Abstract
Proton-translocating Fo∙F1-ATPase/synthase that catalyzes synthesis and hydrolysis of ATP is commonly considered to be a reversibly functioning complex. We have previously shown that venturicidin, a specific Fo-directed inhibitor, blocks the synthesis and hydrolysis of ATP with a significant difference in the affinity [Zharova, T. V. and Vinogradov, A. D. (2017) Biochim. Biophys. Acta, 1858, 939-944]. In this paper, we have studied in detail inhibition of Fo∙F1-ATPase/synthase by venturicidin in tightly coupled membranes of Paracoccus denitrificans under conditions of membrane potential generation. ATP hydrolysis was followed by the ATP-dependent succinate-supported NAD+ reduction (potential-dependent reverse electron transfer) catalyzed by the respiratory chain complex I. It has been demonstrated that membrane energization did not affect the affinity of Fo∙F1-ATPase/synthase for venturicidin. The dependence of the residual ATP synthase activity on the concentration of venturicidin approximated a linear function, whereas the dependence of ATP hydrolysis was sigmoidal: at low inhibitor concentrations venturicidin strongly inhibited ATP synthesis without decrease in the rate of ATP hydrolysis. A model is proposed suggesting that ATP synthesis and ATP hydrolysis are catalyzed by two different forms of Fo∙F1.
Similar content being viewed by others
Abbreviations
- ΔΨ:
-
transmembrane electric potential
- CCCP:
-
carbonyl cyanide m-chlorophenylhydrazone
- F1 :
-
hydrophilic part of ATP synthase
- Fo :
-
membrane part of ATP synthase
- pmf :
-
proton motive force (difference between electrochemical potentials of hydrogen ions across a coupling membrane)
- S-13:
-
5-chloro-3-tert-butyl-2′-chloro-4′-nitrosalicylanilide
- SBPs:
-
subbacterial particles of Paracoccus denitrificans
References
Walker, J. E. (2013) The ATP synthase: the understood, the uncertain and the unknown, Biochem. Soc. Trans., 41, 1-16, https://doi.org/10.1042/BST20110773.
Abrahams, J. P., Leslie, A. G., Lutter, R., and Walker, J. E. (1994) Structure at 2.8 A resolution of F1-ATPase from bovine heart mitochondria, Nature, 370, 621-628, https://doi.org/10.1038/370621a0.
Noji, H., Yasuda, R., Yoshida, M., and Kinosita, K. Jr. (1997) Direct observation of the rotation of F1-ATPase, Nature, 386, 299-302, https://doi.org/10.1038/386299a0.
Boyer, P. D. (1998) Energy, life, and ATP, Biosci. Rep., 18, 97-117, https://doi.org/10.1023/a:1020188311092.
Schulz, S., Wilkes, M., Mills, D. J., Kühlbrandt, W., and Meier, T. (2017) Molecular architecture of the N-type ATPase rotor ring from Burkholderia pseudomallei, EMBO Rep., 18, 526-535, https://doi.org/10.15252/embr.201643374.
Kühlbrandt, W. (2019) Structure and mechanisms of F-type ATP synthases, Annu. Rev. Biochem., 88, 515-549, https://doi.org/10.1146/annurev-biochem-013118-110903.
Boyer, P. D. (1997) The ATP synthase – a splendid molecular machine, Annu. Rev. Biochem., 66, 717-749, https://doi.org/10.1146/annurev.biochem.66.1.717.
Itoh, H., Takahashi, A., Adachi, K., Noji, H., Yasuda, R., Yoshida, M., et al. (2004) Mechanically driven ATP synthesis by F1-ATPase, Nature, 427, 465-468, https://doi.org/10.1038/nature02212.
Al-Shawi, M. K., Ketchum, C. J., and Nakamoto, R. K. (1997) The Escherichia coli Fo∙F1 gamma M23K uncoupling mutant has a higher K0.5 for Pi. Transition state analysis of this mutant and others reveals that synthesis and hydrolysis utilize the same kinetic pathway, Biochemistry, 36, 12961-12969, https://doi.org/10.1021/bi971478r.
Weber, J., and Senior, A. E. (2000) ATP synthase: what we know about ATP hydrolysis and what we do not know about ATP synthesis, Biochim. Biophys. Acta, 1458, 300-309, https://doi.org/10.1016/s0005-2728(00)00082-7.
Schwerzmann, K., and Pedersen, P. L. (1986) Regulation of the mitochondrial ATP synthase/ATPase complex, Arch. Biochem. Biophys., 250, 1-18, https://doi.org/10.1016/0003-9861(86)90695-8.
Vasil’eva, E. A., Panchenko, M. V., and Vinogradov, A. D. (1989) Interaction of ATPase from submitochondrial fragments and a natural inhibitor protein during ΔµH+ generation on a membrane [in Russian], Biokhimiia, 54, 1490-1498.
Lee, C., and Ernster, L. (1968) Studies of the energy-transfer system of submitochondrial particles. 2. Effects of oligomycin and aurovertin, Eur. J. Biochem., 3, 391-400, https://doi.org/10.1111/j.1432-1033.1967.tb19542.x.
Roberton, A. M., Holloway, C. T., Knight, I. G., and Beechey, R. B. (1968) A comparison of the effects of NN'-dicyclohexylcarbodi-imide, oligomycin A and aurovertin on energy-linked reactions in mitochondria and submitochondrial particles, Biochem. J., 108, 445-456, https://doi.org/10.1042/bj1080445.
Syroeshkin, A. V., Vasilyeva, E. A., and Vinogradov, A. D. (1995) ATP synthesis catalyzed by the mitochondrial F1-F0 ATP synthase is not a reversal of its ATPase activity, FEBS Lett., 366, 29-32, https://doi.org/10.1016/0014-5793(95)00487-t.
Bald, D., Amano, T., Muneyuki, E., Pitard, B., Rigaud, J. L., et al. (1998) ATP synthesis by FoF1-ATP synthase independent of noncatalytic nucleotide binding sites and insensitive to azide inhibition, J. Biol. Chem., 273, 865-870, https://doi.org/10.1074/jbc.273.2.865.
García, J. J., Tuena de Gómez-Puyou, M., and Gómez-Puyou, A. J. (1995) Inhibition by trifluoperazine of ATP synthesis and hydrolysis by particulate and soluble mitochondrial F1: competition with H2PO4–, J. Bioenerg. Biomembr., 27, 127-136, https://doi.org/10.1007/BF02110340.
Vinogradov, A. D. (1984) Catalytic properties of mitochondrial ATP-synthetase [in Russian], Biokhimiia, 49, 1220-1238.
Gao, Y. Q., Yang, W., and Karplus, M. (2005) A structure-based model for the synthesis and hydrolysis of ATP by F1-ATPase, Cell, 123, 195-205, https://doi.org/10.1016/j.cell.2005.10.001.
Vinogradov, A. D. (2000) Steady-state and pre-steady-state kinetics of the mitochondrial Fo∙F1 ATPase: is ATP synthase a reversible molecular machine? J. Exp. Biol., 203, 41-49, https://doi.org/10.1242/jeb.203.1.41.
Vinogradov, A. D. (2019) New perspective on the reversibility of ATP synthesis and hydrolysis by Fo∙F1-ATP synthase (hydrolase), Biochemistry (Moscow), 84, 1247-1255, https://doi.org/10.1134/S0006297919110038.
John, P., and Whatley, F. R. (1975) Paracoccus denitrificans and the evolutionary origin of the mitochondrion, Nature, 254, 495-498, https://doi.org/10.1038/254495a0.
Perez, J. A., and Ferguson, S. J. (1990) Kinetics of oxidative phosphorylation in Paracoccus denitrificans. 1. Mechanism of ATP synthesis at the active site(s) of FoF1-ATPase, Biochemistry, 29, 10503-10518, https://doi.org/10.1021/bi00498a013.
Pacheco-Moises, F., García, J. J., Rodriguez, J. S., and Moreno-Sanchez, R. (2000) Sulfite and membrane energization induce two different active states of the Paracoccus denitrificans FoF1-ATPase, Eur. J. Biochem., 267, 993-1000, https://doi.org/10.1046/j.1432-1327.2000.01088.x.
Zharova, T. V., and Vinogradov, A. D. (2003) Proton-translocating ATP-synthase of Paracoccus denitrificans: ATP-hydrolytic activity, Biochemistry (Moscow), 68, 1101-1108, https://doi.org/10.1023/a:1026306611821.
Zharova, T. V., and Vinogradov, A. D. (2004) Energy-dependent transformation of Fo·F1-ATPase in Paracoccus denitrificans plasma membranes, J. Biol. Chem., 279, 12319-12324, https://doi.org/10.1074/jbc.M311397200.
Kegyarikova, K. A., Zharova, T. V., and Vinogradov, A. D. (2010) Paracoccus denitrificans proton-translocating ATPase: kinetics of oxidative phosphorylation, Biochemistry (Moscow), 75, 1264-1271, https://doi.org/10.1134/s0006297910100081.
Hong, S., and Pedersen, P. L. (2008) ATP synthase and the actions of inhibitors utilized to study its roles in human health, disease, and other scientific areas, Microbiol. Mol. Biol. Rev., 72, 590-641, https://doi.org/10.1128/MMBR.00016-08.
Zharova, T. V., and Vinogradov, A. D. (2017) Functional heterogeneity of Fo·F1 H+-ATPase/synthase in coupled Paracoccus denitrificans plasma membranes, Biochim. Biophys. Acta, 1858, 939-944, https://doi.org/10.1016/j.bbabio.2017.08.006.
Schafer, G. (1982) Differentiation of two states of F1-ATPase by nucleotide analogs, FEBS Lett., 139, 271-275, https://doi.org/10.1016/0014-5793(82)80868-5.
Vinogradov, A. D. (1998) Catalytic properties of the mitochondrial NADH-ubiquinone oxidoreductase (complex I) and the pseudo-reversible active/inactive enzyme transition, Biochim. Biophys. Acta, 1364, 169-185, https://doi.org/10.1016/s0005-2728(98)00026-7.
John, P., and Whatley, F. R. (1970) Oxidative phosphorylation coupled to oxygen uptake and nitrate reduction in Micrococcus denitrificans, Biochim. Biophys. Acta, 216, 342-352, https://doi.org/10.1016/0005-2728(70)90225-2.
John, P., and Hamilton, W. A. (1970) Respiratory control in membrane particles from Micrococcus denitrificans, FEBS Lett., 10, 246-248, https://doi.org/10.1016/0014-5793(70)80639-1.
Chance, B., and Nishimura, M. (1967) Sensitive measurements of changes of hydrogen ion concentration, Methods Enzymol., 10, 641-650, https://doi.org/10.1016/0076-6879(67)10106-7.
Waggoner, A. S. (1979) The use of cyanine dyes for the determination of membrane potentials in cells, organelles, and vesicles, Methods Enzymol., 55, 689-695, https://doi.org/10.1016/0076-6879(79)55077-0.
Perlin, D. S., Latchey, L. R., and Senior, A. E. (1985) Inhibition of Escherichia coli H+-ATPase by venturicidin, oligomycin and ossamycin, Biochim. Biophys. Acta, 807, 238-244, https://doi.org/10.1016/0005-2728(85)90254-3.
Linnett, P. E., and Beechey, R. B. (1979) Inhibitors of the ATP synthethase system, Methods Enzymol., 55, 472-518, https://doi.org/10.1016/0076-6879(79)55061-7.
Grivennikova, V. G., Roth, R., Zakharova, N. V., Hagerhall, C., and Vinogradov, A. D. (2003) The mitochondrial and prokaryotic proton-translocating NADH:ubiquinone oxidoreductases: similarities and dissimilarities of the quinone-junction sites, Biochim. Biophys. Acta, 1607, 79-90, https://doi.org/10.1016/j.bbabio.2003.09.001.
Kotlyar, A. B., and Borovok, N. (2002) NADH oxidation and NAD+ reduction catalysed by tightly coupled inside-out vesicles from Paracoccus denitrificans, Eur. J. Biochem., 269, 4020-4024, https://doi.org/10.1046/j.1432-1033.2002.03091.x.
Grivennikova, V. G., Kotlyar, A. B., Karliner, J. S., Cecchini, G., and Vinogradov, A. D. (2007) Redox-dependent change of nucleotide affinity to the active site of the mammalian complex I, Biochemistry, 46, 10971-10980, https://doi.org/10.1021/bi7009822.
Gladyshev, G. V., Grivennikova, V. G., and Vinogradov, A. D. (2018) FMN site-independent energy-linked reverse electron transfer in mitochondrial respiratory complex I, FEBS Lett., 592, 2213-2219, https://doi.org/10.1002/1873-3468.13117.
Zharova, T. V., and Vinogradov, A. D. (2006) Energy-linked binding of Pi is required for continuous steady-state proton-translocating ATP hydrolysis catalyzed by Fo·F1 ATP synthase, Biochemistry, 45, 14552-14558, https://doi.org/10.1021/bi061520v.
Harris, D. A., John, P., and Rada, G. K. (1977) Tightly bound nucleotides of the energy-transducing ATPase, and their role in oxidative phosphorylation. I. The Paracoccus denitrificans system, Biochim. Biophys. Acta, 459, 546-559, https://doi.org/10.1016/0005-2728(77)90053-6.
Morales-Rios, E., de la Rosa-Morales, F., Mendoza-Hernandez, G., Rodríguez-Zavala, J. S., Celis, H., et al. (2010) A novel 11-kDa inhibitory subunit in the F1F0 ATP synthase of Paracoccus denitrificans and related alpha-proteobacteria, FASEB J., 24, 599-607, https://doi.org/10.1096/fj.09-137356.
Guo, H., Suzuki, T., and Rubinstein, J. L. (2019) Structure of a bacterial ATP synthase, eLife, 8, e43128, https://doi.org/10.7554/eLife.43128.
Mendoza-Hoffmann, F., Pérez-Oseguera, Á., Cevallos, M. Á., Zarco-Zavala, M., Ortega, R., et al. (2018) The biological role of the ζ subunit as unidirectional inhibitor of the F1·F0-ATPase of Paracoccus denitrificans, Cell Rep., 22, 1067-1078, https://doi.org/10.1016/j.celrep.2017.12.106.
Morales-Rios, E., Watt, I. N., Zhang, Q., Ding, S., Fearnley, I. M., et al. (2015) Purification, characterization and crystallization of the F-ATPase from Paracoccus denitrificans, Open Biol., 5, 150119, https://doi.org/10.1098/rsob.150119.
Zarco-Zavala, M., Mendoza-Hoffmann, F., and García-Trejo, J. J. (2018) Unidirectional regulation of the F1Fo-ATP synthase nanomotor by the ζ pawl-ratchet inhibitor protein of Paracoccus denitrificans and related α-proteobacteria, Biochim. Biophys. Acta, 1859, 762-774, https://doi.org/10.1016/j.bbabio.2018.06.005.
Guo, H., Courbon, G. M., Bueler, S. A., Mai, J., Liu, J., et al. (2021) Structure of mycobacterial ATP synthase bound to the tuberculosis drug bedaquiline, Nature, 589, 143-147, https://doi.org/10.1038/s41586-020-3004-3.
Milgrom, Y. M., and Duncan, T. D. (2021) Complex effects of macrolide venturicidins on bacterial F-ATPases likely contribute to their action as antibiotic adjuvants, Sci. Rep., 11, 13631, https://doi.org/10.1038/s41598-021-93098-8.
Andries, K., Verhasselt, P., Guillemont, J., Göhlmann, H. W., Neefs, J. M., et al. (2005) A diarylquinoline drug active on the ATP synthase of Mycobacterium tuberculosis, Science, 307, 223-227, https://doi.org/10.1126/science.1106753.
Patel, B. A., D’Amico, T. L., and Blagg, B. S. J. (2020) Natural products and other inhibitors of F1Fo ATP synthase, Eur. J. Med. Chem., 207, 112779, https://doi.org/10.1016/j.ejmech.2020.112779.
Wang, T., Ma, F., and Qian, H. L. (2021) Defueling the cancer: ATP synthase as an emerging target in cancer therapy, Mol. Ther. Oncolytics, 23, 82-95, https://doi.org/10.1016/j.omto.2021.08.015.
Yarlagadda, V., Medina, R., and Wright, G. D. (2020) Venturicidin A, a membrane-active natural product inhibitor of ATP synthase potentiates aminoglycoside antibiotics, Sci. Rep., 10, 8134, https://doi.org/10.1038/s41598-020-64756-0.
Acknowledgments
We fondly remember Andrey Dmitrievich Vinogradov, an outstanding scientist and our teacher, who had headed our laboratory and raised multiple generations of scientists, who have worked and currently work in Russia and abroad. We are eternally grateful to him for many years of collaborative work.
We thank Dr. Anna Brzyska and Mr. Grigory Gladyshev for their linguistic help in preparation of this manuscript.
Funding
The work was supported by the Russian Science Foundation (project no. 22-24-00106).
Author information
Authors and Affiliations
Contributions
T.V.Z. oversaw the study and conducted experiments; T.V.Z., V.G.G., and V.S.K. discussed the results; V.S.K. developed the mathematical model; T.V.Z. and V.G.G. wrote the manuscript.
Corresponding author
Ethics declarations
The authors declare no conflicts of interest in financial or any other sphere. This article does not include the experiments involving humans or animals performed by any of the authors.
Electronic supplementary material
Rights and permissions
About this article
Cite this article
Zharova, T.V., Kozlovsky, V.S. & Grivennikova, V.G. Interaction of Venturicidin and Fo·F1-ATPase/ATP Synthase of Tightly Coupled Subbacterial Particles of Paracoccus denitrificans in Energized Membranes. Biochemistry Moscow 87, 742–751 (2022). https://doi.org/10.1134/S0006297922080065
Received:
Revised:
Accepted:
Published:
Issue Date:
DOI: https://doi.org/10.1134/S0006297922080065