Oct 25, 2020·Biochemical and Biophysical Research Communications·Satoshi AraiTakeshi Murata

❮ Previous
Next ❯

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.