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For: Dewar R, Juretić D, Županović P. The functional design of the rotary enzyme ATP synthase is consistent with maximum entropy production. Chem Phys Lett 2006;430:177-82. [DOI: 10.1016/j.cplett.2006.08.095] [Citation(s) in RCA: 36] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
Number Cited by Other Article(s)
1
Srienc F, Barrett J. Predicting the Rate Structure of an Evolved Metabolic Network. Metabolites 2025;15:200. [PMID: 40137164 PMCID: PMC11944149 DOI: 10.3390/metabo15030200] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/10/2025] [Revised: 02/24/2025] [Accepted: 03/07/2025] [Indexed: 03/27/2025]  Open
2
Dobovišek A, Vitas M, Blaževič T, Markovič R, Marhl M, Fajmut A. Self-Organization of Enzyme-Catalyzed Reactions Studied by the Maximum Entropy Production Principle. Int J Mol Sci 2023;24:8734. [PMID: 37240078 PMCID: PMC10218605 DOI: 10.3390/ijms24108734] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2023] [Revised: 05/09/2023] [Accepted: 05/12/2023] [Indexed: 05/28/2023]  Open
3
Nath S. Novel molecular insights into ATP synthesis in oxidative phosphorylation based on the principle of least action. Chem Phys Lett 2022. [DOI: 10.1016/j.cplett.2022.139561] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/14/2023]
4
Šterk M, Markovič R, Marhl M, Fajmut A, Dobovišek A. Response to "Comments on the paper 'Flexibility of enzymatic transitions as a hallmark of optimized enzyme steady-state kinetics and thermodynamics'". Comput Biol Chem 2021;95:107572. [PMID: 34531143 DOI: 10.1016/j.compbiolchem.2021.107572] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
5
Šterk M, Markovič R, Marhl M, Fajmut A, Dobovišek A. Flexibility of enzymatic transitions as a hallmark of optimized enzyme steady-state kinetics and thermodynamics. Comput Biol Chem 2021;91:107449. [PMID: 33588154 DOI: 10.1016/j.compbiolchem.2021.107449] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/05/2020] [Revised: 09/05/2020] [Accepted: 02/02/2021] [Indexed: 11/25/2022]
6
Entropy Production and Its Application to the Coupled Nonequilibrium Processes of ATP Synthesis. ENTROPY 2019;21:e21080746. [PMID: 33267460 PMCID: PMC7515275 DOI: 10.3390/e21080746] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/29/2019] [Revised: 07/23/2019] [Accepted: 07/27/2019] [Indexed: 12/17/2022]
7
Maximum Entropy Production Theorem for Transitions between Enzyme Functional States and Its Applications. ENTROPY 2019;21:e21080743. [PMID: 33267457 PMCID: PMC7515272 DOI: 10.3390/e21080743] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/01/2019] [Revised: 07/26/2019] [Accepted: 07/27/2019] [Indexed: 11/16/2022]
8
Nath S. Integration of demand and supply sides in the ATP energy economics of cells. Biophys Chem 2019;252:106208. [PMID: 31238246 DOI: 10.1016/j.bpc.2019.106208] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2019] [Revised: 06/14/2019] [Accepted: 06/14/2019] [Indexed: 12/15/2022]
9
Nath S. Coupling in ATP synthesis: Test of thermodynamic consistency and formulation in terms of the principle of least action. Chem Phys Lett 2019. [DOI: 10.1016/j.cplett.2019.03.029] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
10
Juretić D, Bonačić Lošić Ž, Kuić D, Simunić J, Dobovišek A. The maximum entropy production requirement for proton transfers enhances catalytic efficiency for β-lactamases. Biophys Chem 2018;244:11-21. [PMID: 30448627 DOI: 10.1016/j.bpc.2018.10.004] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/08/2018] [Revised: 10/08/2018] [Accepted: 10/16/2018] [Indexed: 12/01/2022]
11
Nath S. Optimality principle for the coupled chemical reactions of ATP synthesis and its molecular interpretation. Chem Phys Lett 2018. [DOI: 10.1016/j.cplett.2018.03.068] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
12
Koch LG, Britton SL. Theoretical and Biological Evaluation of the Link between Low Exercise Capacity and Disease Risk. Cold Spring Harb Perspect Med 2018;8:cshperspect.a029868. [PMID: 28389512 DOI: 10.1101/cshperspect.a029868] [Citation(s) in RCA: 39] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
13
Skene KR. Thermodynamics, ecology and evolutionary biology: A bridge over troubled water or common ground? ACTA OECOLOGICA-INTERNATIONAL JOURNAL OF ECOLOGY 2017. [DOI: 10.1016/j.actao.2017.10.010] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
14
Dobovišek A, Vitas M, Brumen M, Fajmut A. Energy conservation and maximal entropy production in enzyme reactions. Biosystems 2017;158:47-56. [PMID: 28602731 DOI: 10.1016/j.biosystems.2017.06.001] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2017] [Revised: 05/29/2017] [Accepted: 06/01/2017] [Indexed: 10/19/2022]
15
Bonačić Lošić Ž, Donđivić T, Juretić D. Is the catalytic activity of triosephosphate isomerase fully optimized? An investigation based on maximization of entropy production. J Biol Phys 2017;43:69-86. [PMID: 28050739 PMCID: PMC5323346 DOI: 10.1007/s10867-016-9434-3] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/14/2016] [Accepted: 11/21/2016] [Indexed: 11/29/2022]  Open
16
Chapman EJ, Childers DL, Vallino JJ. How the Second Law of Thermodynamics Has Informed Ecosystem Ecology through Its History. Bioscience 2015. [DOI: 10.1093/biosci/biv166] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]  Open
17
Martyushev LM, Seleznev VD. Maximum entropy production: application to crystal growth and chemical kinetics. Curr Opin Chem Eng 2015. [DOI: 10.1016/j.coche.2014.10.003] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
18
Mathematical Modeling of Microbial Community Dynamics: A Methodological Review. Processes (Basel) 2014. [DOI: 10.3390/pr2040711] [Citation(s) in RCA: 99] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]  Open
19
Jia H, Liggins JR, Chow WS. Acclimation of leaves to low light produces large grana: the origin of the predominant attractive force at work. Philos Trans R Soc Lond B Biol Sci 2013;367:3494-502. [PMID: 23148276 DOI: 10.1098/rstb.2012.0071] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]  Open
20
Martin O, Horvath JE. Biological evolution of replicator systems: towards a quantitative approach. ORIGINS LIFE EVOL B 2013;43:151-60. [PMID: 23494128 DOI: 10.1007/s11084-013-9327-4] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2012] [Accepted: 02/25/2013] [Indexed: 11/25/2022]
21
Franklin O, Johansson J, Dewar RC, Dieckmann U, McMurtrie RE, Brännström A, Dybzinski R. Modeling carbon allocation in trees: a search for principles. TREE PHYSIOLOGY 2012;32:648-66. [PMID: 22278378 DOI: 10.1093/treephys/tpr138] [Citation(s) in RCA: 107] [Impact Index Per Article: 8.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/06/2023]
22
Enzyme kinetics and the maximum entropy production principle. Biophys Chem 2011;154:49-55. [DOI: 10.1016/j.bpc.2010.12.009] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2010] [Revised: 12/19/2010] [Accepted: 12/24/2010] [Indexed: 11/23/2022]
23
Moroz A, Wimpenny DI. On the variational framework employing optimal control for biochemical thermodynamics. Chem Phys 2011. [DOI: 10.1016/j.chemphys.2010.12.009] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
24
Niven RK. Minimization of a free-energy-like potential for non-equilibrium flow systems at steady state. Philos Trans R Soc Lond B Biol Sci 2010;365:1323-31. [PMID: 20368250 DOI: 10.1098/rstb.2009.0296] [Citation(s) in RCA: 33] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]  Open
25
Zupanović P, Brumen M, Jagodic M, Juretić D. Bacterial chemotaxis and entropy production. Philos Trans R Soc Lond B Biol Sci 2010;365:1397-403. [PMID: 20368258 DOI: 10.1098/rstb.2009.0307] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]  Open
26
Dewar RC. Maximum entropy production and plant optimization theories. Philos Trans R Soc Lond B Biol Sci 2010;365:1429-35. [PMID: 20368261 PMCID: PMC2871897 DOI: 10.1098/rstb.2009.0293] [Citation(s) in RCA: 42] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]  Open
27
Niven RK. Steady state of a dissipative flow-controlled system and the maximum entropy production principle. PHYSICAL REVIEW. E, STATISTICAL, NONLINEAR, AND SOFT MATTER PHYSICS 2009;80:021113. [PMID: 19792083 DOI: 10.1103/physreve.80.021113] [Citation(s) in RCA: 43] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/10/2009] [Indexed: 05/28/2023]
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