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For: Xing J, Liao JC, Oster G. Making ATP. Proc Natl Acad Sci U S A 2005;102:16539-46. [PMID: 16217018 PMCID: PMC1283826 DOI: 10.1073/pnas.0507207102] [Citation(s) in RCA: 47] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]  Open
Number Cited by Other Article(s)
1
Grelier M, Sivak DA, Ehrich J. Unlocking the potential of information flow: Maximizing free-energy transduction in a model of an autonomous rotary molecular motor. Phys Rev E 2024;109:034115. [PMID: 38632770 DOI: 10.1103/physreve.109.034115] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/13/2023] [Accepted: 01/30/2024] [Indexed: 04/19/2024]
2
Ertel B, van der Meer J, Seifert U. Waiting Time Distributions in Hybrid Models of Motor-Bead Assays: A Concept and Tool for Inference. Int J Mol Sci 2023;24:7610. [PMID: 37108771 PMCID: PMC10145242 DOI: 10.3390/ijms24087610] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/21/2023] [Revised: 04/12/2023] [Accepted: 04/17/2023] [Indexed: 04/29/2023]  Open
3
Nirody JA, Budin I, Rangamani P. ATP synthase: Evolution, energetics, and membrane interactions. J Gen Physiol 2021;152:152111. [PMID: 32966553 PMCID: PMC7594442 DOI: 10.1085/jgp.201912475] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/16/2020] [Accepted: 08/24/2020] [Indexed: 12/24/2022]  Open
4
Kasper AKS, Sivak DA. Modeling work-speed-accuracy trade-offs in a stochastic rotary machine. Phys Rev E 2021;101:032110. [PMID: 32289954 DOI: 10.1103/physreve.101.032110] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/25/2019] [Accepted: 01/30/2020] [Indexed: 11/07/2022]
5
Lathouwers E, Lucero JNE, Sivak DA. Nonequilibrium Energy Transduction in Stochastic Strongly Coupled Rotary Motors. J Phys Chem Lett 2020;11:5273-5278. [PMID: 32501698 DOI: 10.1021/acs.jpclett.0c01055] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
6
Brown AI, Sivak DA. Theory of Nonequilibrium Free Energy Transduction by Molecular Machines. Chem Rev 2019;120:434-459. [PMID: 31411455 DOI: 10.1021/acs.chemrev.9b00254] [Citation(s) in RCA: 61] [Impact Index Per Article: 12.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
7
Challis KJ. Tight-binding derivation of a discrete-continuous description of mechanochemical coupling in a molecular motor. Phys Rev E 2018;97:062158. [PMID: 30011495 DOI: 10.1103/physreve.97.062158] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2018] [Indexed: 06/08/2023]
8
Niu Y, Moghimyfiroozabad S, Safaie S, Yang Y, Jonas EA, Alavian KN. Phylogenetic Profiling of Mitochondrial Proteins and Integration Analysis of Bacterial Transcription Units Suggest Evolution of F1Fo ATP Synthase from Multiple Modules. J Mol Evol 2017;85:219-233. [PMID: 29177973 PMCID: PMC5709465 DOI: 10.1007/s00239-017-9819-3] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/11/2017] [Accepted: 11/11/2017] [Indexed: 11/26/2022]
9
Theory of long binding events in single-molecule-controlled rotation experiments on F1-ATPase. Proc Natl Acad Sci U S A 2017;114:7272-7277. [PMID: 28652332 DOI: 10.1073/pnas.1705960114] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]  Open
10
Biophysical comparison of ATP synthesis mechanisms shows a kinetic advantage for the rotary process. Proc Natl Acad Sci U S A 2016;113:11220-11225. [PMID: 27647911 DOI: 10.1073/pnas.1608533113] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]  Open
11
ATP Synthesis by Oxidative Phosphorylation. EcoSal Plus 2015;2. [PMID: 26443583 DOI: 10.1128/ecosalplus.3.2.3] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
12
Czub J, Grubmüller H. Rotation triggers nucleotide-independent conformational transition of the empty β subunit of F₁-ATPase. J Am Chem Soc 2014;136:6960-8. [PMID: 24798048 DOI: 10.1021/ja500120m] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
13
Kolomeisky AB. Motor proteins and molecular motors: how to operate machines at the nanoscale. JOURNAL OF PHYSICS. CONDENSED MATTER : AN INSTITUTE OF PHYSICS JOURNAL 2013;25:463101. [PMID: 24100357 PMCID: PMC3858839 DOI: 10.1088/0953-8984/25/46/463101] [Citation(s) in RCA: 35] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/07/2023]
14
Di Cara F, Duca E, Dunbar DR, Cagney G, Heck MMS. Invadolysin, a conserved lipid-droplet-associated metalloproteinase, is required for mitochondrial function in Drosophila. J Cell Sci 2013;126:4769-81. [PMID: 23943867 PMCID: PMC3795342 DOI: 10.1242/jcs.133306] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 07/26/2013] [Indexed: 12/11/2022]  Open
15
Liao JC. Mechanical transduction mechanisms of RecA-like molecular motors. J Biomol Struct Dyn 2012;29:497-507. [PMID: 22066536 DOI: 10.1080/07391102.2011.10507401] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
16
Physics of bacterial morphogenesis. Microbiol Mol Biol Rev 2012;75:543-65. [PMID: 22126993 DOI: 10.1128/mmbr.00006-11] [Citation(s) in RCA: 33] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]  Open
17
Qian J, Liang J. Monte Carlo simulation from proton slip to "coupled" proton flow in ATP synthase based on the bi-site mechanism. Biosystems 2011;105:233-7. [PMID: 21664229 DOI: 10.1016/j.biosystems.2011.05.003] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/08/2010] [Revised: 03/04/2011] [Accepted: 05/05/2011] [Indexed: 11/17/2022]
18
Torsional elasticity and energetics of F1-ATPase. Proc Natl Acad Sci U S A 2011;108:7408-13. [PMID: 21502534 DOI: 10.1073/pnas.1018686108] [Citation(s) in RCA: 39] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]  Open
19
Shu YG, Yue JC, Ou-Yang ZC. FoF1-ATPase, rotary motor and biosensor. NANOSCALE 2010;2:1284-1293. [PMID: 20820716 DOI: 10.1039/b9nr00411d] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/29/2023]
20
Romanovsky Y, Tikhonov AN. Molecular energy transducers of the living cell. Proton ATP synthase: a rotating molecular motor. ACTA ACUST UNITED AC 2010. [DOI: 10.3367/ufnr.0180.201009b.0931] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/01/2022]
21
Sengupta D, Rampioni A, Marrink SJ. Simulations of thec-subunit of ATP-synthase reveal helix rearrangements. Mol Membr Biol 2009;26:422-34. [DOI: 10.3109/09687680903321073] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023]
22
Kargovsky AV, Romanovsky YM, Tikhonov AN. F1-ATPase as an auto-oscillatory system. Biophysics (Nagoya-shi) 2009. [DOI: 10.1134/s0006350909010011] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]  Open
23
Fulga F, Nicolau DV, Nicolau DV. Models of protein linear molecular motors for dynamic nanodevices. Integr Biol (Camb) 2008;1:150-69. [PMID: 20023800 DOI: 10.1039/b814985b] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
24
Kocherginsky N. Acidic lipids, H(+)-ATPases, and mechanism of oxidative phosphorylation. Physico-chemical ideas 30 years after P. Mitchell's Nobel Prize award. PROGRESS IN BIOPHYSICS AND MOLECULAR BIOLOGY 2008;99:20-41. [PMID: 19049812 DOI: 10.1016/j.pbiomolbio.2008.10.013] [Citation(s) in RCA: 30] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
25
Lodeyro AF, Castelli MV, Roveri OA. ATP hydrolysis-driven H(+) translocation is stimulated by sulfate, a strong inhibitor of mitochondrial ATP synthesis. J Bioenerg Biomembr 2008;40:269-79. [PMID: 18846414 DOI: 10.1007/s10863-008-9177-3] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/02/2008] [Accepted: 08/30/2008] [Indexed: 12/01/2022]
26
Shu YG, Lai PY. Systematic Kinetics Study of FoF1-ATPase: Analytic Results and Comparison with Experiments. J Phys Chem B 2008;112:13453-9. [DOI: 10.1021/jp8052696] [Citation(s) in RCA: 15] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
27
Ariga T. The concerted nature between three catalytic subunits driving the F1 rotary motor. Biosystems 2008;93:68-77. [PMID: 18556115 DOI: 10.1016/j.biosystems.2008.05.001] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2008] [Revised: 04/24/2008] [Accepted: 05/05/2008] [Indexed: 11/15/2022]
28
Stocker A, Keis S, Vonck J, Cook GM, Dimroth P. The structural basis for unidirectional rotation of thermoalkaliphilic F1-ATPase. Structure 2007;15:904-14. [PMID: 17697996 DOI: 10.1016/j.str.2007.06.009] [Citation(s) in RCA: 41] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2007] [Revised: 06/01/2007] [Accepted: 06/15/2007] [Indexed: 11/16/2022]
29
Mulkidjanian AY, Makarova KS, Galperin MY, Koonin EV. Inventing the dynamo machine: the evolution of the F-type and V-type ATPases. Nat Rev Microbiol 2007;5:892-9. [PMID: 17938630 DOI: 10.1038/nrmicro1767] [Citation(s) in RCA: 136] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
30
Ariga T, Muneyuki E, Yoshida M. F1-ATPase rotates by an asymmetric, sequential mechanism using all three catalytic subunits. Nat Struct Mol Biol 2007;14:841-6. [PMID: 17721548 DOI: 10.1038/nsmb1296] [Citation(s) in RCA: 85] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/20/2007] [Accepted: 07/30/2007] [Indexed: 11/09/2022]
31
Kolomeisky AB, Fisher ME. Molecular Motors: A Theorist's Perspective. Annu Rev Phys Chem 2007;58:675-95. [PMID: 17163836 DOI: 10.1146/annurev.physchem.58.032806.104532] [Citation(s) in RCA: 456] [Impact Index Per Article: 26.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
32
Lindén M, Wallin M. Dwell time symmetry in random walks and molecular motors. Biophys J 2007;92:3804-16. [PMID: 17369422 PMCID: PMC1868971 DOI: 10.1529/biophysj.106.103044] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]  Open
33
Liao JC, Spudich JA, Parker D, Delp SL. Extending the absorbing boundary method to fit dwell-time distributions of molecular motors with complex kinetic pathways. Proc Natl Acad Sci U S A 2007;104:3171-6. [PMID: 17360624 PMCID: PMC1805548 DOI: 10.1073/pnas.0611519104] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]  Open
34
Kabaleeswaran V, Puri N, Walker JE, Leslie AGW, Mueller DM. Novel features of the rotary catalytic mechanism revealed in the structure of yeast F1 ATPase. EMBO J 2006;25:5433-42. [PMID: 17082766 PMCID: PMC1636620 DOI: 10.1038/sj.emboj.7601410] [Citation(s) in RCA: 143] [Impact Index Per Article: 7.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/07/2006] [Accepted: 10/06/2006] [Indexed: 11/08/2022]  Open
35
Woo HJ. Exploration of the conformational space of myosin recovery stroke via molecular dynamics. Biophys Chem 2006;125:127-37. [PMID: 16889886 DOI: 10.1016/j.bpc.2006.07.001] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2006] [Revised: 07/01/2006] [Accepted: 07/01/2006] [Indexed: 11/17/2022]
36
Woo HJ. Analytical theory of the nonequilibrium spatial distribution of RNA polymerase translocations. PHYSICAL REVIEW. E, STATISTICAL, NONLINEAR, AND SOFT MATTER PHYSICS 2006;74:011907. [PMID: 16907127 DOI: 10.1103/physreve.74.011907] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/13/2006] [Indexed: 05/11/2023]
37
Nuzzo R. Profile of George Oster. Proc Natl Acad Sci U S A 2006;103:1672-4. [PMID: 16446440 PMCID: PMC1413643 DOI: 10.1073/pnas.0509056103] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]  Open
38
Xing J, Bai F, Berry R, Oster G. Torque-speed relationship of the bacterial flagellar motor. Proc Natl Acad Sci U S A 2006;103:1260-5. [PMID: 16432218 PMCID: PMC1360542 DOI: 10.1073/pnas.0507959103] [Citation(s) in RCA: 94] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/12/2005] [Indexed: 11/18/2022]  Open
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