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Ebert A, Goss KU. Screening of 6000 Compounds for Uncoupling Activity: A Comparison Between a Mechanistic Biophysical Model and the Structural Alert Profiler Mitotox. Toxicol Sci 2021; 185:208-219. [PMID: 34865177 DOI: 10.1093/toxsci/kfab139] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Abstract
Protonophoric uncoupling of phosphorylation is an important factor when assessing chemicals for their toxicity, and has recently moved into focus in pharmaceutical research with respect to the treatment of diseases such as cancer, diabetes, or obesity. Reliably identifying uncoupling activity is thus a valuable goal. To that end, we screened more than 6000 anionic compounds for in vitro uncoupling activity, using a biophysical model based on ab initio COSMO-RS input parameters with the molecular structure as the only external input. We combined these results with a model for baseline toxicity (narcosis). Our model identified more than 1250 possible uncouplers in the screening dataset, and identified possible new uncoupler classes such as thiophosphoric acids. When tested against 423 known uncouplers and 612 known inactive compounds in the dataset, the model reached a sensitivity of 83% and a specificity of 96%. In a direct comparison, it showed a similar specificity than the structural alert profiler Mitotox (97%), but much higher sensitivity than Mitotox (47%). The biophysical model thus allows for a more accurate screening for uncoupling activity than existing structural alert profilers. We propose to use our model as a complementary tool to screen large datasets for protonophoric uncoupling activity in drug development and toxicity assessment.
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Affiliation(s)
- Andrea Ebert
- Analytical Environmental Chemistry, Helmholtz Centre for Environmental Research-UFZ, D-04318 Leipzig, Germany
| | - Kai-Uwe Goss
- Analytical Environmental Chemistry, Helmholtz Centre for Environmental Research-UFZ, D-04318 Leipzig, Germany.,Institute of Chemistry, Martin Luther University, D-06120 Halle, Germany
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2
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Ebert A, Goss KU. Predicting Uncoupling Toxicity of Organic Acids Based on Their Molecular Structure Using a Biophysical Model. Chem Res Toxicol 2020; 33:1835-1844. [PMID: 32462864 DOI: 10.1021/acs.chemrestox.0c00063] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
We present a purely mechanistic model to predict protonophoric uncoupling activity ECw of organic acids. All required input information can be derived from their chemical structure. This makes it a convenient predictive model to gain valuable information on the toxicity of organic chemicals already at an early stage of development of new commercial chemicals (e.g., in agriculture or pharmaceutical industries). A critical component of the model is the consideration of the possible formation of heterodimers from the neutral and anionic monomer, and its permeation through the membrane. The model was tested against literature data measured in chromatophores, submitochondrial particles, isolated mitochondria, and intact green algae cells with good success. It was also possible to reproduce pH-dependencies in isolated mitochondria and intact cells. Besides the prediction of the ECw, the mechanistic nature of the model allows researchers to draw direct conclusions on the impact of single input factors such as pH- and voltage-gradients across the membrane, the anionic and neutral membrane permeability, and the heterodimerization constant. These insights are of importance in drug design or chemical regulation.
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Affiliation(s)
- Andrea Ebert
- Analytical Environmental Chemistry, Helmholtz Centre for Environmental Research - UFZ, Leipzig 04318, Germany.,Institute of Biophysics, Johannes Kepler University, Linz 4020, Austria
| | - Kai-Uwe Goss
- Analytical Environmental Chemistry, Helmholtz Centre for Environmental Research - UFZ, Leipzig 04318, Germany.,Institute of Chemistry, Martin Luther University, Halle 06120, Germany
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3
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Uno S, Kimura H, Murai M, Miyoshi H. Exploring the quinone/inhibitor-binding pocket in mitochondrial respiratory complex I by chemical biology approaches. J Biol Chem 2018; 294:679-696. [PMID: 30425100 DOI: 10.1074/jbc.ra118.006056] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/29/2018] [Revised: 11/10/2018] [Indexed: 11/06/2022] Open
Abstract
NADH-quinone oxidoreductase (respiratory complex I) couples NADH-to-quinone electron transfer to the translocation of protons across the membrane. Even though the architecture of the quinone-access channel in the enzyme has been modeled by X-ray crystallography and cryo-EM, conflicting findings raise the question whether the models fully reflect physiologically relevant states present throughout the catalytic cycle. To gain further insights into the structural features of the binding pocket for quinone/inhibitor, we performed chemical biology experiments using bovine heart sub-mitochondrial particles. We synthesized ubiquinones that are oversized (SF-UQs) or lipid-like (PC-UQs) and are highly unlikely to enter and transit the predicted narrow channel. We found that SF-UQs and PC-UQs can be catalytically reduced by complex I, albeit only at moderate or low rates. Moreover, quinone-site inhibitors completely blocked the catalytic reduction and the membrane potential formation coupled to this reduction. Photoaffinity-labeling experiments revealed that amiloride-type inhibitors bind to the interfacial domain of multiple core subunits (49 kDa, ND1, and PSST) and the 39-kDa supernumerary subunit, although the latter does not make up the channel cavity in the current models. The binding of amilorides to the multiple target subunits was remarkably suppressed by other quinone-site inhibitors and SF-UQs. Taken together, the present results are difficult to reconcile with the current channel models. On the basis of comprehensive interpretations of the present results and of previous findings, we discuss the physiological relevance of these models.
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Affiliation(s)
- Shinpei Uno
- From the Division of Applied Life Sciences, Graduate School of Agriculture, Kyoto University, Sakyo-ku, Kyoto 606-8502, Japan
| | - Hironori Kimura
- From the Division of Applied Life Sciences, Graduate School of Agriculture, Kyoto University, Sakyo-ku, Kyoto 606-8502, Japan
| | - Masatoshi Murai
- From the Division of Applied Life Sciences, Graduate School of Agriculture, Kyoto University, Sakyo-ku, Kyoto 606-8502, Japan
| | - Hideto Miyoshi
- From the Division of Applied Life Sciences, Graduate School of Agriculture, Kyoto University, Sakyo-ku, Kyoto 606-8502, Japan
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4
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Enoch SJ, Schultz TW, Popova IG, Vasilev KG, Mekenyan OG. Development of a Decision Tree for Mitochondrial Dysfunction: Uncoupling of Oxidative Phosphorylation. Chem Res Toxicol 2018; 31:814-820. [DOI: 10.1021/acs.chemrestox.8b00132] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023]
Affiliation(s)
- Steven J. Enoch
- School of Pharmacy and Biomolecular Sciences, Liverpool John Moores University, Byrom Street, L3 3AF Liverpool, England
| | - Terry W. Schultz
- College of Veterinary Medicine, The University of Tennessee, 2407 River Drive, Knoxville, Tennessee 37996-4500, United States
| | - Ioanna G. Popova
- Laboratory of Mathematical Chemistry (LMC), As. Zlatarov University, Bourgas 8000, Bulgaria
| | - Krasimir G. Vasilev
- Laboratory of Mathematical Chemistry (LMC), As. Zlatarov University, Bourgas 8000, Bulgaria
| | - Ovanes G. Mekenyan
- Laboratory of Mathematical Chemistry (LMC), As. Zlatarov University, Bourgas 8000, Bulgaria
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Alkyl-substituted phenylamino derivatives of 7-nitrobenz-2-oxa-1,3-diazole as uncouplers of oxidative phosphorylation and antibacterial agents: involvement of membrane proteins in the uncoupling action. BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES 2017; 1859:377-387. [DOI: 10.1016/j.bbamem.2016.12.014] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/22/2016] [Revised: 12/15/2016] [Accepted: 12/19/2016] [Indexed: 11/19/2022]
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6
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Structure-activity relationships of furazano[3,4-b]pyrazines as mitochondrial uncouplers. Bioorg Med Chem Lett 2015; 25:4858-4861. [PMID: 26119501 DOI: 10.1016/j.bmcl.2015.06.040] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/20/2015] [Revised: 06/09/2015] [Accepted: 06/11/2015] [Indexed: 11/21/2022]
Abstract
Chemical mitochondrial uncouplers are lipophilic weak acids that transport protons into the mitochondrial matrix via a pathway that is independent of ATP synthase, thereby uncoupling nutrient oxidation from ATP production. These uncouplers have potential for the treatment of diseases such as obesity, Parkinson's disease, and aging. We have previously identified a novel mitochondrial protonophore, named BAM15, which stimulates mitochondrial respiration across a broad dosing range compared to carbonyl cyanide p-trifluoromethoxyphenylhydrazone (FCCP). Herein, we report our investigations on the structure-activity relationship profile of BAM15. Our studies demonstrate the importance of the furazan, pyrazine, and aniline rings as well as pKa in maintaining its effective protonophore activity.
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Denisov SS, Kotova EA, Khailova LS, Korshunova GA, Antonenko YN. Tuning the hydrophobicity overcomes unfavorable deprotonation making octylamino-substituted 7-nitrobenz-2-oxa-1,3-diazole (n-octylamino-NBD) a protonophore and uncoupler of oxidative phosphorylation in mitochondria. Bioelectrochemistry 2014; 98:30-8. [DOI: 10.1016/j.bioelechem.2014.02.002] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/10/2013] [Revised: 01/21/2014] [Accepted: 02/23/2014] [Indexed: 11/15/2022]
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8
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Michałowicz J, Sicińska P. Chlorophenols and chlorocatechols induce apoptosis in human lymphocytes (in vitro). Toxicol Lett 2009; 191:246-52. [DOI: 10.1016/j.toxlet.2009.09.010] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2009] [Revised: 09/09/2009] [Accepted: 09/10/2009] [Indexed: 11/27/2022]
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9
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Sierra-Campos E, Valdez-Solana MA, Matuz-Mares D, Velázquez I, Pardo JP. Induction of morphological changes in Ustilago maydis cells by octyl gallate. Microbiology (Reading) 2009; 155:604-611. [DOI: 10.1099/mic.0.020800-0] [Citation(s) in RCA: 15] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
The effects of octyl gallate on Ustilago maydis yeast cells were analysed in relation to its capacity to oxidize compounds (pro-oxidant actions). All phenolic compounds tested inhibited the alternative oxidase (AOX). However, only octyl gallate induced a morphological change in yeast cells and collapsed the mitochondrial membrane potential. In contrast to octyl gallate, propyl gallate and nordihydroguaiaretic acid caused only a negligible cell change and the membrane potential was not affected. Our findings show that structurally related phenolic compounds do not necessarily exert similar actions on target cells. Preincubation of U. maydis cells with trolox inhibited the change to pseudohyphal growth produced by octyl gallate. These results suggest that in addition to the inhibitory action of octyl gallate on the AOX, this compound induces a switch from yeast to a mycelium, probably through the formation of lipid peroxides.
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Affiliation(s)
- E. Sierra-Campos
- Departamento de Bioquímica, Facultad de Medicina, Universidad Nacional Autónoma de México, Apartado Postal 70-159, Coyoacán 04510, México D. F., Mexico
| | - M. A. Valdez-Solana
- Departamento de Microbiología, Escuela Nacional de Ciencias Biológicas, IPN, Casco de Santo Tomas, Mexico
| | - D. Matuz-Mares
- Departamento de Bioquímica, Facultad de Medicina, Universidad Nacional Autónoma de México, Apartado Postal 70-159, Coyoacán 04510, México D. F., Mexico
| | - I. Velázquez
- Departamento de Bioquímica, Facultad de Medicina, Universidad Nacional Autónoma de México, Apartado Postal 70-159, Coyoacán 04510, México D. F., Mexico
| | - J. P. Pardo
- Departamento de Bioquímica, Facultad de Medicina, Universidad Nacional Autónoma de México, Apartado Postal 70-159, Coyoacán 04510, México D. F., Mexico
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Spycher S, Smejtek P, Netzeva TI, Escher BI. Toward a Class-Independent Quantitative Structure−Activity Relationship Model for Uncouplers of Oxidative Phosphorylation. Chem Res Toxicol 2008; 21:911-27. [DOI: 10.1021/tx700391f] [Citation(s) in RCA: 58] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Simon Spycher
- Department of Environmental Toxicology, UTOX, Swiss Federal Institute of Aquatic Science and Technology, EAWAG, CH-8600 Dübendorf, Switzerland, Department of Physics, Portland State University, Portland, Oregon 97207, and European Chemicals Bureau, Institute for Health and Consumer Protection, Joint Research Centre, 21020 Ispra (VA), Italy
| | - Pavel Smejtek
- Department of Environmental Toxicology, UTOX, Swiss Federal Institute of Aquatic Science and Technology, EAWAG, CH-8600 Dübendorf, Switzerland, Department of Physics, Portland State University, Portland, Oregon 97207, and European Chemicals Bureau, Institute for Health and Consumer Protection, Joint Research Centre, 21020 Ispra (VA), Italy
| | - Tatiana I. Netzeva
- Department of Environmental Toxicology, UTOX, Swiss Federal Institute of Aquatic Science and Technology, EAWAG, CH-8600 Dübendorf, Switzerland, Department of Physics, Portland State University, Portland, Oregon 97207, and European Chemicals Bureau, Institute for Health and Consumer Protection, Joint Research Centre, 21020 Ispra (VA), Italy
| | - Beate I. Escher
- Department of Environmental Toxicology, UTOX, Swiss Federal Institute of Aquatic Science and Technology, EAWAG, CH-8600 Dübendorf, Switzerland, Department of Physics, Portland State University, Portland, Oregon 97207, and European Chemicals Bureau, Institute for Health and Consumer Protection, Joint Research Centre, 21020 Ispra (VA), Italy
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11
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Ozaki S, Kano K, Shirai O. Electrochemical elucidation on the mechanism of uncoupling caused by hydrophobic weak acids. Phys Chem Chem Phys 2008; 10:4449-55. [DOI: 10.1039/b803458c] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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12
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Abstract
Mitochondria play a critical role in generating most of the cell's energy as ATP. They are also involved in other metabolic processes such as urea generation, haem synthesis and fatty acid beta-oxidation. Disruption of mitochondrial function by drugs can result in cell death by necrosis or can signal cell death by apoptosis (e.g., following cytochrome c release). Drugs that injure mitochondria usually do so by inhibiting respiratory complexes of the electron chain; inhibiting or uncoupling oxidative phosphorylation; inducing mitochondrial oxidative stress; or inhibiting DNA replication, transcription or translation. It is important to test for mitochondrial toxicity early in drug development as impairment of mitochondrial function can induce various pathological conditions that are life threatening or can increase the progression of existing mitochondrial diseases.
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Affiliation(s)
- Katie Chan
- University of Toronto, Department of Pharmaceutical Sciences, Faculty of Pharmacy, Toronto, Ontario, M5S 2S2, Canada
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13
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Staniek K, Rosenau T, Gregor W, Nohl H, Gille L. The protection of bioenergetic functions in mitochondria by new synthetic chromanols. Biochem Pharmacol 2005; 70:1361-70. [PMID: 16150421 DOI: 10.1016/j.bcp.2005.07.030] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/06/2005] [Revised: 07/29/2005] [Accepted: 07/29/2005] [Indexed: 10/25/2022]
Abstract
alpha-Tocopherol is the most important lipophilic antioxidant of the chromanol type protecting biomembranes from lipid peroxidation (LPO). Therefore, alpha-tocopherol and its derivatives are frequently used in the therapy or prevention of oxygen radical-derived diseases. In the present study, novel chromanol-type antioxidants (twin-chromanol, cis- and trans-oxachromanol) as well as the well-known short-chain analogue of alpha-tocopherol, pentamethyl-chromanol, were tested for their antioxidative potency in rat heart mitochondria (RHM). Our experiments revealed that the bioenergetic parameters of mitochondria were not deteriorated in the presence of chromanols (up to 50 nmol/mg protein). Exposure of RHM to cumene hydroperoxide and Fe2+ (final concentrations 50 microM each), inducing LPO, significantly affected their bioenergetic parameters which were determined in the presence of glutamate and malate (substrates of mitochondrial complex I). Alterations of the bioenergetic parameters were partially prevented in a concentration-dependent manner by preincubating RHM with antioxidants before adding the radical-generating system. In the lower concentration range, twin-chromanol turned out to be more efficient than pentamethyl-chromanol, both being far more protective than cis- and trans-oxachromanol. Measurement of protein-bound SH groups and thiobarbituric acid-reactive substances revealed that this protective effect was due to their antioxidative action. Furthermore, HPLC measurements of alpha-tocopherol and alpha-tocopheryl quinone in rat liver mitochondria demonstrated an alpha-tocopherol-sparing effect of twin-chromanol. In conclusion, new chromanol-type antioxidants, especially twin-chromanol, were able to improve bioenergetic and biochemical parameters of mitochondria exposed to oxidative stress.
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Affiliation(s)
- Katrin Staniek
- Research Institute for Biochemical Pharmacology and Toxicology, University of Veterinary Medicine Vienna, Veterinärplatz 1, A-1210 Vienna, Austria
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Moridani MY, Siraki A, Chevaldina T, Scobie H, O'Brien PJ. Quantitative structure toxicity relationships for catechols in isolated rat hepatocytes. Chem Biol Interact 2004; 147:297-307. [PMID: 15135085 DOI: 10.1016/j.cbi.2004.02.001] [Citation(s) in RCA: 34] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2003] [Revised: 01/08/2004] [Accepted: 02/02/2004] [Indexed: 11/26/2022]
Abstract
One- and two-parameter quantitative structure toxicity relationship (QSTR) equations were obtained to describe the cytotoxicity of isolated rat hepatocytes induced by 23 catechols in which LD(50) represents the catechol concentration required to induce 50% cytotoxicity in 2 h. A QSTR equation logLD(50) (microM = - 0.464(+/-0.065) log P + 3.724(+/-0.114) (n = 20, r(2) = 0.740, s(y,x) = 0.372, P < 1 x 10(-6), outliers: 4-methoxycatechol, 3-methoxycatechol, L-dopa) was derived where logP represents octanol/water partitioning. Outliers were determined by adopting a statistical method to standardize the identification of outliers. When pK(a1), the first ionization constant, was considered as a contributing parameter a two-parameter QSTR equation was derived: logLD(50) (microM = - 0.343(+/-0.058) log P - 0.116(+/-0.041) pK(a1)+4.389 (+/-0.315) (n = 22, r(2) = 0.738, s(y,x) = 0.375, P < 0.01, outlier: 4-methoxycatechol). Replacing logP with logD(7.4), the partition coefficient at pH 7.4, improved the first correlation by limiting the outlier to 4-methoxycatechol: logLD(50) (microM)=-0.252(+/-0.039) logD(7.4)+3.168(+/-0.090) (n = 22, r(2) = 0.671, s(y,x) = 0.420, P < 1 x 10(-5). In this study, 4-methoxycatechol (readily autooxidizable) was found to be an outlier for all QSTR equations derived. These findings point to lipophilicity and pK(a1) as two important characteristics of catechols that can be used to predict their cytotoxicity towards isolated rat hepatocytes. The catechols with the higher lipophilicity/distribution coefficient, the lower degree of ionization and the higher pK(a(catechol)) were more toxic towards hepatocytes than the other catechols.
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Affiliation(s)
- Majid Y Moridani
- Faculty of Pharmacy, University of Toronto, 19 Russell Street, Toronto, Ont., Canada M5S 2S2
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15
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Moridani MY, Siraki A, O'Brien PJ. Quantitative structure toxicity relationships for phenols in isolated rat hepatocytes. Chem Biol Interact 2003; 145:213-23. [PMID: 12686497 DOI: 10.1016/s0009-2797(02)00258-2] [Citation(s) in RCA: 72] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
Abstract
Quantitative structure toxicity relationship (QSTR) equations were obtained to predict and describe the cytotoxicity of 31 phenols using logLD(50) as a concentration to induce 50% cytotoxicity of isolated rat hepatocytes in 2 h and logP as octanol/water partitioning: logLD(50) (microM)=-0.588(+/-0.059)logP+4.652(+/-0.153) (n=27, r(2)=0.801, s=0.261, P<1 x 10(-9)). Hydroquinone, catechol, 4-nitrophenol, and 2,4-dinitrophenol were outliers for this equation. When the ionization constant pK(a) was considered as a contributing factor a two-parameter QSTR equation was derived: logLD(50) (microM)=-0.595(+/-0.051)logP+0.197(+/-0.029)pK(a)+2.665(+/-0.281) (n=28, r(2)=0.859, s=0.218, P<1 x 10(-6)). Using sigma+, the Brown variation of the Hammet electronic constant, as a contributing parameter, the cytotoxicity of phenols towards hepatocytes were defined by logLD(50) (microM)=-0.594(+/-0.052)logP-0.552(+/-0.085)sigma+ +4.540(+/-0.132) (n=28, r(2)=0.853, s=0.223, P<1 x 10(-6)). Replacing sigma+ with the homolytic bond dissociation energy (BDE) for (X-PhOH+PhO.-->X-PhO.+PhOH) led to logLD(50) (microM)=-0.601(+/-0.066)logP-0.040(+/-0.018)BDE+4.611(+/-0.166) (n=23, r(2)=0.827, s=0.223, P<0.05). Hydroquinone, catechol and 2-nitrophenol were outliers for the above equations. Using redox potential and logP led to a new correlation: logLD(50) (microM)=-0.529(+/-0.135)logP+2.077(+/-0.892)E(p/2)+2.806(+/-0.592) (n=15, r(2)=0.561, s=0.383, P<0.05) with 4-nitrophenol as an outlier. Our findings indicate that phenols with higher lipophilicity, BDE, or sigma+ values or with lower pK(a) and redox potential were more toxic towards hepatocytes. We also showed that a collapse of hepatocyte mitochondrial membrane potential preceded the cytotoxicity of most phenols. Our study indicates that one or a combination of mechanisms; i.e. mitochondrial uncoupling, phenoxy radicals, or phenol metabolism to quinone methides and quinones, contribute to phenol cytotoxicity towards hepatocytes depending on the phenol chemical structure.
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Affiliation(s)
- Majid Y Moridani
- Faculty of Pharmacy, University of Toronto, 19 Russell Street, Toronto, Ontario, Canada M5S 2S2
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16
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Oyedotun KS, Lemire BD. The Quinone-binding sites of the Saccharomyces cerevisiae succinate-ubiquinone oxidoreductase. J Biol Chem 2001; 276:16936-43. [PMID: 11279023 DOI: 10.1074/jbc.m100184200] [Citation(s) in RCA: 34] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022] Open
Abstract
The Saccharomyces cerevisiae succinate dehydrogenase (SDH) of the mitochondrial electron transport chain oxidizes succinate and reduces ubiquinone. Using a random mutagenesis approach, we identified functionally important amino acid residues in one of the anchor subunits, Sdh4p. We analyzed three point mutations (F69V, S71A, and H99L) and one nonsense mutation (Y89OCH) that truncates the Sdh4p subunit at the third predicted transmembrane segment. The F69V and the S71A mutations result in greatly impaired respiratory growth in vivo and quinone reductase activities in vitro, with negligible effects on enzyme stability. In contrast, the Y89OCH and the H99L mutations elicit large structural perturbations that impair assembly as evidenced by reduced covalent FAD levels, membrane-associated succinate-phenazine methosulfate reductase activities, and thermal stability. We propose that the Phe-69 and the Ser-71 residues are involved in the formation of a quinone-binding site, whereas the His-99 residue is at the interface of the peripheral and the membrane domains. In addition, the properties of the Y89OCH mutation are consistent with the interpretation that the third transmembrane segment is not involved in catalysis but rather plays an important structural role. The mutant enzymes are differentially sensitive to a quinone analog inhibitor, providing further evidence for a two-quinone binding model in the yeast SDH.
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Affiliation(s)
- K S Oyedotun
- Canadian Institutes of Health Research Group in the Molecular Biology of Membrane Proteins, Department of Biochemistry, University of Alberta, Edmonton, Alberta T6G 2H7, Canada
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Abstract
Mitochondria have long been recognized as the generators of energy for the cell. Like any other power source, however, mitochondria are highly vulnerable to inhibition or uncoupling of the energy harnessing process and run a high risk for catastrophic damage to the cell. The exquisite structural and functional characteristics of mitochondria provide a number of primary targets for xenobiotic-induced bioenergetic failure. They also provide opportunities for selective delivery of drugs to the mitochondrion. In light of the large number of natural, commercial, pharmaceutical, and environmental chemicals that manifest their toxicity by interfering with mitochondrial bioenergetics, it is important to understand the underlying mechanisms. The significance is further underscored by the recent identification of bioenergetic control points for cell replication and differentiation and the realization that mitochondria play a determinant role in cell signaling and apoptotic modes of cell death.
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Affiliation(s)
- K B Wallace
- Department of Biochemistry and Molecular Biology, University of Minnesota School of Medicine, Duluth 55812, USA.
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Affourtit C, Heaney SP, Moore AL. Mitochondrial electron transfer in the wheat pathogenic fungus Septoria tritici: on the role of alternative respiratory enzymes in fungicide resistance. BIOCHIMICA ET BIOPHYSICA ACTA 2000; 1459:291-8. [PMID: 11004442 DOI: 10.1016/s0005-2728(00)00157-2] [Citation(s) in RCA: 28] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Certain phytopathogenic fungi are able to express alternative NADH- and quinol-oxidising enzymes that are insensitive to inhibitors of the mitochondrial respiratory Complexes I and III. To assess the extent to which such enzymes confer tolerance to respiration-targeted fungicides, an understanding of mitochondrial electron transfer in these species is required. An isolation procedure has been developed which results in intact, active and coupled mitochondria from the wheat pathogen Septoria tritici, as evidenced by morphological and kinetic data. Exogenous NADH, succinate and malate/glutamate are readily oxidised, the latter activity being only partly (approx. 70%) sensitive to rotenone. Of particular importance was the finding that azoxystrobin (a strobilurin fungicide) potently inhibits fungal respiration at the level of Complex III. In some S. tritici strains investigated, a small but significant part of the respiratory activity (approx. 10%) is insensitive to antimycin A and azoxystrobin. Such resistant activity is sensitive to octyl gallate, a specific inhibitor of the plant alternative oxidase. This enzyme, however, could not be detected immunologically. On the basis of the above findings, a conceptual mitochondrial electron transfer chain is presented. Data are discussed in terms of developmental and environmental regulation of the composition of this chain.
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Affiliation(s)
- C Affourtit
- Department of Biochemistry, University of Sussex, Brighton, UK.
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Gudz T, Eriksson O, Kushnareva Y, Saris NE, Novgorodov S. Effect of butylhydroxytoluene and related compounds on permeability of the inner mitochondrial membrane. Arch Biochem Biophys 1997; 342:143-56. [PMID: 9185623 DOI: 10.1006/abbi.1997.0113] [Citation(s) in RCA: 24] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
Abstract
Mitochondrial inner membrane contains a latent pore (PTP) that when opened uncouples mitochondrial energy transduction and allows rapid equilibration of low-molecular-weight solutes between the matrix and exterior. Based on sensitivity of the PTP to well-known free radical scavenger butylhydroxytoluene (BHT), it has been proposed that increased steady-state level of oxygen radicals, and subsequent radical attack of proteins and lipids, is a central event in activation of this pore (Novgorodov et al., J. Bioenerg. Biomembr. 19, 191-202, 1987; Carbonera and Azzone, Biochim. Biophys. Acta 943, 245-255, 1988). Present studies revealed that DBT, a derivative of BHT devoid of radical scavenging activity, exerts an analogous effect on the permeability of the inner membrane. Inhibition of the Ca2+-induced PTP opening is essentially complete at dose range of 50-60 nmol/mg protein with IC50 values of about 32 and 23 nmol/mg protein for DBT and BHT, respectively. Electron microscopy and osmotic experiments utilizing polyethylene glycols with different Stokes radii showed that the apparent lack of inhibition seen at high concentrations of these compounds results from cyclosporin A- and Ca2+-insensitive pore formation in the inner membrane. Experiments employing antioxidants with similar structure but dissimilar hydrophobicity provided evidence for localization of the antioxidant binding sites within the hydrophobic zone of the inner membrane or in the matrix space. The data obtained do not refute the notion that oxygen radicals modulate the PTP, but rather indicate that BHT operates independently of its free radical scavenging activity. Overall, the sensitivity to BHT and other antioxidants is not always a reliable criterion for the involvement of free radical reactions in the processes under study.
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Affiliation(s)
- T Gudz
- A.N. Belozersky Institute of Physico-Chemical Biology, Moscow State University, Russian Federation
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20
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Rutgers M, Gooch DD, Breure AM, Van Andel JG. Assessment of inhibition kinetics of the growth of strain P5 on pentachlorophenol under steady-state conditions in a nutristat. Arch Microbiol 1996; 165:194-200. [PMID: 8599537 DOI: 10.1007/bf01692861] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/31/2023]
Abstract
A bacterium degrading pentachlorophenol (PCP) as the only source of carbon and energy was grown in a nutristat , i.e., a continuous culture with on-line measurement and control of the substrate concentration. We improved the PCP nutristat by incorporation of a personal computer with a proportional integral derivative (PID) algorithm for controlling the medium feed pump. The controlled value deviated from the average (set-point) value by 1% maximally. In the PCP nutristat (30 degrees C), the steady-state dilution rate, and hence, specific growth rate, showed a maximum value of 0.142 +/- 0.004 h-1 at set-point PCP concentrations between 37 and 168 microM. At PCP concentrations above 168 microM, the steady-state growth rate decreased because of inhibition. The growth yield coefficient was not seriously affected by the PCP concentration, suggesting that uncoupling was not the inhibitory mechanism. It was concluded that the PCP nutristat is very useful for establishing steady-state conditions that maintain growth-inhibitory PCP concentrations and high cell concentrations, conditions for which the chemostat is not suitable.
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Affiliation(s)
- M Rutgers
- Laboratory for Waste Materials and Emissions, National Institute of Public Health and the Environment, P.O. Box 1, 3720 BA Bilthoven, The Netherlands
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21
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Miyoshi H, Saitoh I, Iwamura H. Quantitative analysis of electron transport inhibition of rat-liver mitochondrial cytochrome bc1 complex by nitrophenols. BIOCHIMICA ET BIOPHYSICA ACTA 1993; 1143:23-8. [PMID: 8388723 DOI: 10.1016/0005-2728(93)90211-w] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/30/2023]
Abstract
A series of nitrophenolic electron transport inhibitors (2-sec-butyl-4-nitro-6-substituted phenols and 2-sec-butyl-4-substituted-6-nitrophenols) of rat-liver mitochondrial cytochrome bc1 complex (cyt. bc1 complex) was synthesized. To obtain information on the three-dimensional structure of the ubiquinone redox site of cyt. bc1 complex, the structure-inhibitory activity relationship was examined by regression analysis using physiocochemical substituent parameters. The inhibitory activity increased as the hydrophobicity and the electron-withdrawing ability of the 4- and 6-substituents increased. These results indicated that hydrophobic interaction between the inhibitor molecule and the binding domain should be important and that an anionic form of nitrophenols may be the active form at the binding domain. Hydrogen-bond-acceptable 4-substituents such as methoxy and nitro groups, but not cyano group, were favorable to the inhibitory activity. This result, along with the fact that phenolic OH group was essential for the activity, suggested that nitrophenols occupy the ubiquinone redox site by forming two hydrogen-bond bridges as proposed for natural ubiquinone binding. Although a cyano group is hydrogen-bond-acceptable, hydrogen-bond formation between the 4-cyano group and the binding domain was not suggested. This result and molecular orbital calculation studies on electrostatic potential of the inhibitors suggested that hydrogen-bond donating residue may not be located in the region where the rod-like cyano (C identical to N) bond directs.
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Affiliation(s)
- H Miyoshi
- Department of Agricultural Chemistry, Kyoto University, Japan
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22
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Tokutake N, Miyoshi H, Nakazato H, Iwamura H. Inhibition of electron transport of rat-liver mitochondria by synthesized antimycin A analogs. BIOCHIMICA ET BIOPHYSICA ACTA 1993; 1142:262-8. [PMID: 8481381 DOI: 10.1016/0005-2728(93)90154-8] [Citation(s) in RCA: 21] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/31/2023]
Abstract
A series of antimycin A analogs was synthesized by replacement of a dilactone-ring moiety of natural antimycin A by various alkyl, substituted phenyl, substituted diphenyl ether, or amino acid ester groups. The structure-inhibitory activity relationship was studied with rat-liver mitochondria to identify roles of the dilactone-ring moiety in the inhibitor binding to a Qi reaction center of cytochrome bc1 complex. All derivatives caused further reduction of cytochrome b reduced by succinate and the oxidant-induced reduction, showing that the derivatives inhibited electron transport by interacting with a Qi reaction center. The inhibition tended to increase as the hydrophobicity of the inhibitor increased. The mode of binding of inhibitor molecules to a Qi center, which was reflected in, for example, a sigmoidal titration curve for respiratory inhibition and a time-dependent change in inhibitory activity, varied depending on structure. These results suggested that the role of the dilactone-ring moiety of antimycin A may be not only to support hydrophobic interaction with the binding domain by increasing the hydrophobicity of the molecule, as proposed earlier, but also to regulate close fitting of the salicylic acid moiety to the binding domain.
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Affiliation(s)
- N Tokutake
- Department of Agricultural Chemistry, Kyoto University, Japan
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23
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Barstad AW, Peyton DH, Smejtek P. AHA- heterodimer of a class-2 uncoupler: pentachlorophenol. BIOCHIMICA ET BIOPHYSICA ACTA 1993; 1140:262-70. [PMID: 8417778 DOI: 10.1016/0005-2728(93)90065-n] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/30/2023]
Abstract
AHA- heterodimers formed by association of neutral molecules of weak acid (HA) with its conjugate anion (A-) have been proposed to be the charged membrane-permeable species of class-2 uncouplers. Past attempts to extract and identify AHA- heterodimers failed. We have measured optical spectra of HA+A- (1:1) solutions of pentachlorophenol (PCP) in various solvents and in the presence of PC liposomes. Optical studies were supplemented by nuclear magnetic resonance measurements of HA+A- (1:1) solutions of PCP in dichloroethane to gain insight into the formation of AHA- species in lipid membranes. From these experiments, we found evidence for AHA- formation in non-hydrogen-bonding solvents, then reported the AHA- formation constant Kf and the molar absorptivity epsilon AHA-(lambda). Kf decreases with increasing dielectric constant, kappa, from 1210 +/- 130 M-1 for dichloroethane (kappa 10.7), to 340 +/- 34 M-1 for acetonitrile (kappa 37.5); Kf also decreases with increasing concentration of water. In hydrogen-bonding solvents, octanol (kappa 10.3) and methanol (kappa 33.5) and in liposomes, AHA- heterodimers are not observed optically. We estimate Kf for PCP in lipid bilayers from a combination of data on membrane electrical conductivity and surface density of adsorbed PCP. Our estimate for lipid bilayer, 0.005 < Kf < 0.5 M-1, is consistent with our inability to detect the AHA- species optically in liposome suspensions. We propose that penetration of water into the membrane inhibits formation of AHA- in lipid bilayers.
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Affiliation(s)
- A W Barstad
- Physics Department, Portland State University, OR 97207-0751
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24
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Miyoshi H, Guo ZJ, Fujita TRID, Iwamura HRID. Acidity and Dynamic Structure of the Potent Uncoupler SF6847 (2,6-Di-t-butyl-4-(2,2-dicyanovinyl)phenol) and Its Derivatives. BULLETIN OF THE CHEMICAL SOCIETY OF JAPAN 1993. [DOI: 10.1246/bcsj.66.269] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
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25
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Saitoh I, Miyoshi H, Shimizu R, Iwamura H. Comparison of structure of quinone redox site in the mitochondrial cytochrome-bc1 complex and photosystem II (QB site). EUROPEAN JOURNAL OF BIOCHEMISTRY 1992; 209:73-9. [PMID: 1327783 DOI: 10.1111/j.1432-1033.1992.tb17262.x] [Citation(s) in RCA: 25] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Abstract
A series of nitrophenolic electron-transport inhibitors (2-substituted 4,6-dinitrophenols) of rat liver mitochondrial cytochrome-bc1 complex and of photosystem II (QB site) of spinach thylakoids was synthesized. The structure/inhibitory-activity relationship was examined to elucidate differences in the three-dimensional structure of the quinone redox site in the two systems. These inhibitors occupy the ubiquinone redox site of cytochrome-bc1 complex competitively with natural ubiquinol, probably at a Qo reaction center. The inhibitory activity tended to increase with the length of the 2-substituent, which may correspond to the isoprenoid side chain of ubiquinone and plastoquinone, increased in both experimental systems. However, the strict structural requirements of the 2-substituent for binding to the ubiquinone or plastoquinone redox site were not identical. The alkyl substituents with a branching structure at the alpha-position to the benzene ring were favorable for inhibition of the cytochrome-bc1 complex, but not of photosystem II. Molecular-orbital calculations indicated that the main chain of 2-substituents with an alpha-branching structure was almost perpendicular to the benzene-ring plane because of steric congestion between the alpha-methyl and phenolic OH groups. The main chain of 2-substituents without an alpha-branching structure was flexible. Molecular-orbital studies indicated that ubiquinol was most stable when the portion of the isoprenoid side chain adjacent to the quinol ring was perpendicular to the quinol-ring plane, because of steric congestion by the vicinal OH and methyl groups. The side chain of plastoquinol was flexible because of the lack of a vicinal methyl group. Thus, the difference in the inhibitory activities between the two systems seemed to reflect the difference in the configuration of the isoprenoid side chain of ubiquinone and plastoquinone. These results suggested that the quinone redox site of the cytochrome-bc1 complex may recognize the configuration of the side chain near the quinone ring in the strict sense, whereas that of photosystem II (QB site) may recognize it in a loose sense.
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Affiliation(s)
- I Saitoh
- Department of Agricultural Chemistry, Kyoto University, Japan
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26
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Miyoshi H, Kondo H, Oritani T, Saitoh I, Iwamura H. Inhibition of electron transport of rat liver mitochondria by unnatural (-)-antimycin A3. FEBS Lett 1991; 292:61-3. [PMID: 1959630 DOI: 10.1016/0014-5793(91)80834-p] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
Abstract
The inhibition of electron transport by unnatural (-)-antimycin A3 was examined with rat liver mitochondria and compared with that of natural (+)-antimycin A3. (-)-Antimycin A3 inhibited respiration about 1/100th as strongly as natural (+)-antimycin A3. (-)-Antimycin A3 binding to the cytochrome bc1 complex did not seem to induce a conformational change in this proteinous complex. The binding site of (-)-antimycin A3 was probably the same as that of (+)-antimycin A3 (at the Qi center). However, the mode of interaction with the Qi center by (-)-antimycin A3 and (+)-antimycin A3 was somewhat different.
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Affiliation(s)
- H Miyoshi
- Department of Agricultural Chemistry, Kyoto University, Japan
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27
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Branca D, Roberti MS, Vincenti E, Scutari G. Uncoupling effect of the general anesthetic 2,6-diisopropylphenol in isolated rat liver mitochondria. Arch Biochem Biophys 1991; 290:517-21. [PMID: 1656882 DOI: 10.1016/0003-9861(91)90575-4] [Citation(s) in RCA: 44] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
2,6-Diisopropylphenol, a general anesthetic, was previously reported to reduce the transmembrane electrical potential in isolated rat liver mitochondria without affecting the rate of ATP production. This effect appeared to contrast with the generally accepted chemiosmotic mechanism for oxidative phosphorylation. In this study we further examined the influence of 2,6-diisopropylphenol on the production of ATP by isolated mitochondria and we studied its effect on the permeability of the inner mitochondrial membrane to protons. In order to clarify the effects of 2,6-diisopropylphenol on mitochondrial ATP production the activities of the adenine nucleotide translocator and the ATP synthetase were evaluated. The results obtained indicate that the depression of the transmembrane electrical potential elicited by 2,6-diisopropylphenol decreased the activity of the ATP synthetase (as expected in the chemiosmotic model for energy coupling), but not that of the adenine nucleotide translocator. The decrease of the ATP synthetase activity, however, did not result in an apparent inhibition of the overall rate of ATP production in isolated mitochondria due to the rate-limiting effect of the adenine nucleotide translocator in this process. Moreover 2,6-diisopropylphenol was found to increase the permeability to protons of the inner mitochondrial membrane; this effect became more marked as the pH of the incubation medium was increased, demonstrating that it involved the dissociated form of 2,6-diisopropylphenol. These observations suggested that 2,6-diisopropylphenol affected oxidative phosphorylation by acting as a mild protonophore and that its effectiveness was limited by the low fraction of phenol dissociated at near-physiological pH.
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Affiliation(s)
- D Branca
- Dipartimento di Chimica Biologica, Università di Padova, Italy
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28
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Quantitative analysis with physicochemical substituent and molecular parameters of uncoupling activity of substituted diarylamines. BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS 1991. [DOI: 10.1016/s0005-2728(05)80190-2] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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29
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Branca D, Roberti MS, Lorenzin P, Vincenti E, Scutari G. Influence of the anesthetic 2,6-diisopropylphenol on the oxidative phosphorylation of isolated rat liver mitochondria. Biochem Pharmacol 1991; 42:87-90. [PMID: 2069600 DOI: 10.1016/0006-2952(91)90684-w] [Citation(s) in RCA: 56] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Abstract
Isolated rat liver mitochondria have been incubated in the presence of the general anesthetic 2,6-diisopropylphenol (0-100 microM) and the efficiency of oxidative phosphorylation has been evaluated by measuring the respiratory rates, the rates of ATP synthesis or hydrolysis and the magnitude of the transmembrane electrical potential. The results obtained indicate that: (a) in mitochondria energized either by succinate or by ATP, 2,6-diisopropylphenol decreased the transmembrane electrical potential and increased the rates of either electron transfer or ATP hydrolysis; (b) in succinate-energized mitochondria 2,6-diisopropylphenol, at concentrations causing substantial depression of the transmembrane electrical potential, did not modify either the rate of phosphorylation of added ADP or the rate of ADP-stimulated respiration: (c) in succinate-energized mitochondria 2,6-diisopropylphenol caused a concentration-dependent inhibition of the uncoupler-stimulated rate of succinate oxidation. These findings suggest that under the experimental conditions reported 2,6-diisopropylphenol affected the generation and/or maintenance of the transmembrane electrical potential while leaving unchanged the coupling between the electron flow in the respiratory chain and the synthesis of ATP.
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Affiliation(s)
- D Branca
- Department of Biological Chemistry, University of Padova, Italy
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30
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Tokutake N, Miyoshi H, Fujita T. Electron transport inhibition of the cytochrome bc1 complex of rat-liver mitochondria by phenolic uncouplers. BIOCHIMICA ET BIOPHYSICA ACTA 1991; 1057:377-83. [PMID: 1851439 DOI: 10.1016/s0005-2728(05)80151-3] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
Abstract
The respiration inhibition of rat-liver mitochondria by a series of substituted phenolic uncouplers was studied. The inhibitory effects were classified into three types, I-III, depending on the pattern of the changes in inhibitory potency observed when the potent uncoupler SF6847 was simultaneously applied. The extent of inhibition by type I phenols did not change as the transmembrane potential was dissipated by SF6847, but the extent of inhibition by type II and III phenols was decreased and increased, respectively. With the addition of another potent uncoupler, fluazinam, the uncoupling activity of which disappears with time, the inhibitory potency of type II phenols was decreased, but increased reversibly with the disappearance of the uncoupling effect of fluazinam. However, the inhibitory potency of type III phenols increased by fluazinam was not reduced. The inhibitory site of the phenols studied here was the cytochrome bc1 complex. This complex undergoes conformational changes when the transmembrane potential changes. The findings suggested that inhibition by substituted phenolic uncouplers depends partially on conformational changes of the cytochrome bc1 complex that accompany variations in the transmembrane potential.
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Affiliation(s)
- N Tokutake
- Department of Agricultural Chemistry, Kyoto University, Japan
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