Resorufin derivatives for treatment of oxidative stress disorders

Abstract

Disclosed herein are resorufin derivative compounds and methods of using such compounds for treating or suppressing oxidative stress disorders, including mitochondrial disorders, impaired energy processing disorders, neurodegenerative diseases and diseases of aging. ##STR00001##

Claims

1. A compound of formula (I): ##STR00194## wherein: R.sub.1 and R.sub.2 are independently selected from the group consisting of: C.sub.1-C.sub.4 alkyl, OC.sub.1-C.sub.4 alkyl, and C.sub.1-C.sub.4 haloalkyl, and R.sub.3 is selected from the group consisting of: C.sub.1-C.sub.12 alkyl, and C.sub.1-C.sub.12 haloalkyl; or R.sub.1 and R.sub.2 are both CH.sub.3 or R.sub.1 and R.sub.2 are both OCH.sub.3, and R.sub.3 is selected from the group consisting of: ##STR00195## n is 0, 1, 2, 3, or 4; R.sub.4, R.sub.5, R.sub.6, and R.sub.7 are independently selected from the group consisting of: C.sub.1-C.sub.12 haloalkyl, C(O)N(R.sub.13)(R.sub.14), C.sub.1-C.sub.12 alkyl, H, OH, C.sub.2-C.sub.12 alkenyl, OC.sub.1-C.sub.12 alkyl, OC(O)C.sub.1-C.sub.12 alkyl, OC.sub.1-C.sub.12 haloalkyl, C.sub.6-C.sub.10 aryl, OC.sub.6-C.sub.10 aryl, C.sub.1-C.sub.6 alkyl-C.sub.6-C.sub.10 aryl, OC.sub.1-C.sub.6 alkyl-C.sub.6-C.sub.10 aryl, N(R.sub.8)(R.sub.9), C(O)OC.sub.1-C.sub.12 alkyl, S(O).sub.2C.sub.1-C.sub.12 alkyl, ##STR00196## with the proviso that at least two of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 are independently selected from the group consisting of: H and CH.sub.3; R.sub.8 and R.sub.9 are independently C.sub.1-C.sub.12 alkyl; R.sub.13 is H or C.sub.1-C.sub.4 alkyl; R.sub.14 is C.sub.1-C.sub.12 alkyl optionally substituted with hydroxy, OC.sub.1-C.sub.4, heterocyclyl, aryl, or heteroaryl, or wherein R.sub.14 is C.sub.1-C.sub.15 alkyl wherein two or more of the carbons in the alkyl group have been replaced by oxygen; and m is 0, 1, 2, or 3; or a stereoisomer, mixture of stereoisomers, solvate, hydrate, or pharmaceutically acceptable salt thereof.

2. The compound of claim 1, wherein R.sub.1, R.sub.2, and R.sub.3 are CH.sub.3.

3. The compound of claim 1, wherein R.sub.1 and R.sub.2 are OCH.sub.3, and R.sub.3 is CH.sub.3.

4. The compound of claim 1, wherein R.sub.1 and R.sub.2 are CH.sub.3, and wherein R.sub.3 is -n-C.sub.1-C.sub.12 alkyl.

5. The compound of claim 1, wherein R.sub.1 and R.sub.2 are OCH.sub.3, and wherein R.sub.3 is -n-C.sub.1-C.sub.12 alkyl.

6. The compound of claim 1, wherein R.sub.1 and R.sub.2 are CH.sub.3, and wherein R.sub.3 is selected from the group consisting of: ##STR00197##

7. The compound of claim 1, wherein R.sub.1 and R.sub.2 are OCH.sub.3, and wherein R.sub.3 is selected from the group consisting of: ##STR00198##

8. The compound of claim 1, wherein three of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 are H.

9. The compound claim 1, wherein at least one of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 is C.sub.1-C.sub.12 haloalkyl.

10. The compound of claim 1, wherein at least one of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 is C(O)N(R.sub.13)(R.sub.14).

11. The compound of claim 1, wherein at least one of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 is C.sub.1-C.sub.12 alkyl.

12. The compound of claim 1, wherein at least one of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 is independently selected from the group consisting of: C.sub.1-C.sub.6 alkyl, OC.sub.1-C.sub.6 alkyl, N(R.sub.8)(R.sub.9), CF.sub.3, O-benzyl, and ##STR00199## wherein m is 1 or 2; wherein R.sub.8 and R.sub.9 are independently C.sub.1-C.sub.4 alkyl.

13. The compound of claim 1, wherein the compound is selected from the group consisting of: ##STR00200## ##STR00201## or a solvate, hydrate, or pharmaceutically acceptable salt thereof.

14. A pharmaceutical formulation comprising a compound according to claim 1 and a pharmaceutically acceptable excipient.

15. A method of treating or suppressing an oxidative stress disorder selected from the group consisting of: a mitochondrial disorder; an inherited mitochondrial disease; Alpers Disease; Barth syndrome; a Beta-oxidation Defect; Carnitine-Acyl-Carnitine Deficiency; Carnitine Deficiency; a Creatine Deficiency Syndrome; Co-Enzyme Q10 Deficiency; Complex I Deficiency; Complex II Deficiency; Complex III Deficiency; Complex IV Deficiency; Complex V Deficiency; COX Deficiency; chronic progressive external ophthalmoplegia (CPEO); CPT I Deficiency; CPT II Deficiency; Friedreich's Ataxia (FA); Glutaric Aciduria Type II; KearnsSayre Syndrome (KSS); Lactic Acidosis; Long-Chain Acyl-CoA Dehydrogenase Deficiency (LCAD); LCHAD; Leigh Syndrome; Leigh-like Syndrome; Leber's Hereditary Optic Neuropathy (LHON); Lethal Infantile Cardiomyopathy (LIC); Luft Disease; Multiple Acyl-CoA Dehydrogenase Deficiency (MAD); Medium-Chain Acyl-CoA Dehydrogenase Deficiency (MCAD); Mitochondrial Myopathy, Encephalopathy, Lactacidosis, Stroke (MELAS); Myoclonic Epilepsy with Ragged Red Fibers (MERRF); Mitochondrial Recessive Ataxia Syndrome (MIRAS); Mitochondrial Cytopathy, Mitochondrial DNA Depletion; Mitochondrial Encephalopathy; Mitochondrial Myopathy; Myoneurogastrointestinal Disorder and Encephalopathy (MNGIE); Neuropathy, Ataxia, and Retinitis Pigmentosa (NARP); Pearson Syndrome; Pyruvate Carboxylase Deficiency; Pyruvate Dehydrogenase Deficiency; a POLG Mutation; a Respiratory Chain Disorder; Short-Chain Acyl-CoA Dehydrogenase Deficiency (SCAD); SCHAD; Very Long-Chain Acyl-CoA Dehydrogenase Deficiency (VLCAD); a myopathy; cardiomyopathy; encephalomyopathy; Parkinson's disease; amyotrophic lateral sclerosis (ALS); a motor neuron disease; epilepsy; macular degeneration; metabolic syndrome; brain cancer; Huntington's Disease; a mood disorder; schizophrenia; bipolar disorder; a pervasive developmental disorder; autistic disorder; Asperger's syndrome; childhood disintegrative disorder (CDD); Rett's disorder; PDD-not otherwise specified (PDD-NOS); a cerebrovascular accident; stroke; a vision impairment; optic neuropathy; dominant inherited juvenile optic atrophy; optic neuropathy caused by a toxic agent; glaucoma; Stargardt's macular dystrophy; diabetic retinopathy; diabetic maculopathy; retinopathy of prematurity; ischemic reperfusion-related retinal injury; oxygen poisoning; a haemoglobinopathy; thalassemia; sickle cell anemia; seizures; ischemia; renal tubular acidosis; attention deficit/hyperactivity disorder (ADHD); a neurodegenerative disorder resulting in hearing or balance impairment; Dominant Optic Atrophy (DOA); Maternally inherited diabetes and deafness (MIDD); chronic fatigue; contrast-induced kidney damage; contrast-induced retinopathy damage; Abetalipoproteinemia; retinitis pigmentosum; Wolfram's disease; Tourette syndrome; cobalamin c defect; methylmalonic aciduria; glioblastoma; Down's syndrome; acute tubular necrosis; a muscular dystrophy; a leukodystrophy; Progressive Supranuclear Palsy; spinal muscular atrophy; hearing loss; noise induced hearing loss; traumatic brain injury; Juvenile Huntington's Disease; Multiple Sclerosis; NGLY1; Multisystem atrophy; Adrenoleukodystrophy; and Adrenomyeloneuropathy; comprising administering to a subject in need thereof a therapeutically effective amount of a compound of formula (I): ##STR00202## wherein: R.sub.1 and R.sub.2 are independently selected from the group consisting of: C.sub.1-C.sub.4 alkyl, OC.sub.1-C.sub.4 alkyl, H, and C .sub.1-C.sub.4 haloalkyl, and R.sub.3 is selected from the group consisting of: C.sub.1-C.sub.12 alkyl, H, OC.sub.1-C.sub.12 alkyl, and C.sub.1-C.sub.12 haloalkyl; or R.sub.1 and R.sub.2 are both CH.sub.3 or R.sub.1 and R.sub.2 are both OCH.sub.3, and R.sub.3 is selected from the group consisting of: ##STR00203## n is 0, 1, 2, 3, or 4; R.sub.4, R.sub.5, R.sub.6, and R.sub.7 are independently selected from the group consisting of: C.sub.1-C.sub.12 haloalkyl, C(O)N(R.sub.13)(R.sub.14), C.sub.1-C.sub.12 alkyl, H, OH, C.sub.2-C.sub.12 alkenyl, OC.sub.1-C.sub.12 alkyl, OC(O)C.sub.1-C.sub.12 alkyl, OC.sub.1-C.sub.12 haloalkyl, C.sub.6-C.sub.10 aryl, OC.sub.6-C.sub.10 aryl, C.sub.1-C.sub.6 alkyl-C.sub.6-C.sub.10 aryl, OC.sub.1-C.sub.6 alkyl-C.sub.6-C.sub.10 aryl, N(R.sub.8)(R.sub.9), C(O)OC.sub.1-C.sub.12 alkyl, S(O).sub.2-C.sub.1-C.sub.12 alkyl, ##STR00204## with the proviso that at least two of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 are independently selected from the group consisting of: H and CH.sub.3; R.sub.8 and R.sub.9 are independently H or C.sub.1-C.sub.12 alkyl; R.sub.13 is H or C.sub.1-C.sub.4 alkyl; R.sub.14 is C.sub.1-C.sub.12 alkyl optionally substituted with hydroxy, OC.sub.1-C.sub.4, heterocyclyl, aryl, or heteroaryl, or wherein R.sub.14 is C.sub.1-C.sub.15 alkyl wherein two or more of the carbons in the alkyl group have been replaced by oxygen; and m is 0, 1, 2, or 3; or a stereoisomer, mixture of stereoisomers, solvate, hydrate, or pharmaceutically acceptable salt thereof.

16. The method of claim 15, wherein: R.sub.1 and R.sub.2 are independently selected from the group consisting of: C.sub.1-C.sub.4 alkyl, OC.sub.1-C.sub.4 alkyl, and C.sub.1-C.sub.4 haloalkyl, and R.sub.3 is selected from the group consisting of: C.sub.1-C.sub.12 alkyl, and C.sub.1-C.sub.12 haloalkyl; or R.sub.1 and R.sub.2 are both CH.sub.3 or R.sub.1 and R.sub.2 are both OCH.sub.3, and R.sub.3 is selected from the group consisting of: ##STR00205## n is 0, 1, 2, 3, or 4; R.sub.4, R.sub.5, R.sub.6, and R.sub.7 are independently selected from the group consisting of: C.sub.1-C.sub.12 haloalkyl, C(O)N(R.sub.13)(R.sub.14), C.sub.1-C.sub.12 alkyl, H, OH, C.sub.2-C.sub.12 alkenyl, OC.sub.1-C.sub.12 alkyl, OC(O)C.sub.1-C.sub.12 alkyl, OC.sub.1-C.sub.12 haloalkyl, C.sub.6-C.sub.10 aryl, OC.sub.6-C.sub.10 aryl, C.sub.1-C.sub.6 alkyl-C.sub.6-C.sub.10 aryl, OC.sub.1-C.sub.6 alkyl-C.sub.6-C.sub.10 aryl, N(R.sub.8)(R.sub.9), C(O)OC.sub.1-C.sub.12 alkyl, S(O).sub.2-C.sub.1-C.sub.12 alkyl, ##STR00206## with the proviso that at least two of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 are independently selected from the group consisting of: H and CH.sub.3; R.sub.8 and R.sub.9 are independently C.sub.1-C.sub.12 alkyl; R.sub.13 is H or C.sub.1-C.sub.4 alkyl; R.sub.14 is C.sub.1-C.sub.12 alkyl optionally substituted with hydroxy, OC.sub.1-C.sub.4, heterocyclyl, aryl, or heteroaryl, or wherein R.sub.14 is C.sub.1-C.sub.15 alkyl wherein two or more of the carbons in the alkyl group have been replaced by oxygen; and m is 0, 1, 2, or 3.

17. The method of claim 15, wherein R.sub.1, R.sub.2, and R.sub.3 are CH.sub.3.

18. The method of claim 15, wherein R.sub.1 and R.sub.2 are OCH.sub.3, and R.sub.3 is CH.sub.3.

19. The method of claim 15, wherein three of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 are H.

20. The method of claim 15, wherein at least one of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 is independently selected from the group consisting of: C.sub.1-C.sub.6 alkyl, OC.sub.1-C.sub.6 alkyl, N(R.sub.8)(R.sub.9), CF.sub.3, O-benzyl, and ##STR00207## wherein m is 1 or 2; wherein R.sub.8 and R.sub.9 are independently C.sub.1-C.sub.4 alkyl.

Description

DETAILED DESCRIPTION

(1) The invention embraces compounds useful in treating or suppressing diseases, developmental delays and symptoms related to oxidative stress such as mitochondrial disorders, impaired energy processing disorders, neurodegenerative diseases and diseases of aging, and methods of using such compounds for treating or suppressing an oxidative stress disorder, or for modulating, normalizing, or enhancing one or more (e.g. one, two, three, or more) energy biomarkers.

(2) The abbreviations used herein have their conventional meaning within the chemical and biological arts, unless otherwise specified.

(3) Reference to about a value or parameter herein includes (and describes) variations that are directed to that value or parameter per se. For example, description referring to about X includes description of X.

(4) The terms a or an, as used in herein means one or more, unless context clearly dictates otherwise.

(5) By subject, individual, or patient is meant an individual organism, preferably a vertebrate, more preferably a mammal, most preferably a human.

(6) Treating a disorder with the compounds and methods discussed herein is defined as administering one or more of the compounds discussed herein, with or without additional therapeutic agents, in order to reduce or eliminate either the disorder or one or more symptoms of the disorder, or to retard the progression of the disorder or of one or more symptoms of the disorder, or to reduce the severity of the disorder or of one or more symptoms of the disorder. Suppression of a disorder with the compounds and methods discussed herein is defined as administering one or more of the compounds discussed herein, with or without additional therapeutic agents, in order to suppress the clinical manifestation of the disorder, or to suppress the manifestation of adverse symptoms of the disorder. The distinction between treatment and suppression is that treatment occurs after adverse symptoms of the disorder are manifest in a subject, while suppression occurs before adverse symptoms of the disorder are manifest in a subject. Suppression may be partial, substantially total, or total. Because some of the disorders are inherited, genetic screening can be used to identify patients at risk of the disorder. The compounds and methods of the invention can then be administered to asymptomatic patients at risk of developing the clinical symptoms of the disorder, in order to suppress the appearance of any adverse symptoms.

(7) Therapeutic use of the compounds discussed herein is defined as using one or more of the compounds discussed herein to treat or suppress a disorder, as defined above. An effective amount of a compound is an amount of the compound sufficient to modulate, normalize, or enhance one or more energy biomarkers (where modulation, normalization, and enhancement are defined below). A therapeutically effective amount of a compound is an amount of the compound, which, when administered to a subject, is sufficient to reduce or eliminate either a disorder or one or more symptoms of a disorder, or to retard the progression of a disorder or of one or more symptoms of a disorder, or to reduce the severity of a disorder or of one or more symptoms of a disorder, or to suppress the clinical manifestation of a disorder, or to suppress the manifestation of adverse symptoms of a disorder. A therapeutically effective amount can be given in one or more administrations. An effective amount of a compound embraces both a therapeutically effective amount, as well as an amount effective to modulate, normalize, or enhance one or more energy biomarkers in a subject.

(8) Modulation of, or to modulate, an energy biomarker means to change the level of the energy biomarker towards a desired value, or to change the level of the energy biomarker in a desired direction (e.g., increase or decrease). Modulation can include, but is not limited to, normalization and enhancement as defined below.

(9) Normalization of, or to normalize, an energy biomarker is defined as changing the level of the energy biomarker from a pathological value towards a normal value, where the normal value of the energy biomarker can be 1) the level of the energy biomarker in a healthy person or subject, or 2) a level of the energy biomarker that alleviates one or more undesirable symptoms in the person or subject. That is, to normalize an energy biomarker which is depressed in a disease state means to increase the level of the energy biomarker towards the normal (healthy) value or towards a value which alleviates an undesirable symptom; to normalize an energy biomarker which is elevated in a disease state means to decrease the level of the energy biomarker towards the normal (healthy) value or towards a value which alleviates an undesirable symptom.

(10) Enhancement of, or to enhance, energy biomarkers means to intentionally change the level of one or more energy biomarkers away from either the normal value, or the value before enhancement, in order to achieve a beneficial or desired effect. For example, in a situation where significant energy demands are placed on a subject, it may be desirable to increase the level of ATP in that subject to a level above the normal level of ATP in that subject. Enhancement can also be of beneficial effect in a subject suffering from a disease or pathology such as e.g. a mitochondrial disorder, in that normalizing an energy biomarker may not achieve the optimum outcome for the subject; in such cases, enhancement of one or more energy biomarkers can be beneficial, for example, higher-than-normal levels of ATP, or lower-than-normal levels of lactic acid (lactate) can be beneficial to such a subject.

(11) By modulating, normalizing, or enhancing the energy biomarker Coenzyme Q is meant modulating, normalizing, or enhancing the variant or variants of Coenzyme Q which is predominant in the species of interest. For example, the variant of Coenzyme Q which predominates in humans is Coenzyme Q10. If a species or subject has more than one variant of Coenzyme Q present in significant amounts (i.e., present in amounts which, when modulated, normalized, or enhanced, can have a beneficial effect on the species or subject), modulating, normalizing, or enhancing Coenzyme Q can refer to modulating, normalizing or enhancing any or all variants of Coenzyme Q present in the species or subject.

(12) While the compounds described herein can occur and can be used as the neutral (non-salt) compound, the description is intended to embrace all salts of the compounds described herein, as well as methods of using such salts of the compounds. In one embodiment, the salts of the compounds comprise pharmaceutically acceptable salts. Pharmaceutically acceptable salts are those salts which can be administered as drugs or pharmaceuticals to humans and/or animals and which, upon administration, retain at least some of the biological activity of the free compound (neutral compound or non-salt compound). The desired salt of a basic compound may be prepared by methods known to those of skill in the art by treating the compound with an acid. Examples of inorganic acids include, but are not limited to, hydrochloric acid, hydrobromic acid, sulfuric acid, nitric acid, and phosphoric acid. Examples of organic acids include, but are not limited to, formic acid, acetic acid, propionic acid, glycolic acid, pyruvic acid, oxalic acid, maleic acid, malonic acid, succinic acid, fumaric acid, tartaric acid, citric acid, benzoic acid, cinnamic acid, mandelic acid, sulfonic acids, and salicylic acid. Salts of basic compounds with amino acids, such as aspartate salts and glutamate salts, can also be prepared. The desired salt of an acidic compound can be prepared by methods known to those of skill in the art by treating the compound with a base. Examples of inorganic salts of acid compounds include, but are not limited to, alkali metal and alkaline earth salts, such as sodium salts, potassium salts, magnesium salts, and calcium salts; ammonium salts; and aluminum salts. Examples of organic salts of acid compounds include, but are not limited to, procaine, dibenzylamine, N-ethylpiperidine, N,N-dibenzylethylenediamine, and triethylamine salts. Salts of acidic compounds with amino acids, such as lysine salts, can also be prepared.

(13) The invention also includes, if chemically possible, all stereoisomers of the compounds, including diastereomers and enantiomers. The invention also includes mixtures of possible stereoisomers in any ratio, including, but not limited to, racemic mixtures. Unless stereochemistry is explicitly indicated in a structure, the structure is intended to embrace all possible stereoisomers of the compound depicted. If stereochemistry is explicitly indicated for one portion or portions of a molecule, but not for another portion or portions of a molecule, the structure is intended to embrace all possible stereoisomers for the portion or portions where stereochemistry is not explicitly indicated.

(14) The compounds can be administered in prodrug form. Prodrugs are derivatives of the compounds, which are themselves relatively inactive but which convert into the active compound when introduced into the subject in which they are used by a chemical or biological process in vivo, such as an enzymatic conversion. Suitable prodrug formulations include, but are not limited to, peptide conjugates of the compounds of the invention and esters of compounds of the inventions. Further discussion of suitable prodrugs is provided in H. Bundgaard, Design of Prodrugs, New York: Elsevier, 1985; in R. Silverman, The Organic Chemistry of Drug Design and Drug Action, Boston: Elsevier, 2004; in R. L. Juliano (ed.), Biological Approaches to the Controlled Delivery of Drugs (Annals of the New York Academy of Sciences, v. 507), New York: New York Academy of Sciences, 1987; and in E. B. Roche (ed.), Design of Biopharmaceutical Properties Through Prodrugs and Analogs (Symposium sponsored by Medicinal Chemistry Section, APhA Academy of Pharmaceutical Sciences, November 1976 national meeting, Orlando, Fla.), Washington: The Academy, 1977.

(15) The description of compounds herein also includes all isotopologues, for example, partially deuterated or perdeuterated analogs of all compounds herein.

(16) Metabolites of the compounds are also embraced by the invention.

(17) (C.sub.1-C.sub.4) alkyl is intended to embrace a saturated linear, branched, or cyclic hydrocarbon, or any combination thereof, of 1 to 4 carbon atoms. Non-limiting examples of (C.sub.1-C.sub.4) alkyl include methyl, ethyl, n-propyl, isopropyl, cyclopropyl, n-butyl, isobutyl, sec-butyl, t-butyl, cyclobutyl, cyclopropyl-methyl, and methyl-cyclopropyl. The point of attachment of the (C.sub.1-C.sub.4) alkyl group to the remainder of the molecule can be at any chemically possible location on the (C.sub.1-C.sub.4) alkyl group.

(18) (C.sub.1-C.sub.12) alkyl is intended to embrace a saturated linear, branched, or cyclic hydrocarbon, or any combination thereof, of 1 to 12 carbon atoms. Non-limiting examples of (C.sub.1-C.sub.12) alkyl include methyl, ethyl, n-propyl, isopropyl, cyclopropyl, n-butyl, isobutyl, sec-butyl, t-butyl, cyclobutyl, cyclopropyl-methyl, methyl-cyclopropyl, pentyl, cyclopentyl, hexyl, cyclohexyl, heptyl, octyl, nonyl, decyl, undecyl, and dodecyl. The point of attachment of the (C.sub.1-C.sub.12) alkyl group to the remainder of the molecule can be at any chemically possible location on the (C.sub.1-C.sub.12) alkyl group.

(19) (C.sub.2-C.sub.12)-alkenyl is intended to embrace an unsaturated linear, branched, or cyclic group, or any combination thereof, having 2 to 12 carbon atoms. All double bonds may be independently either (E) or (Z) geometry, as well as arbitrary mixtures thereof. Examples of alkenyl groups include, but are not limited to CH2-CHCHCH3; and CH2-CH2-cyclohexenyl, where the ethyl group can be attached to the cyclohexenyl moiety at any available carbon valence.

(20) (C.sub.2-C.sub.12)-alkynyl is intended to embrace an unsaturated linear, branched, or cyclic group, or any combination thereof, having 2 to 12 carbon atoms, which contain at least one triple bond.

(21) Halogen or halo designates fluoro, chloro, bromo, and iodo.

(22) (C.sub.1-C.sub.4) haloalkyl is intended to embrace any C.sub.1-C.sub.4 alkyl substituent having at least one halogen substituent; the halogen can be attached via any valence on the C.sub.1-C.sub.4 alkyl group. Some examples of C.sub.1-C.sub.4 haloalkyl are CF.sub.3, CCl.sub.3, CHF.sub.2, CHCl.sub.2, CHBr.sub.2, CH.sub.2F, CH.sub.2Cl, or CF.sub.2CF.sub.3.

(23) (C.sub.1-C.sub.12) haloalkyl is intended to embrace any C.sub.1-C.sub.12 alkyl substituent having at least one halogen substituent; the halogen can be attached via any valence on the C.sub.1-C.sub.12 alkyl group. Some examples of C.sub.1-C.sub.12 haloalkyl are CF.sub.3, CCl.sub.3, CHF.sub.2, CHCl.sub.2, CHBr.sub.2, CH.sub.2F, CH.sub.2Cl, or CF.sub.2CF.sub.3.

(24) The term aryl is intended to embrace an aromatic cyclic hydrocarbon group of from 6 to 10 carbon atoms having a single ring (e.g., phenyl) or multiple condensed (fused) rings (e.g., naphthyl).

(25) By respiratory chain disorder is meant a disorder which results in the decreased utilization of oxygen by a mitochondrion, cell, tissue, or individual, due to a defect or disorder in a protein or other component contained in the mitochondrial respiratory chain. By protein or other component contained in the mitochondrial respiratory chain is meant the components (including, but not limited to, proteins, tetrapyrroles, and cytochromes) comprising mitochondrial complex I, II, III, IV, and/or V. Respiratory chain protein refers to the protein components of those complexes, and respiratory chain protein disorder is meant a disorder which results in the decreased utilization of oxygen by a mitochondrion, cell, tissue, or individual, due to a defect or disorder in a protein contained in the mitochondrial respiratory chain.

(26) The terms Parkinson's, (also called Parkinsonism and Parkinsonian syndrome) (PD) is intended to include not only Parkinson's disease but also drug-induced Parkinsonism and post-encephalitic Parkinsonism. Parkinson's disease is also known as paralysis agitans or shaking palsy. It is characterized by tremor, muscular rigidity and loss of postural reflexes. The disease usually progresses slowly with intervals of 10 to 20 years elapsing before the symptoms cause incapacity. Due to their mimicry of effects of Parkinson's disease, treatment of animals with methamphetamine or MPTP has been used to generate models for Parkinson's disease. These animal models have been used to evaluate the efficacy of various therapies for Parkinson's disease.

(27) The term Friedreich's ataxia is intended to embrace other related ataxias, and is also sometimes referred to as hereditary ataxia, familial ataxia, or Friedreich's tabes.

(28) The term ataxia is an aspecific clinical manifestation implying dysfunction of parts of the nervous system that coordinate movement, such as the cerebellum. People with ataxia have problems with coordination because parts of the nervous system that control movement and balance are affected. Ataxia may affect the fingers, hands, arms, legs, body, speech, and eye movements. The word ataxia is often used to describe a symptom of incoordination which can be associated with infections, injuries, other diseases, or degenerative changes in the central nervous system. Ataxia is also used to denote a group of specific degenerative diseases of the nervous system called the hereditary and sporadic ataxias. Ataxias are also often associated with hearing impairments.

(29) There are three types of ataxia, cerebellar ataxia, including vestibulo-cerebellar dysfunction, spino-cerebellar dysfunction, and cerebro-cerebellar dysfunction; sensory ataxia; and vestibular ataxia. Examples of the diseases which are classifiable into spino-cerebellar ataxia or multiple system atrophy are hereditary olivo-ponto-cerebellar atrophy, hereditary cerebellar cortical atrophy, Friedreich's ataxia, Machado-Joseph diseases, Ramsay Hunt syndrome, hereditary dentatorubral-pallidoluysian atrophy, hereditary spastic paraplegia, Shy-Drager syndrome, cortical cerebellar atrophy, striato-nigral degeneration, Marinesco-Sjogren syndrome, alcoholic cortical cerebellar atrophy, paraneoplastic cerebellar atrophy associated with malignant tumor, toxic cerebellar atrophy caused by toxic substances, Vitamin E deficiency due to mutation of a Tocopherol transfer protein (aTTP) or lipid absorption disorder such as Abetalipoproteinemia, cerebellar atrophy associated with endocrine disturbance and the like.

(30) Examples of ataxia symptoms are motor ataxia, trunk ataxia, limb ataxia and the like, autonomic disturbance such as orthostatic hypotension, dysuria, hypohidrosis, sleep apnea, orthostatic syncope and the like, stiffness of lower extremity, ocular nystagmus, oculomotor nerve disorder, pyramidal tract dysfunction, extrapyramidal symptoms (postural adjustment dysfunction, muscular rigidity, akinesia, tremors), dysphagia, lingual atrophy, posterior funiculus symptom, muscle atrophy, muscle weakness, deep hyperreflexia, sensory disturbance, scoliosis, kyphoscoliosis, foot deformities, anarthria, dementia, manic state, decreased motivation for rehabilitation and the like.

(31) Diseases Amenable to Treatment or Suppression with Compounds and Methods of the Invention

(32) A variety of disorders/diseases are believed to be caused or aggravated by oxidative stress affecting normal electron flow in the cells, such as mitochondrial disorders, impaired energy processing disorders, neurodegenerative diseases and diseases of aging, and can be treated or suppressed using the compounds and methods of the invention.

(33) Non-limiting examples of oxidative stress disorders include, for example, mitochondrial disorders (including inherited mitochondrial diseases) such as Alpers Disease, Barth syndrome, Beta-oxidation Defects, Carnitine-Acyl-Carnitine Deficiency, Carnitine Deficiency, Creatine Deficiency Syndromes, Co-Enzyme Q10 Deficiency, Complex I Deficiency, Complex II Deficiency, Complex III Deficiency, Complex IV Deficiency, Complex V Deficiency, COX Deficiency, chronic progressive external ophthalmoplegia (CPEO), CPT I Deficiency, CPT II Deficiency, Friedreich's Ataxia (FA), Glutaric Aciduria Type II, Kearns-Sayre Syndrome (KSS), Lactic Acidosis, Long-Chain Acyl-CoA Dehydrongenase Deficiency (LCAD), LCHAD, Leigh Disease or Syndrome, Leigh-like Syndrome, Leber's Hereditary Optic Neuropathy (LHON, also referred to as Leber's Disease, Leber's Optic Atrophy (LOA), or Leber's Optic Neuropathy (LON)), Lethal Infantile Cardiomyopathy (LIC), Luft Disease, Multiple Acyl-CoA Dehydrogenase Deficiency (MAD), Medium-Chain Acyl-CoA Dehydrongenase Deficiency (MCAD), Mitochondrial Myopathy, Encephalopathy, Lactacidosis, Stroke (MELAS), Myoclonic Epilepsy with Ragged Red Fibers (MERRF), Mitochondrial Recessive Ataxia Syndrome (MIRAS), Mitochondrial Cytopathy, Mitochondrial DNA Depletion, Mitochondrial Encephalopathy, Mitochondrial Myopathy, Myoneurogastointestinal Disorder and Encephalopathy (MNGIE), Neuropathy, Ataxia, and Retinitis Pigmentosa (NARP), Pearson Syndrome, Pyruvate Carboxylase Deficiency, Pyruvate Dehydrogenase Deficiency, POLG Mutations, Respiratory Chain Disorder, Short-Chain Acyl-CoA Dehydrogenase Deficiency (SCAD), SCHAD, Very Long-Chain Acyl-CoA Dehydrongenase Deficiency (VLCAD); myopathies such as cardiomyopathy and encephalomyopathy; neurodegenerative diseases such as Parkinson's disease, Alzheimer's disease, and amyotrophic lateral sclerosis (ALS, also known as Lou Gehrig's disease); motor neuron diseases; neurological diseases such as epilepsy; age-associated diseases, particularly diseases for which CoQ10 has been proposed for treatment, such as macular degeneration, diabetes, metabolic syndrome, and cancer (e.g. brain cancer); genetic diseases such as Huntington's Disease (which is also a neurological disease); mood disorders such as schizophrenia and bipolar disorder; pervasive developmental disorders such as autistic disorder, Asperger's syndrome, childhood disintegrative disorder (CDD), Rett's disorder, and PDD-not otherwise specified (PDD-NOS); cerebrovascular accidents such as stroke; vision impairments such as those caused by neurodegenerative diseases of the eye such as optic neuropathy, Leber's hereditary optic neuropathy, dominant inherited juvenile optic atrophy, optic neuropathy caused by toxic agents, glaucoma, age-related macular degeneration (both dry or non-exudative macular degeneration and wet or exudative macular degeneration), Stargardt's macular dystrophy, diabetic retinopathy, diabetic maculopathy, retinopathy of prematurity, or ischemic reperfusion-related retinal injury; disorders caused by energy impairment include diseases due to deprivation, poisoning or toxicity of oxygen, and qualitative or quantitative disruption in the transport of oxygen such as haemoglobionopathies, for example thalassemia or sickle cell anemia; other diseases in which mitochondrial dysfunction is implicated such as excitoxic, neuronal injury, such as that associated with seizures, stroke and ischemia; and other disorders including renal tubular acidosis; attention deficit/hyperactivity disorder (ADHD); neurodegenerative disorders resulting in hearing or balance impairment; Dominant Optic Atrophy (DOA); Maternally inherited diabetes and deafness (MIDD); chronic fatigue; contrast-induced kidney damage; contrast-induced retinopathy damage; Abetalipoproteinemia; retinitis pigmentosum; Wolfram's disease; Tourette syndrome; cobalamin c defect; methylmalonic aciduria; glioblastoma; Down's syndrome; acute tubular necrosis; muscular dystrophies; leukodystrophies; Progressive Supranuclear Palsy; spinal muscular atrophy; hearing loss (e.g. noise induced hearing loss); traumatic brain injury; Juvenile Huntington's Disease; Multiple Sclerosis; NGLY1; Multisystem atrophy; Adrenoleukodystrophy; and Adrenomyeloneuropathy. It is to be understood that certain specific diseases or disorders may fall within more than one category; for example, Huntington's Disease is a genetic disease as well as a neurological disease. Furthermore, certain oxidative stress diseases and disorders may also be considered mitochondrial disorders.

(34) For some disorders amenable to treatment with compounds and methods of the invention, the primary cause of the disorder is due to a defect in the respiratory chain or another defect preventing normal utilization of energy in mitochondria, cells, or tissue(s). Non-limiting examples of disorders falling in this category include inherited mitochondrial diseases, such as Myoclonic Epilepsy with Ragged Red Fibers (MERRF), Mitochondrial Myopathy, Encephalopathy, Lactacidosis, and Stroke (MELAS), Leber's Hereditary Optic Neuropathy (LHON, also referred to as Leber's Disease, Leber's Optic Atrophy (LOA), or Leber's Optic Neuropathy (LON)), Leigh Disease or Leigh Syndrome, Kearns-Sayre Syndrome (KSS), and Friedreich's Ataxia (FA). For some disorders amenable to treatment with compounds and methods of the invention, the primary cause of the disorder is not due to respiratory chain defects or other defects preventing normal utilization of energy in mitochondria, cells, or tissue(s); non-limiting examples of disorders falling in this category include stroke, cancer, and diabetes. However, these latter disorders are particularly aggravated by energy impairments, and are particularly amenable to treatment with compounds of the invention in order to ameliorate the condition. Pertinent examples of such disorders include ischemic stroke and hemorrhagic stroke, where the primary cause of the disorder is due to impaired blood supply to the brain. While an ischemic episode caused by a thrombosis or embolism, or a hemorrhagic episode caused by a ruptured blood vessel, is not primarily caused by a defect in the respiratory chain or another metabolic defect preventing normal utilization of energy, oxidative stress plays a role in the ischemic cascade due to oxygen reperfusion injury following hypoxia (this cascade occurs in heart attacks as well as in strokes). Accordingly, treatment with compounds and methods of the invention will mitigate the effects of the disease, disorder or condition. Modulating one or more energy biomarkers, normalizing one or more energy biomarkers, or enhancing one or more energy biomarkers can also prove beneficial in such disorders both as a therapeutic measure and a prophylactic measure. For example, for a patient scheduled to undergo non-emergency repair of an aneurysm, enhancing energy biomarkers before and during the pre-operative can improve the patient's prognosis should the aneurysm rupture before successful repair.

(35) The term oxidative stress disorder or oxidative stress disease encompass both diseases caused by oxidative stress and diseases aggravated by oxidative stress. The terms oxidative stress disorder or oxidative stress disease encompass both diseases and disorders where the primary cause of the disease is due to a defect in the respiratory chain or another defect preventing normal utilization of energy in mitochondria, cells, or tissue(s), and also diseases and disorders where the primary cause of the disease is not due to a defect in the respiratory chain or another defect preventing normal utilization of energy in mitochondria, cells, or tissue(s). The former set of diseases can be referred to as primary oxidative stress disorders, while the latter can be referred to as secondary oxidative stress disorders. It should be noted that the distinction between diseases caused by oxidative stress and diseases aggravated by oxidative stress is not absolute; a disease may be both a disease caused by oxidative stress and a disease aggravated by oxidative stress. The boundary between primary oxidative stress disorder and a secondary oxidative stress disorder is more distinct, provided that there is only one primary cause of a disease or disorder and that primary cause is known.

(36) Bearing in mind the somewhat fluid boundary between diseases caused by oxidative stress and diseases aggravated by oxidative stress, mitochondrial diseases or disorders and impaired energy processing diseases and disorders tend to fall into the category of diseases caused by oxidative stress, while neurodegenerative disorders and diseases of aging tend to fall into the category of diseases aggravated by oxidative stress. Mitochondrial diseases or disorders and impaired energy processing diseases and disorders are generally primary oxidative stress disorders, while neurodegenerative disorders and diseases of aging may be primary or secondary oxidative stress disorders

(37) Clinical Assessment of Oxidative Stress and Efficacy of Therapy

(38) Several readily measurable clinical markers are used to assess the metabolic state of patients with oxidative stress disorders. These markers can also be used as indicators of the efficacy of a given therapy, as the level of a marker is moved from the pathological value to the healthy value. These clinical markers include, but are not limited to, energy biomarkers such as lactic acid (lactate) levels, either in whole blood, plasma, cerebrospinal fluid, or cerebral ventricular fluid; pyruvic acid (pyruvate) levels, either in whole blood, plasma, cerebrospinal fluid, or cerebral ventricular fluid; lactate/pyruvate ratios, either in whole blood, plasma, cerebrospinal fluid, or cerebral ventricular fluid; total, reduced or oxidized glutathione levels, or reduced/oxidized glutathione ratio either in whole blood, plasma, lymphocytes, cerebrospinal fluid, or cerebral ventricular fluid; total, reduced or oxidized cysteine levels, or reduced/oxidized cysteine ratio either in whole blood, plasma, lymphocytes, cerebrospinal fluid, or cerebral ventricular fluid; phosphocreatine levels, NADH (NADH+H+) or NADPH (NADPH+H+) levels; NAD or NADP levels; ATP levels; anaerobic threshold; reduced coenzyme Q (CoQ.sub.red), levels; oxidized coenzyme Q (CoQ.sub.ox) levels; total coenzyme Q (CoQ.sub.tot) levels; oxidized cytochrome C levels; reduced cytochrome C levels; oxidized cytochrome C/reduced cytochrome C ratio; acetoacetate levels, -hydroxy butyrate levels, acetoacetate/-hydroxy butyrate ratio, 8-hydroxy-2-deoxyguanosine (8-OHdG) levels; levels of reactive oxygen species; and levels of oxygen consumption (VO2), levels of carbon dioxide output (VCO2), and respiratory quotient (VCO2/VO2). Several of these clinical markers are measured routinely in exercise physiology laboratories, and provide convenient assessments of the metabolic state of a subject. In one embodiment of the invention, the level of one or more energy biomarkers in a patient suffering from an oxidative stress disorder, such as Friedreich's ataxia, Leber's hereditary optic neuropathy, MELAS, KSS or CoQ10 deficiency, is improved to within two standard deviations of the average level in a healthy subject. In another embodiment of the invention, the level of one or more of these energy biomarkers in a patient suffering from an oxidative stress disorder, such as Friedreich's ataxia, Leber's hereditary optic neuropathy, MELAS, KSS or CoQ10 deficiency is improved to within one standard deviation of the average level in a healthy subject. Exercise intolerance can also be used as an indicator of the efficacy of a given therapy, where an improvement in exercise tolerance (i.e., a decrease in exercise intolerance) indicates efficacy of a given therapy.

(39) Several metabolic biomarkers have already been used to evaluate efficacy of CoQ10, and these metabolic biomarkers can be monitored as energy biomarkers for use in the methods of the current invention. Lactate, a product of the anaerobic metabolism of glucose, is removed by reduction to pyruvate in an aerobic setting or by oxidative metabolism, which is dependent on a functional mitochondrial respiratory chain. Dysfunction of the respiratory chain may lead to inadequate removal of lactate and pyruvate from the circulation and elevated lactate/pyruvate ratios are observed in mitochondrial cytopathies (see Scriver C R, The metabolic and molecular bases of inherited disease, 7th ed., New York: McGraw-Hill, Health Professions Division, 1995; and Munnich et al., J. Inherit. Metab. Dis. 15(4):448-55 (1992)). Blood lactate/pyruvate ratio (Chariot et al., Arch. Pathol. Lab. Med. 118(7):695-7 (1994)) is, therefore, widely used as a noninvasive test for detection of mitochondrial cytopathies (see again Scriver C R, The metabolic and molecular bases of inherited disease, 7th ed., New York: McGraw-Hill, Health Professions Division, 1995; and Munnich et al., J. Inherit. Metab. Dis. 15(4):448-55 (1992)) and toxic mitochondrial myopathies (Chariot et al., Arthritis Rheum. 37(4):583-6 (1994)). Changes in the redox state of liver mitochondria can be investigated by measuring the arterial ketone body ratio (acetoacetate/3-hydroxybutyrate: AKBR) (Ueda et al., J. Cardiol. 29(2):95-102 (1997)). Urinary excretion of 8-hydroxy-2-deoxyguanosine (8-OHdG) often has been used as a biomarker to assess the extent of repair of ROS-induced DNA damage in both clinical and occupational settings (Erhola et al., FEBS Lett. 409(2):287-91 (1997); Honda et al., Leuk. Res. 24(6):461-8 (2000); Pilger et al., Free Radic. Res. 35(3):273-80 (2001); Kim et al. Environ Health Perspect 112(6):666-71 (2004)).

(40) Magnetic resonance spectroscopy (MRS) has been useful in the diagnoses of mitochondrial cytopathy by demonstrating elevations in cerebrospinal fluid (CSF) and cortical white matter lactate using proton MRS (1H-MRS) (Kaufmann et al., Neurology 62(8):1297-302 (2004)). Phosphorous MRS (31P-MRS) has been used to demonstrate low levels of cortical phosphocreatine (PCr) (Matthews et al., Ann. Neurol. 29(4):435-8 (1991)), and a delay in PCr recovery kinetics following exercise in skeletal muscle (Matthews et al., Ann. Neurol. 29(4):435-8 (1991); Barbiroli et al., J. Neurol. 242(7):472-7 (1995); Fabrizi et al., J. Neurol. Sci. 137(1):20-7 (1996)). A low skeletal muscle PCr has also been confirmed in patients with mitochondrial cytopathy by direct biochemical measurements.

(41) Exercise testing is particularly helpful as an evaluation and screening tool in mitochondrial myopathies. One of the hallmark characteristics of mitochondrial myopathies is a reduction in maximal whole body oxygen consumption (VO2max) (Taivassalo et al., Brain 126(Pt 2):413-23 (2003)). Given that VO2max is determined by cardiac output (Qc) and peripheral oxygen extraction (arterial-venous total oxygen content) difference, some mitochondrial cytopathies affect cardiac function where delivery can be altered; however, most mitochondrial myopathies show a characteristic deficit in peripheral oxygen extraction (A-V O2 difference) and an enhanced oxygen delivery (hyperkinetic circulation) (Taivassalo et al., Brain 126(Pt 2):413-23 (2003)). This can be demonstrated by a lack of exercise induced deoxygenation of venous blood with direct AV balance measurements (Taivassalo et al., Ann. Neurol. 51(1):38-44 (2002)) and non-invasively by near infrared spectroscopy (Lynch et al., Muscle Nerve 25(5):664-73 (2002); van Beekvelt et al., Ann. Neurol. 46(4):667-70 (1999)).

(42) Several of these energy biomarkers are discussed in more detail as follows. It should be emphasized that, while certain energy biomarkers are discussed and enumerated herein, the invention is not limited to modulation, normalization or enhancement of only these enumerated energy biomarkers.

(43) Lactic acid (lactate) levels: Mitochondrial dysfunction typically results in abnormal levels of lactic acid, as pyruvate levels increase and pyruvate is converted to lactate to maintain capacity for glycolysis. Mitochondrial dysfunction can also result in abnormal levels of NADH+H+, NADPH+H+, NAD, or NADP, as the reduced nicotinamide adenine dinucleotides are not efficiently processed by the respiratory chain. Lactate levels can be measured by taking samples of appropriate bodily fluids such as whole blood, plasma, or cerebrospinal fluid. Using magnetic resonance, lactate levels can be measured in virtually any volume of the body desired, such as the brain.

(44) Measurement of cerebral lactic acidosis using magnetic resonance in MELAS patients is described in Kaufmann et al., Neurology 62(8):1297 (2004). Values of the levels of lactic acid in the lateral ventricles of the brain are presented for two mutations resulting in MELAS, A3243G and A8344G. Whole blood, plasma, and cerebrospinal fluid lactate levels can be measured by commercially available equipment such as the YSI 2300 STAT Plus Glucose & Lactate Analyzer (YSI Life Sciences, Ohio).

(45) NAD, NADP, NADH and NADPH levels: Measurement of NAD, NADP, NADH (NADH+H+) or NADPH (NADPH+H+) can be measured by a variety of fluorescent, enzymatic, or electrochemical techniques, e.g., the electrochemical assay described in US 2005/0067303.

(46) GSH, GSSG, Cys, and CySS levels: Briefly, plasma levels of GSH, GSSG, Cys, and CySS are used to calculate the in vivo E.sub.h values. Samples are collected using the procedure of Jones et al (2009 Free Radical Biology & Medicine 47(10) pp 1329-1338), and bromobimane is used to alkylate free thiols and HPLC and either electrochemical or MSMS to separate, detect, and quantify the molecules. As described in more detail in U.S. Provisional Patent Application No. 61/698,431 filed Sep. 7, 2012, and U.S. Provisional Patent Application under attorney docket no. 526303005501 filed Mar. 15, 2013, a method was developed for different experimental parameters to analyze the most common monothiols and disulfide (cystine, cysteine, reduced (GSH) and oxidized glutathione (GSSG)) present in human plasma, and using Bathophenanthroline disulfonic acid as the internal standard (IS). Complete separation of all the targets analytes and IS at 35C. on a C18 RP column (250 mm4.6 mm, 3 micron) was achieved using 0.2% TFA:Acetonitrile as a mobile phase pumped at the rate of 0.6 ml min-1 using electrochemical detector in DC mode at the detector potential of 1475 mV.

(47) Oxygen consumption (vO2 or VO2), carbon dioxide output (vCO2 or VCO2), and respiratory quotient (VCO2/VO2): vO2 is usually measured either while resting (resting vO2) or at maximal exercise intensity (vO2 max). Optimally, both values will be measured. However, for severely disabled patients, measurement of vO2 max may be impractical. Measurement of both forms of vO2 is readily accomplished using standard equipment from a variety of vendors, e.g. Korr Medical Technologies, Inc. (Salt Lake City, Utah). VCO2 can also be readily measured, and the ratio of VCO2 to VO2 under the same conditions (VCO2/VO2, either resting or at maximal exercise intensity) provides the respiratory quotient (RQ).

(48) Oxidized Cytochrome C, reduced Cytochrome C, and ratio of oxidized Cytochrome C to reduced Cytochrome C: Cytochrome C parameters, such as oxidized cytochrome C levels (Cyt C.sub.ox), reduced cytochrome C levels (Cyt C.sub.red), and the ratio of oxidized cytochrome C/reduced cytochrome C ratio (Cyt C.sub.ox)/(Cyt C.sub.red), can be measured by in vivo near infrared spectroscopy. See, e.g., Rolfe, P., In vivo near-infrared spectroscopy, Annu. Rev. Biomed. Eng. 2:715-54 (2000) and Strangman et al., Non-invasive neuroimaging using near-infrared light Biol. Psychiatry 52:679-93 (2002).

(49) Exercise tolerance/Exercise intolerance: Exercise intolerance is defined as the reduced ability to perform activities that involve dynamic movement of large skeletal muscles because of symptoms of dyspnea or fatigue (Pia et al., Circulation 107:1210 (2003)). Exercise intolerance is often accompanied by myoglobinuria, due to breakdown of muscle tissue and subsequent excretion of muscle myoglobin in the urine. Various measures of exercise intolerance can be used, such as time spent walking or running on a treadmill before exhaustion, time spent on an exercise bicycle (stationary bicycle) before exhaustion, and the like. Treatment with the compounds or methods of the invention can result in about a 10% or greater improvement in exercise tolerance (for example, about a 10% or greater increase in time to exhaustion, e.g. from 10 minutes to 11 minutes), about a 20% or greater improvement in exercise tolerance, about a 30% or greater improvement in exercise tolerance, about a 40% or greater improvement in exercise tolerance, about a 50% or greater improvement in exercise tolerance, about a 75% or greater improvement in exercise tolerance, or about a 100% or greater improvement in exercise tolerance. While exercise tolerance is not, strictly speaking, an energy biomarker, for the purposes of the invention, modulation, normalization, or enhancement of energy biomarkers includes modulation, normalization, or enhancement of exercise tolerance.

(50) Similarly, tests for normal and abnormal values of pyruvic acid (pyruvate) levels, lactate/pyruvate ratio, ATP levels, anaerobic threshold, reduced coenzyme Q (CoQ.sub.red) levels, oxidized coenzyme Q (CoQ.sub.ox) levels, total coenzyme Q (CoQ.sub.tot) levels, oxidized cytochrome C levels, reduced cytochrome C levels, oxidized cytochrome C/reduced cytochrome C ratio, GSH and cysteine reduced, oxidized, total levels and ratio, acetoacetate levels, -hydroxy butyrate levels, acetoacetate/-hydroxy butyrate ratio, 8-hydroxy-2-deoxyguanosine (8-OHdG) levels, and levels of reactive oxygen species are known in the art and can be used to evaluate efficacy of the compounds and methods of the invention. (For the purposes of the invention, modulation, normalization, or enhancement of energy biomarkers includes modulation, normalization, or enhancement of anaerobic threshold.)

(51) Table 1, following, illustrates the effect that various dysfunctions can have on biochemistry and energy biomarkers. It also indicates the physical effect (such as a disease symptom or other effect of the dysfunction) typically associated with a given dysfunction. It should be noted that any of the energy biomarkers listed in the table, in addition to energy biomarkers enumerated elsewhere, can also be modulated, enhanced, or normalized by the compounds and methods of the invention. RQ=respiratory quotient; BMR=basal metabolic rate; HR (CO)=heart rate (cardiac output); T=body temperature (preferably measured as core temperature); AT=anaerobic threshold; pH=blood pH (venous and/or arterial).

(52) TABLE-US-00001 TABLE 1 Site of Measurable Energy Dysfunction Biochemical Event Biomarker Physical Effect Respiratory NADH lactate, Metabolic Chain lactate: pyruvate ratio; dyscrasia & and fatigue acetoacetate: -hydroxy butyrate ratio Respiratory H+ gradient ATP Organ dependent Chain dysfunction Respiratory Electron flux VO2, RQ, BMR, T, Metabolic Chain AT, pH dyscrasia & fatigue Mitochondria & ATP, VO2 Work, HR (CO) Exercise cytosol intolerance Mitochondria & ATP PCr Exercise cytosol intolerance Respiratory Cyt C.sub.Ox/.sub.Red ~700-900 nM (Near Exercise Chain Infrared Spectroscopy) intolerance Intermediary Catabolism C14-Labeled substrates Metabolic metabolism dyscrasia & fatigue Respiratory Electron flux Mixed Venous VO2 Metabolic Chain dyscrasia & fatigue Mitochondria & Oxidative stress Tocopherol & Uncertain cytosol Tocotrienols, CoQ10, docosahexanoic acid Mitochondria & Oxidative stress Glutathionered Uncertain cytosol Mitochondria & Nucleic acid 8-hydroxy 2-deoxy Uncertain cytosol oxidation guanosine Mitochondria & Lipid oxidation Isoprostane(s), Uncertain cytosol eicasanoids Cell membranes Lipid oxidation Ethane (breath) Uncertain Cell membranes Lipid oxidation Malondialdehyde Uncertain

(53) Treatment of a subject afflicted by an oxidative stress disorder in accordance with the methods of the invention may result in the inducement of a reduction or alleviation of symptoms in the subject, e.g., to halt the further progression of the disorder.

(54) Partial or complete suppression of the oxidative stress disorder can result in a lessening of the severity of one or more of the symptoms that the subject would otherwise experience. For example, partial suppression of MELAS could result in reduction in the number of stroke-like or seizure episodes suffered.

(55) Any one or any combination of the energy biomarkers described herein provide conveniently measurable benchmarks by which to gauge the effectiveness of treatment or suppressive therapy. Additionally, other energy biomarkers are known to those skilled in the art and can be monitored to evaluate the efficacy of treatment or suppressive therapy.

(56) Use of Compounds for Modulation of Energy Biomarkers

(57) In addition to monitoring energy biomarkers to assess the status of treatment or suppression of oxidative stress diseases, the compounds of the invention can be used in subjects or patients to modulate one or more energy biomarkers. Modulation of energy biomarkers can be done to normalize energy biomarkers in a subject, or to enhance energy biomarkers in a subject.

(58) Normalization of one or more energy biomarkers is defined as either restoring the level of one or more such energy biomarkers to normal or near-normal levels in a subject whose levels of one or more energy biomarkers show pathological differences from normal levels (i.e., levels in a healthy subject), or to change the levels of one or more energy biomarkers to alleviate pathological symptoms in a subject. Depending on the nature of the energy biomarker, such levels may show measured values either above or below a normal value. For example, a pathological lactate level is typically higher than the lactate level in a normal (i.e., healthy) person, and a decrease in the level may be desirable. A pathological ATP level is typically lower than the ATP level in a normal (i.e., healthy) person, and an increase in the level of ATP may be desirable. Accordingly, normalization of energy biomarkers can involve restoring the level of energy biomarkers to within about at least two standard deviations of normal in a subject, more preferably to within about at least one standard deviation of normal in a subject, to within about at least one-half standard deviation of normal, or to within about at least one-quarter standard deviation of normal.

(59) Enhancement of the level of one or more energy biomarkers is defined as changing the extant levels of one or more energy biomarkers in a subject to a level which provides beneficial or desired effects for the subject. For example, a person undergoing strenuous effort or prolonged vigorous physical activity, such as mountain climbing, could benefit from increased ATP levels or decreased lactate levels. As described above, normalization of energy biomarkers may not achieve the optimum state for a subject with an oxidative stress disease, and such subjects can also benefit from enhancement of energy biomarkers. Examples of subjects who could benefit from enhanced levels of one or more energy biomarkers include, but are not limited to, subjects undergoing strenuous or prolonged physical activity, subjects with chronic energy problems, or subjects with chronic respiratory problems. Such subjects include, but are not limited to, pregnant females, particularly pregnant females in labor; neonates, particularly premature neonates; subjects exposed to extreme environments, such as hot environments (temperatures routinely exceeding about 85-86 degrees Fahrenheit or about 30 degrees Celsius for about 4 hours daily or more), cold environments (temperatures routinely below about 32 degrees Fahrenheit or about 0 degrees Celsius for about 4 hours daily or more), or environments with lower-than-average oxygen content, higher-than-average carbon dioxide content, or higher-than-average levels of air pollution (airline travelers, flight attendants, subjects at elevated altitudes, subjects living in cities with lower-than-average air quality, subjects working in enclosed environments where air quality is degraded); subjects with lung diseases or lower-than-average lung capacity, such as tubercular patients, lung cancer patients, emphysema patients, and cystic fibrosis patients; subjects recovering from surgery or illness; elderly subjects, including elderly subjects experiencing decreased energy; subjects suffering from chronic fatigue, including chronic fatigue syndrome; subjects undergoing acute trauma; subjects in shock; subjects requiring acute oxygen administration; subjects requiring chronic oxygen administration; or other subjects with acute, chronic, or ongoing energy demands who can benefit from enhancement of energy biomarkers.

(60) Accordingly, when an increase in a level of one or more energy biomarkers is beneficial to a subject, enhancement of the one or more energy biomarkers can involve increasing the level of the respective energy biomarker or energy biomarkers to about at least one-quarter standard deviation above normal, about at least one-half standard deviation above normal, about at least one standard deviation above normal, or about at least two standard deviations above normal. Alternatively, the level of the one or more energy biomarkers can be increased by about at least 10% above the subject's level of the respective one or more energy biomarkers before enhancement, by about at least 20% above the subject's level of the respective one or more energy biomarkers before enhancement, by about at least 30% above the subject's level of the respective one or more energy biomarkers before enhancement, by about at least 40% above the subject's level of the respective one or more energy biomarkers before enhancement, by about at least 50% above the subject's level of the respective one or more energy biomarkers before enhancement, by about at least 75% above the subject's level of the respective one or more energy biomarkers before enhancement, or by about at least 100% above the subject's level of the respective one or more energy biomarkers before enhancement.

(61) When a decrease in a level of one or more energy biomarkers is desired to enhance one or more energy biomarkers, the level of the one or more energy biomarkers can be decreased by an amount of about at least one-quarter standard deviation of normal in a subject, decreased by about at least one-half standard deviation of normal in a subject, decreased by about at least one standard deviation of normal in a subject, or decreased by about at least two standard deviations of normal in a subject. Alternatively, the level of the one or more energy biomarkers can be decreased by about at least 10% below the subject's level of the respective one or more energy biomarkers before enhancement, by about at least 20% below the subject's level of the respective one or more energy biomarkers before enhancement, by about at least 30% below the subject's level of the respective one or more energy biomarkers before enhancement, by about at least 40% below the subject's level of the respective one or more energy biomarkers before enhancement, by about at least 50% below the subject's level of the respective one or more energy biomarkers before enhancement, by about at least 75% below the subject's level of the respective one or more energy biomarkers before enhancement, or by about at least 90% below the subject's level of the respective one or more energy biomarkers before enhancement.

(62) Use of Compounds in Research Applications, Experimental Systems, and Assays

(63) The compounds of the invention can also be used in research applications. They can be used in in vitro, in vivo, or ex vivo experiments to modulate one or more energy biomarkers in an experimental system. Such experimental systems can be cell samples, tissue samples, cell components or mixtures of cell components, partial organs, whole organs, or organisms. Any one or more of the compounds of formula I can be used in experimental systems or research applications. Such research applications can include, but are not limited to, use as assay reagents, elucidation of biochemical pathways, or evaluation of the effects of other agents on the metabolic state of the experimental system in the presence/absence of one or more compounds of the invention.

(64) Additionally, the compounds of the invention can be used in biochemical tests or assays. Such tests can include incubation of one or more compounds of the invention with a tissue or cell sample from a subject to evaluate a subject's potential response (or the response of a specific subset of subjects) to administration of said one or more compounds, or to determine which compound of the invention produces the optimum effect in a specific subject or subset of subjects. One such test or assay would involve 1) obtaining a cell sample or tissue sample from a subject in which modulation of one or more energy biomarkers can be assayed; 2) administering one or more compounds of the invention to the cell sample or tissue sample; and 3) determining the amount of modulation of the one or more energy biomarkers after administration of the one or more compounds, compared to the status of the energy biomarker prior to administration of the one or more compounds. Another such test or assay would involve 1) obtaining a cell sample or tissue sample from a subject in which modulation of one or more energy biomarkers can be assayed; 2) administering at least two compounds of the invention to the cell sample or tissue sample; 3) determining the amount of modulation of the one or more energy biomarkers after administration of the at least two compounds, compared to the status of the energy biomarker prior to administration of the at least two compounds, and 4) selecting a compound or compounds for use in treatment, suppression, or modulation based on the amount of modulation determined in step 3.

(65) Pharmaceutical Formulations

(66) The compounds described herein can be formulated as pharmaceutical compositions by formulation with additives such as pharmaceutically acceptable excipients, pharmaceutically acceptable carriers, and pharmaceutically acceptable vehicles. Suitable pharmaceutically acceptable excipients, carriers and vehicles include processing agents and drug delivery modifiers and enhancers, such as, for example, calcium phosphate, magnesium stearate, talc, monosaccharides, disaccharides, starch, gelatin, cellulose, methyl cellulose, sodium carboxymethyl cellulose, dextrose, hydroxypropyl--cyclodextrin, polyvinylpyrrolidinone, low melting waxes, ion exchange resins, and the like, as well as combinations of any two or more thereof. Other suitable pharmaceutically acceptable excipients are described in Remington's Pharmaceutical Sciences, Mack Pub. Co., New Jersey (1991), and Remington: The Science and Practice of Pharmacy, Lippincott Williams & Wilkins, Philadelphia, 20th edition (2003) and 21st edition (2005), incorporated herein by reference.

(67) A pharmaceutical composition can comprise a unit dose formulation, where the unit dose is a dose sufficient to have a therapeutic or suppressive effect or an amount effective to modulate, normalize, or enhance an energy biomarker. The unit dose may be sufficient as a single dose to have a therapeutic or suppressive effect or an amount effective to modulate, normalize, or enhance an energy biomarker. Alternatively, the unit dose may be a dose administered periodically in a course of treatment or suppression of a disorder, or to modulate, normalize, or enhance an energy biomarker.

(68) Pharmaceutical compositions containing the compounds of the invention may be in any form suitable for the intended method of administration, including, for example, a solution, a suspension, or an emulsion. Liquid carriers are typically used in preparing solutions, suspensions, and emulsions. Liquid carriers contemplated for use in the practice of the present invention include, for example, water, saline, pharmaceutically acceptable organic solvent(s), pharmaceutically acceptable oils or fats, and the like, as well as mixtures of two or more thereof. The liquid carrier may contain other suitable pharmaceutically acceptable additives such as solubilizers, emulsifiers, nutrients, buffers, preservatives, suspending agents, thickening agents, viscosity regulators, stabilizers, and the like. Suitable organic solvents include, for example, monohydric alcohols, such as ethanol, and polyhydric alcohols, such as glycols. Suitable oils include, for example, soybean oil, coconut oil, olive oil, safflower oil, cottonseed oil, and the like. For parenteral administration, the carrier can also be an oily ester such as ethyl oleate, isopropyl myristate, and the like. Compositions of the present invention may also be in the form of microparticles, microcapsules, liposomal encapsulates, and the like, as well as combinations of any two or more thereof.

(69) Time-release or controlled release delivery systems may be used, such as a diffusion controlled matrix system or an erodible system, as described for example in: Lee, Diffusion-Controlled Matrix Systems, pp. 155-198 and Ron and Langer, Erodible Systems, pp. 199-224, in Treatise on Controlled Drug Delivery, A. Kydonieus Ed., Marcel Dekker, Inc., New York 1992. The matrix may be, for example, a biodegradable material that can degrade spontaneously in situ and in vivo for, example, by hydrolysis or enzymatic cleavage, e.g., by proteases. The delivery system may be, for example, a naturally occurring or synthetic polymer or copolymer, for example in the form of a hydrogel. Exemplary polymers with cleavable linkages include polyesters, polyorthoesters, polyanhydrides, polysaccharides, poly(phosphoesters), polyamides, polyurethanes, poly(imidocarbonates) and poly(phosphazenes).

(70) The compounds of the invention may be administered enterally, orally, parenterally, sublingually, by inhalation (e.g. as mists or sprays), rectally, or topically in dosage unit formulations containing conventional nontoxic pharmaceutically acceptable carriers, adjuvants, and vehicles as desired. For example, suitable modes of administration include oral, subcutaneous, transdermal, transmucosal, iontophoretic, intravenous, intraarterial, intramuscular, intraperitoneal, intranasal (e.g. via nasal mucosa), subdural, rectal, gastrointestinal, and the like, and directly to a specific or affected organ or tissue. For delivery to the central nervous system, spinal and epidural administration, or administration to cerebral ventricles, can be used. Topical administration may also involve the use of transdermal administration such as transdermal patches or iontophoresis devices. The term parenteral as used herein includes subcutaneous injections, intravenous, intramuscular, intrasternal injection, or infusion techniques. The compounds are mixed with pharmaceutically acceptable carriers, adjuvants, and vehicles appropriate for the desired route of administration. Oral administration is a preferred route of administration, and formulations suitable for oral administration are preferred formulations. The compounds described for use herein can be administered in solid form, in liquid form, in aerosol form, or in the form of tablets, pills, powder mixtures, capsules, granules, injectables, creams, solutions, suppositories, enemas, colonic irrigations, emulsions, dispersions, food premixes, and in other suitable forms. The compounds can also be administered in liposome formulations. The compounds can also be administered as prodrugs, where the prodrug undergoes transformation in the treated subject to a form which is therapeutically effective. Additional methods of administration are known in the art.

(71) In some embodiments of the invention, especially those embodiments where a formulation is used for injection or other parenteral administration including the routes listed herein, but also including embodiments used for oral, gastric, gastrointestinal, or enteric administration, the formulations and preparations used in the methods of the invention are sterile. Sterile pharmaceutical formulations are compounded or manufactured according to pharmaceutical-grade sterilization standards (United States Pharmacopeia Chapters 797, 1072, and 1211; California Business & Professions Code 4127.7; 16 California Code of Regulations 1751, 21 Code of Federal Regulations 211) known to those of skill in the art.

(72) Injectable preparations, for example, sterile injectable aqueous or oleaginous suspensions, may be formulated according to the known art using suitable dispersing or wetting agents and suspending agents. The sterile injectable preparation may also be a sterile injectable solution or suspension in a nontoxic parenterally acceptable diluent or solvent, for example, as a solution in propylene glycol. Among the acceptable vehicles and solvents that may be employed are water, Ringer's solution, and isotonic sodium chloride solution. In addition, sterile, fixed oils are conventionally employed as a solvent or suspending medium. For this purpose any bland fixed oil may be employed including synthetic mono- or diglycerides. In addition, fatty acids such as oleic acid find use in the preparation of injectables.

(73) Solid dosage forms for oral administration may include capsules, tablets, pills, powders, and granules. In such solid dosage forms, the active compound may be admixed with at least one inert diluent such as sucrose, lactose, or starch. Such dosage forms may also comprise additional substances other than inert diluents, e.g., lubricating agents such as magnesium stearate. In the case of capsules, tablets, and pills, the dosage forms may also comprise buffering agents. Tablets and pills can additionally be prepared with enteric coatings.

(74) Liquid dosage forms for oral administration may include pharmaceutically acceptable emulsions, solutions, suspensions, syrups, and elixirs containing inert diluents commonly used in the art, such as water. Such compositions may also comprise adjuvants, such as wetting agents, emulsifying and suspending agents, cyclodextrins, and sweetening, flavoring, and perfuming agents.

(75) The compounds of the present invention can also be administered in the form of liposomes. As is known in the art, liposomes are generally derived from phospholipids or other lipid substances. Liposomes are formed by mono- or multilamellar hydrated liquid crystals that are dispersed in an aqueous medium. Any non-toxic, physiologically acceptable and metabolizable lipid capable of forming liposomes can be used. The present compositions in liposome form can contain, in addition to a compound of the present invention, stabilizers, preservatives, excipients, and the like. The preferred lipids are the phospholipids and phosphatidyl cholines (lecithins), both natural and synthetic. Methods to form liposomes are known in the art. See, for example, Prescott, Ed., Methods in Cell Biology, Volume XIV, Academic Press, New York, N.Y., p. 33 et seq (1976).

(76) The invention also provides articles of manufacture and kits containing materials useful for treating or suppressing oxidative stress disorders. The invention also provides kits comprising any one or more of the compounds of formula I. In some embodiments, the kit of the invention comprises the container described above.

(77) In other aspects, the kits may be used for any of the methods described herein, including, for example, to treat an individual with a mitochondrial disorder, or to suppress a mitochondrial disorder in an individual.

(78) The amount of active ingredient that may be combined with the carrier materials to produce a single dosage form will vary depending upon the host to which the active ingredient is administered and the particular mode of administration. It will be understood, however, that the specific dose level for any particular patient will depend upon a variety of factors including the activity of the specific compound employed, the age, body weight, body area, body mass index (BMI), general health, sex, diet, time of administration, route of administration, rate of excretion, drug combination, and the type, progression, and severity of the particular disease undergoing therapy. The pharmaceutical unit dosage chosen is usually fabricated and administered to provide a defined final concentration of drug in the blood, tissues, organs, or other targeted region of the body. The therapeutically effective amount or effective amount for a given situation can be readily determined by routine experimentation and is within the skill and judgment of the ordinary clinician.

(79) Examples of dosages which can be used are a therapeutically effective amount or effective amount within the dosage range of about 0.1 mg/kg to about 300 mg/kg body weight, or within about 1.0 mg/kg to about 100 mg/kg body weight, or within about 1.0 mg/kg to about 50 mg/kg body weight, or within about 1.0 mg/kg to about 30 mg/kg body weight, or within about 1.0 mg/kg to about 10 mg/kg body weight, or within about 10 mg/kg to about 100 mg/kg body weight, or within about 50 mg/kg to about 150 mg/kg body weight, or within about 100 mg/kg to about 200 mg/kg body weight, or within about 150 mg/kg to about 250 mg/kg body weight, or within about 200 mg/kg to about 300 mg/kg body weight, or within about 250 mg/kg to about 300 mg/kg body weight. Compounds of the present invention may be administered in a single daily dose, or the total daily dosage may be administered in divided dosage of two, three or four times daily.

(80) While the compounds of the invention can be administered as the sole active pharmaceutical agent, they can also be used in combination with one or more other agents used in the treatment or suppression of disorders. Representative agents useful in combination with the compounds of the invention for the treatment or suppression of mitochondrial diseases include, but are not limited to, Coenzyme Q, vitamin E, idebenone, MitoQ, vitamins, NAC, and antioxidant compounds.

(81) When additional active agents are used in combination with the compounds of the present invention, the additional active agents may generally be employed in therapeutic amounts as indicated in the Physicians' Desk Reference (PDR) 53rd Edition (1999), or such therapeutically useful amounts as would be known to one of ordinary skill in the art.

(82) The compounds of the invention and the other therapeutically active agents can be administered at the recommended maximum clinical dosage or at lower doses. Dosage levels of the active compounds in the compositions of the invention may be varied so as to obtain a desired therapeutic response depending on the route of administration, severity of the disease and the response of the patient. When administered in combination with other therapeutic agents, the therapeutic agents can be formulated as separate compositions that are given at the same time or different times, or the therapeutic agents can be given as a single composition.

(83) The invention will be further understood by the following nonlimiting examples.

(84) Preparation of Compounds of the Invention

(85) The compounds of this invention can be prepared from readily available starting materials using the following general methods and procedures. It will be appreciated that where typical or preferred process conditions (i.e., reaction temperatures, times, mole ratios of reactants, solvents, pressures, etc.) are given, other process conditions can also be used unless otherwise stated. Optimum reaction conditions may vary with the particular reactants or solvent used, but such conditions can be determined by one skilled in the art by routine optimization procedures.

(86) Synthetic Reaction Parameters

(87) The terms solvent, inert organic solvent or inert solvent mean a solvent inert under the conditions of the reaction being described in conjunction therewith. Solvents employed in synthesis of the compounds of the invention include, for example, methanol (MeOH), acetone, water, acetonitrile, 1,4-dioxane, dimethylformamide (DMF), benzene, toluene, xylene, tetrahydrofuran (THF), chloroform, methylene chloride (or dichloromethane, (DCM)), diethyl ether, pyridine and the like, as well as mixtures thereof. Unless specified to the contrary, the solvents used in the reactions of the present invention are inert organic solvents.

(88) The term q.s. means adding a quantity sufficient to achieve a stated function, e.g., to bring a solution to the desired volume (i.e., 100%).

(89) The compounds herein are synthesized by an appropriate combination of generally well-known synthetic methods. Techniques useful in synthesizing the compounds herein are both readily apparent and accessible to those of skill in the relevant art in light of the teachings described herein. The discussion below is offered to illustrate certain of the diverse methods available for use in assembling the compounds herein. However, the discussion is not intended to define the scope of reactions or reaction sequences that are useful in preparing the compounds herein.

(90) A non-limiting, illustrative example of synthesis of compounds of the general formula:

(91) ##STR00079##
is as follows:

(92) ##STR00080##

(93) A non-limiting, illustrative example of synthesis of compounds of the general formula:

(94) ##STR00081##
is as follows:

(95) ##STR00082##

(96) A non-limiting, illustrative example of synthesis of compounds of the general formula:

(97) ##STR00083##
is as follows:

(98) ##STR00084##

(99) A non-limiting, illustrative example of synthesis of compounds of the general formula:

(100) ##STR00085##
is as follows:

(101) ##STR00086##

(102) A non-limiting illustrative example of synthesis of certain compounds of the invention is as follows:

(103) ##STR00087##

(104) Synthetic methods for other compounds of the invention will be apparent to one skilled in the art in view of the illustrative examples above, and the Examples below.

EXAMPLES

Example A

Synthesis of Methyl 1,2,4-trimethyl-3-oxo-3H-phenoxazine-7-carboxylate

(105) ##STR00088##

Step 1: 1,4-bis(benzyloxy)-2,3,5-trimethylbenzene (1)

(106) 15.32 g [101 mmole] of 2,3,5-trimethylhydroquinone was weighed into a 1000 mL round bottom flask fitted with a stir bar, septum, and nitrogen inlet. Established and maintained nitrogen atmosphere. Added 100 mL of anhydrous DMF and stirred to obtain a clear light brown solution. Sparged the solution with nitrogen for 10 min. Added 103.23 g [317 mmole] of cesium carbonate. Mixture became dark. Added 36 mL [300 mmole] of benzyl bromide. The mixture became light yellow with suspended white solid. Stirred at 60 under nitrogen for 2 h. LC-MS analysis indicated complete consumption of the starting material, with the desired product as the major component. Poured the reaction mixture into 2000 mL water. Stirred the suspended lumpy black solid and warmed to 90 with stirring. The solid melted 75. Allowed the mixture to cool to room temperature. Collected the light brown solid by filtration and washed with water. Dissolved the solid in 500 mL of MTBE and washed with 200 mL of 1.0 M aqueous sodium hydroxide, 200 mL of water, and 200 mL of brine. Dried over Na.sub.2SO.sub.4 and removed the solvent on rotavap to obtain 38.23 g of a thick dark amber oil. Crystallized the product from 400 mL of hot MeOH. Heated until all the oil dissolved except for a small bead of dense purple oil which was removed with a pipette. Seeded the solution with crystals and allowed to cool to room temperature. Crystalline solid formed. Cooled to 5 overnight. Collected the crystalline solid by filtration and washed with cold MeOH. Dried the crystals to obtain 28.74 g [86.5 mmole] of the title compound (1) as an off-white solid. 86% yield.

(107) ##STR00089##

Step 2: 2-bromo-1,4-bis(benzyloxy)-3,5,6-trimethylbenzene (2)

(108) 13.90 g [41.8 mmole] of 1,4-bis(benzyloxy)-2,3,5-trimethylbenzene (1) was weighed into a 1000 mL round bottom flask fitted with a stir bar and septum. Added 200 mL of anhydrous 1,2-dimethoxyethane and stirred to obtain a clear yellow solution. Added 2.3 mL [45 mmole] of bromine over 60 min with a syringe pump. Stirred at room temperature for 2 h. LC-MS analysis indicated complete consumption of the starting material, with the desired product as the major component. Quenched the reaction mixture with 200 mL of 1.0 M sodium thiosulfate. A precipitate formed. Stirred at 50 for 15 min. The reaction mixture became black after about 10 min. Extracted the mixture with 400 mL, then 200 mL of 25% MTBE/heptane warmed to 50. Washed the combined extracts with 2250 mL of 50 water and 250 mL brine. The extraction was kept warm to prevent crystallization of the product from the organic layer. Did not dry the organic phase after the brine wash. Removed the solvent on rotavap to obtain 14.17 g of a light brown solid. Dissolved the crude material in 200 mL CH.sub.2Cl.sub.2 and dried onto 45 of silica gel. Loaded the powder into an Isco solid sample cartridge and chromatographed on a 385 g Supelco VersaPak silica gel column with 3:1 heptane:CH.sub.2Cl.sub.2 isocratic elution. Pooled the pure fractions and removed the solvent to obtain 5.82 g of the product as a white solid. Pooled the mixed fractions and chromatographed on silica gel using 2:1 heptane:CH.sub.2Cl.sub.2 isocratic elution to obtain 3.81 g of additional product as a white solid. Total weight of the title compound (2) was 9.63 g [23.4 mmole]. 56% yield.

(109) ##STR00090##

Step 3: 2,5-bis(benzyloxy)-3,4,6-trimethylbenzaldehyde (3)

(110) 5.67 g [13.8 mmole] of 2-bromo-1,4-bis(benzyloxy)-3,5,6-trimethylbenzene (2) was weighed into an oven dried 500 mL round bottom flask fitted with a stir bar, septum, and nitrogen bubbler. Established and maintained nitrogen atmosphere. Added 100 mL of anhydrous Et.sub.2O and 100 mL of anhydrous toluene. Stirred and warmed to 35 until all the solid dissolved to a clear colorless solution. Cooled the reaction in an ice/water bath for 30 min. A small amount of fluffy white solid precipitated from solution. Added 9.1 mL [15 mmole] of a 1.6 M solution of n-butyllithium dropwise over 10 min using a syringe pump. All the solids dissolved to give a clear pale yellow solution. Stirred in the ice bath for 10 min. Added 3.2 mL [41 mmole] of anhydrous dimethylformamide. Stirred at room temperature for 21 h. Quenched with 100 mL of saturated aqueous ammonium acetate. Added 100 mL water and 100 mL EtOAc. Separated phases and extracted the aqueous phase with 100 mL of EtOAc. Washed the combined organic extracts with 2100 mL of water, 100 mL of brine, and dried over Na.sub.2SO.sub.4. Removed the solvent on a rotavap to obtain 4.99 g [13.8 mmole] of the title compound (3) as a white solid. The crude material was not purified further. Quantitative yield.

(111) ##STR00091##

Step 4: 2,5-bis(benzyloxy)-3,4,6-trimethylphenol (4)

(112) 3.42 g [9.49 mmole] 2,5-bis(benzyloxy)-3,4,6-trimethylbenzaldehyde (3) and 4.51 g [20 mmole] of 3-chloroperbenzoic acid [labeled as 77% maximum purity] were weighed into a 250 mL round bottom flask fitted with a stir bar, reflux condenser, and nitrogen inlet. Added 150 mL of CH.sub.2Cl.sub.2. Refluxed under nitrogen 20 h. LC-MS analysis indicated no starting material remained. Poured the reaction mixture into a separatory funnel and washed with 100 mL of 10% aqueous NaHSO.sub.3, 3100 mL of 0.5 M aqueous NaHCO.sub.3, 100 mL of 1.0 M pH 5.5 phosphate buffer, and 100 mL of brine. Dried over Na.sub.2SO.sub.4 and removed the solvent on rotavap to obtain 3.59 g of the intermediate formate ester as an off-white solid. Added 100 mL MeOH, 5 mL water, and 1 mL of concentrated hydrochloric acid to the flask containing the ester. The solid did not dissolve. Added 20 mL of THF and warmed gently until all the solid dissolved. Stirred the solution at room temperature overnight. LC-MS analysis indicated complete conversion of intermediate formate to product phenol. Added 3 g of solid NaHCO.sub.3 and stirred overnight. The reaction solution changed color from yellow to purple overnight. Filtered off the solids and removed the solvent from the filtrate. The residue was dissolved in 100 mL EtOAc and washed with 50 mL of 1.0 M pH 5.5 phosphate buffer. The solution changed color from purple to yellow. Washed with 50 mL of brine and dried over Na.sub.2SO.sub.4. Removed the solvent on rotavap to obtain 3.25 g of an orange oil that solidified on standing to give a crystalline orange solid. Dissolved the solid in 18 mL of 1:2 heptane:CH.sub.2Cl.sub.2 and chromatographed on a 330 g Supelco VersaPak silica gel column using a gradient elution from 0.fwdarw.100% CH.sub.2Cl.sub.2/heptane over 12 column volumes to obtain 2.46 g [7.06 mmole] of the title compound (4) as a crystalline yellow solid. 74% yield.

(113) ##STR00092##

Step 5: Methyl 3-(2,5-bis(benzyloxy)-3,4,6-trimethylphenoxy)-4-nitrobenzoate (5)

(114) 1.40 g [4.02 mmole] of 2,5-bis(benzyloxy)-3,4,6-trimethylphenol (4) and 1.58 g [4.85 mmole] of cesium carbonate were weighed into a 40 mL reaction vial fitted with a stir bar and cap. Added 10 mL of dimethyl sulfoxide and stirred for 20 min. Some white solid remained in the dark solution. Added 1.04 g [5.22 mmole] of methyl 3-fluoro-4-nitrobenzenecarboxylate and stirred at 50. The mixture solidified after about 15 min. Heated with a heat gun until all of the solid dissolved except for the small amount of white solid noted in initial solution. Cooled to 50 and a solid precipitated. LC-MS analysis at 20 min indicated the reaction was complete. Partitioned the reaction mixture between 100 mL of CH.sub.2Cl.sub.2 And 100 mL of water. Washed the organic phase with 100 mL of water, 100 mL of brine, and dried over Na.sub.2SO.sub.4. Removed the solvent on rotavap to obtain 2.31 g of a yellow solid. Dissolved the solid in 15 mL of CH.sub.2Cl.sub.2 and purified by chromatography on a 100 g Supelco VersaPak silica gel column eluted with a 0.fwdarw.100% gradient of CH.sub.2Cl.sub.2/heptane over 13 column volumes to obtain 1.95 g [3.70 mmole] of the title compound (5) as an off-white solid. 92% yield.

(115) ##STR00093##

Step 6: Methyl 1,2,4-trimethyl-3-oxo-3H-phenoxazine-7-carboxylate (6)

(116) 266 mg [0.504 mmole] of methyl 3-(2,5-bis(benzyloxy)-3,4,6-trimethylphenoxy)-4-nitrobenzoate (5) was weighed into a 20 mL reaction vial fitted with a stir bar and septum cap. Added 5 mL of 9:1 i-PrOAc:HOAc. Sparged the mixture with nitrogen for 2 min. Added 22 mg of 10 wt % palladium on carbon. Purged the vial with nitrogen and sealed with a septum cap. Used a balloon filled with hydrogen to establish and maintain a hydrogen atmosphere over the reaction mixture. Stirred at 50 for 24 h. Analysis by LC-MS indicated complete deprotection and reduction. Added 10 mL of 2-methoxyethyl ether and stirred the reaction mixture at 50 open to the air for 18 h. LC-MS analysis indicated 10% cyclization. Added 1.0 mL HOAc and stirred the reaction mixture at 110 open to the air for 4 h. LC-MS analysis indicated 20% cyclization. Stirred the reaction mixture at 150 open to the air for 1 h. LC-MS analysis indicated the cyclization was complete. Most of the solvent had evaporated. Added 10 mL of CH.sub.2Cl.sub.2 and removed the catalyst by filtration through a 0.2 M PTFE syringe filter, washing the reaction vial and filter with 25 mL of CH.sub.2Cl.sub.2. The filtrate was washed with 15 mL of 0.5 M aqueous NaHCO.sub.3 and 15 mL of water. Dried the orange solution over Na.sub.2SO.sub.4 and removed the solvent on a rotavap. Dissolved the crude orange solid in CH.sub.2Cl.sub.2 and injected onto a dry 23 g Supelco VersaPak silica gel column. Removed the solvent from the column with a stream of nitrogen. Eluted column with CH.sub.2Cl.sub.2. Pooled fractions to obtain 101 mg [0.340 mmole] of the title compound (6) as an orange solid. 67% yield.

(117) The following compounds were synthesized in an analogous manner:

(118) ##STR00094##

Example B

Synthesis of 2,5-bis(benzyloxy)-3,4-dimethoxy-6-methylphenol

(119) ##STR00095##

2,3-dimethoxy-5-methylbenzene-1,4-diol (1)

(120) 5.29 g [140 mmole] of sodium borohydride was weighed into a 500 mL round bottom flask fitted with an addition funnel and stir bar. Added 150 mL of water. Charged 5.03 g [27.6 mmole] of 2,3-dimethoxy-5-methyl-p-benzoquinone dissolved in a mixture of 75 mL Et.sub.2O and 35 mL MeOH into the addition funnel. Started the stirrer in the reaction flask and added the red solution of quinone dropwise over 90 minutes under ambient conditions. The red droplets changed color to yellow upon entering the reaction mixture and there was a mild exotherm with gas evolution. After addition was complete, the two phase yellow solution was stirred at room temperature for 3 h. Quenched the reaction to pH 2 with conc. HCl. Extracted the reaction mixture with 3150 mL MTBE. Washed the combined organic phases with 150 mL of 1.0 M pH 5.5 phosphate buffer, 150 mL of brine, and dried over MgSO.sub.4. Added 50 mL heptane to chase out low boiling solvents and water and removed the solvent on rotavap to 50/10 Torr to obtain 5.43 g of the crude product (1) as an amber oil. The crude material was used without further purification.

(121) ##STR00096##

2,5-bis(benzyloxy)-3,4-dimethoxytoluene (2)

(122) All of the crude 2,3-dimethoxy-5-methylbenzene-1,4-diol (1) [calc. amount 27.6 mmol] and 28.9 g [88.7 mmole] of cesium carbonate were charged into a 250 mL round bottom flask fitted with a stir bar, septum, and nitrogen inlet. Established and maintained nitrogen atmosphere. Added 80 mL of anhydrous DMF. Added 8.2 mL [71.5 mmole] of benzyl bromide. Stirred the reaction mixture at room temperature under nitrogen over the weekend [93 h]. Partitioned the reaction mixture between 300 mL of water and 300 mL of MTBE. Washed the organic phase with 2300 mL of water, 150 mL of brine, and dried over MgSO.sub.4. Removed the solvent on rotavap to obtain 11.09 g of a yellow oil. Diluted the oil with 30 mL of CH.sub.2Cl.sub.2 and purified by chromatography on a 330 g Isco RediSep silica gel column eluted with a 0.fwdarw.40% EtOAc/heptane gradient over 7 column volumes to obtain 9.05 g [24.8 mmole] of the title compound (2) as a clear colorless oil. 90% yield over 2 steps.

(123) ##STR00097##

2-bromo-3,6-bis(benzyloxy)-4,5-dimethoxytoluene (3)

(124) 8.53 g [23.4 mmole] of 2,5-dibenzyloxy-3,4-dimethoxytoluene (2) was weighed into a 500 mL round bottom flask fitted with a stir bar and addition funnel. Added 100 mL of acetic acid and 3.32 g [40.5 mmole] of sodium acetate. Sonicated until all the solid dissolved. Stirred the solution rapidly at room temperature and added a solution of 4.92 g [30.8 mmole] of bromine dissolved in 40 mL of acetic acid dropwise over 10 min. Stirred the reaction at room temperature for 90 min. Removed the solids by filtration. Removed solvent from the filtrate on rotavap. Partitioned the residue between 250 mL MTBE and 100 mL of 1.0 M hydrochloric acid. Separated phases and washed the organic phase with 100 mL of water, 100 mL of 0.5 M aqueous NaHCO.sub.3, and 100 mL of brine. Dried over MgSO.sub.4 and removed solvent on rotavap to obtain an amber oil which solidified on standing. Dissolved the solid in CH.sub.2Cl.sub.2 and chromatographed on a 330 g Isco RediSep silica gel column using a 10.fwdarw.100% CH.sub.2Cl.sub.2/heptane gradient over 10 column volumes to obtain 9.34 g [21.1 mmole] of the title compound (3) as a clear pale yellow oil which crystallized on standing to give a white solid. 90% yield.

(125) ##STR00098##

2,5-bis(benzyloxy)-3,4-dimethoxy-6-methylbenzaldehyde (4)

(126) 4.44 g [10.0 mmole] of 2-bromo-3,6-bis(benzyloxy)-4,5-dimethoxy-toluene (3) was weighed into a 500 mL oven-dried round bottom flask fitted with a stir bar, septum, and nitrogen bubbler. Established and maintained nitrogen atmosphere. Added 100 mL of anhydrous Et.sub.2O and stirred to obtain a clear colorless solution. Added 100 mL of anhydrous toluene. Cooled the reaction to 10 in an acetone/water ice bath for 30 min. Added 6.8 mL of a 1.6 M solution of n-butyllithium in hexanes dropwise over 7 min using a syringe pump. Stirred at 10 for 2 min. The solution became a dark bromine red color. Added 4.0 mL of anhydrous N,N-dimethylformamide. The solution became a clear yellow color. After 5 min the solution developed a greenish tint, and the greenish tint slowly dissipated to give a medium yellow solution. Stirred overnight [19 h], allowing the ice bath to melt and the reaction to warm to room temperature. Quenched with 100 mL of saturated aqueous NH.sub.4OAc. Added 100 mL water and 100 mL EtOAc. Separated phases and extracted the aqueous phase with 100 mL of EtOAc. Washed the combined organic extracts with 2100 mL of water, 100 mL of brine, and dried over Na.sub.2SO.sub.4. Removed the solvent on a rotavap to obtain 3.89 g of an amber solid. Purified by chromatography on a 330 g Isco RediSep silica gel column eluted with a linear gradient of 0.fwdarw.100% CH.sub.2Cl.sub.2/heptane over 10 column volumes to obtain 2.55 g of an off-white solid. .sup.1H-NMR indicated this material contains 71 mol % or the title compound (4) and 29 mol % 2,5-bis(benzyloxy)-3,4-dimethoxytoluene. This mixture was used without further purification. 46% yield (correcting for impurity).

(127) ##STR00099##

2,5-bis(benzyloxy)-3,4-dimethoxy-6-methylphenol (5)

(128) 1.97 g [3.56 mmole] of 2,5-bis(benzyloxy)-3,4-dimethoxy-6-methylbenzaldehyde (4, 71% purity) and 0.585 g [4.87 mmole] of sodium bisulfate were weighed into a 250 mL round bottom flask fitted with a stir bar and cap. Added 50 mL of methanol and stirred at 40. Cloudy colorless solution with some undissolved white solid. Added 5.0 mL [20 mmole] of 30 wt % hydrogen peroxide. Stirred the mixture at 40 overnight [18 h]. Added 50 mL of water and removed the methanol on rotavap. Extracted the remaining aqueous mixture with 350 mL of CH.sub.2Cl.sub.2. Washed the combined organic phases with 250 mL of water, 50 mL of brine, and dried over Na.sub.2SO.sub.4. Removed the solvent on a rotavap to obtain 1.93 g of an amber oil. Diluted the oil with CH.sub.2Cl.sub.2 and purified by chromatography on a 100 g Supelco VersaPak silica gel column eluting with a gradient of 0.fwdarw.10% EtOAc/heptane over 5 column volumes followed by 5 column volumes of 10% EtOAc/heptane to obtain 1.28 g of the title compound (5) as a clear colorless resin. .sup.1H-NMR indicated this material contains 10 mol % of 2,5-bis(benzyloxy)-3,4-dimethoxytoluene impurity carried over from previous reaction. 85% yield (correcting for impurity).

(129) From intermediate compound 2,5-bis(benzyloxy)-3,4-dimethoxy-6-methylphenol (5), the following compounds were made in an analogous manner utilizing steps analogous to steps 5-6 as described above in Example A:

(130) ##STR00100##

Example 1

Screening Compounds of the Invention in Human Dermal Fibroblasts from Friedreich's Ataxia Patients

(131) An initial screen was performed to identify compounds effective for the amelioration of redox disorders. Test samples, 4 reference compounds (idebenone, decylubiquinone, Trolox and alpha-tocopherol), and solvent controls were tested for their ability to rescue FRDA fibroblasts stressed by addition of L-buthionine-(S,R)-sulfoximine (BSO), as described in Jauslin et al., Hum. Mol. Genet. 11(24):3055 (2002), Jauslin et al., FASEB J. 17:1972-4 (2003), and International Patent Application WO 2004/003565. Human dermal fibroblasts from Friedreich's Ataxia patients have been shown to be hypersensitive to inhibition of the de novo synthesis of glutathione (GSH) with L-buthionine-(S,R)-sulfoximine (BSO), a specific inhibitor of GSH synthetase (Jauslin et al., Hum. Mol. Genet. 11(24):3055 (2002)). This specific BSO-mediated cell death can be prevented by administration of antioxidants or molecules involved in the antioxidant pathway, such as alpha-tocopherol, selenium, or small molecule glutathione peroxidase mimetics. However, antioxidants differ in their potency, i.e. the concentration at which they are able to rescue BSO-stressed FRDA fibroblasts.

(132) MEM (a medium enriched in amino acids and vitamins, catalog no. 1-31F24-I) and Medium 199 (M199, catalog no. 1-21F22-I) with Earle's Balanced Salts, without phenol red, were purchased from Bioconcept. Fetal Calf Serum was obtained from PAA Laboratories. Basic fibroblast growth factor and epidermal growth factor were purchased from PeproTech. Penicillin-streptomycin-glutamine mix, L-buthionine (S,R)-sulfoximine, (+)-alpha-tocopherol, decylubiquinone, and insulin from bovine pancreas were purchased from Sigma. Trolox (6-Hydroxy-2,5,7,8-tetramethylchromane-2-carboxylic acid) was obtained from Fluka. Idebenone was obtained from Chemo Iberica. Calcein AM was purchased from Anaspec. Cell culture medium was made by combining 125 ml M199 EBS, 50 ml Fetal Calf Serum, 100 U/ml penicillin, 100 microgram/ml streptomycin, 2 mM glutamine, 10 microgram/ml insulin, 10 ng/ml EGF, and 10 ng/ml bFGF; MEM EBS was added to make the volume up to 500 ml. A 10 mM BSO solution was prepared by dissolving 444 mg BSO in 200 ml of medium (Invitrogen, Carlsbad, Ca.) with subsequent filter-sterilization. During the course of the experiments, this solution was stored at +4 C. The cells were obtained from the Coriell Cell Repositories (Camden, N.J.; repository number GM04078) and grown in 10 cm tissue culture plates. Every third day, they were split at a 1:3 ratio.

(133) The test samples were supplied in 1.5 ml glass vials. The compounds were diluted with DMSO, ethanol or PBS to result in a 5 mM stock solution. Once dissolved, they were stored at 20 C. Reference antioxidants (idebenone, decylubiquinone, alpha-tocopherol and Trolox) were dissolved in DMSO.

(134) Test samples were screened according to the following protocol:

(135) A culture with FRDA fibroblasts was started from a 1 ml vial with approximately 500,000 cells stored in liquid nitrogen. Cells were propagated in 10 cm cell culture dishes by splitting every third day in a ratio of 1:3 until nine plates were available. Once confluent, fibroblasts were harvested. For 54 micro titer plates (96 well-MTP) a total of 14.3 million cells (passage eight) were re-suspended in 480 ml medium, corresponding to 100 microliters medium with 3,000 cells/well. The remaining cells were distributed in 10 cm cell culture plates (500,000 cells/plate) for propagation. The plates were incubated overnight at 37 C. in a atmosphere with 95% humidity and 5% CO2 to allow attachment of the cells to the culture plate.

(136) 10% DMSO (242.5 microliters) was added to a well of the microtiter plate. The test compounds were unfrozen, and 7.5 microliters of a 5 mM stock solution was dissolved in the well containing 242.5 microliters of 10% DMSO, resulting in a 150 micromolar master solution. Serial dilutions from the master solution were made. The period between the single dilution steps was kept as short as possible (generally less than 30 seconds). At least 4 hours after attachment into MTP, cells were then treated with the various compound dilutions.

(137) Plates were kept overnight in the cell culture incubator. The next day, 10 microliters of a 10 mM BSO solution were added to the wells, resulting in a 1 mM final BSO concentration. Forty-eight hours later, three plates were examined under a phase-contrast microscope to verify that the cells in the negative control (wells E1-H1) were clearly dead. The medium from all plates was discarded, and the remaining liquid was removed by gently tapping the plate inversed onto a paper towel. The plates were washed twice with 100 uL of PBS containing Calcium and Magnesium.

(138) 100 microliters of PBS+Ca+Mg containing 1.2 micromolar Calcein AM were then added to each well. The plates were incubated for 30 minutes at 37 C. After that time fluorescence (excitation/emission wavelengths of 485 nm and 525 nm, respectively) was read on a Gemini fluorescence reader. Data was imported into Microsoft Excel (EXCEL is a registered trademark of Microsoft Corporation for a spreadsheet program) and ExcelFit was used to calculate the EC50 concentration for each compound.

(139) The compounds were tested three times, i.e., the experiment was performed three times, the passage number of the cells increasing by one with every repetition.

(140) The solvents (DMSO, ethanol, PBS) neither had a detrimental effect on the viability of non-BSO treated cells nor did they have a beneficial influence on BSO-treated fibroblasts even at the highest concentration tested (1%). None of the compounds showed auto-fluorescence. The viability of non-BSO treated fibroblasts was set as 100%, and the viability of the BSO- and compound-treated cells was calculated as relative to this value.

(141) The following table summarizes the EC50 for the four control compounds.

(142) TABLE-US-00002 EC50 [micromolar] Compound Value 1 Value 2 Value 3 Average Stdev decylubiquinone 0.05 0.035 0.03 0.038 0.010 alpha-tocopherol 0.4 0.15 0.35 0.30 0.13 Idebenone 1.5 1 1 1.2 0.3 Trolox 9 9 8 8.7 0.6

(143) The following table summarizes the EC50 for certain compounds of the invention. Compounds Nos. 1-5, 14, 16, and 18 (as numbered in the Table below) were purchased from Sigma.

(144) TABLE-US-00003 Compound Ec50 [micromolar] No. Compound Average Stdev 1 01 0.001 0.0002 2 02 0.002 0.002 3 03 0.001 0.00004 4 04 0.084 0.010 5 05 0.0008 0.0001 6 06 0.002 0.0001 7 07 0.002 0.0001 8 08 0.003 0.0003 9 09 0.004 0.001 10 0 0.005 0.001 11 0.005 0.001 12 0.006 0.002 13 0.012 0.001 14 0.016 0.001 15 0.017 0.0004 17 0.023 0.001 19 0.025 0.001 20 0.026 0.003 21 0.050 0.002 22 0 0.054 0.001 23 0.234 0.045

Example 2

Screening Compounds of the Invention in Fibroblasts from Huntington's Patients

(145) Compounds of the invention are tested using a screen similar to the one described in Example 1, but substituting FRDA cells with Huntington's cells obtained from the Coriell Cell Repositories (Camden, N.J.; repository number GM 04281). The compounds are tested for their ability to rescue human dermal fibroblasts from Huntington's patients from oxidative stress.

Example 3

Screening Compounds of the Invention in Fibroblasts from Leber's Hereditary Optic Neuropathy Patients

(146) Compounds of the invention are tested using a screen similar to the one described in Example 1, but substituting FRDA cells with Leber's Hereditary Optic Neuropathy (LHON) cells obtained from the Coriell Cell Repositories (Camden, N.J.; repository number GM03858). The compounds are tested for their ability to rescue human dermal fibroblasts from LHON patients from oxidative stress.

Example 4

Screening Compounds of the Invention in Fibroblasts from Parkinson's Disease Patients

(147) Compounds of the invention are tested using a screen similar to the one described in Example 1, but substituting FRDA cells with Parkinson's Disease (PD) cells obtained from the Coriell Cell Repositories (Camden, N.J.; repository number AG20439). The compounds are tested for their ability to rescue human dermal fibroblasts from Parkinson's Disease patients from oxidative stress.

Example 5

Screening Compounds of the Invention in Fibroblasts from CoQ10 Deficient Patients

(148) Compounds of the invention are tested using a screen similar to the one described in Example 1, but substituting FRDA cells with cells obtained from CoQ10 deficient patients harboring a CoQ2 mutation. The compounds are tested for their ability to rescue human dermal fibroblasts from CoQ10 deficient patients from oxidative stress.

Example 6

Screening Compounds of the Invention in Fibroblasts from Patients

(149) Compounds of the invention are tested using a screen similar to the one described in Example 1, but substituting FRDA cells with cells obtained from patients having an oxidative stress disorder described herein (e.g. MERRF, MELAS, Leigh Disease, KSS, Alzheimer's disease, ALS, a pervasive development disorder (such as autism, Rett's), stroke). The compounds are tested for their ability to rescue human dermal fibroblasts from these patients from oxidative stress.

Example 7

Administration of Compounds of the Invention

(150) A compound of the invention is presented in a capsule containing 300 mg of compound in a pharmaceutically acceptable carrier. A capsule is taken orally, once a day, preferably during breakfast or lunch. In case of very young children, the capsule is broken and its contents mixed with food.

(151) The disclosures of all publications, patents, patent applications and published patent applications referred to herein by an identifying citation are hereby incorporated herein by reference in their entirety.

(152) Although the foregoing invention has been described in some detail by way of illustration and example for purposes of clarity of understanding, it is apparent to those skilled in the art that certain minor changes and modifications will be practiced. Therefore, the description and examples should not be construed as limiting the scope of the invention.

(153) Non limiting embodiments of the invention include the following:

(154) 1. A compound of formula (I):

(155) ##STR00122##
wherein: R.sub.1 and R.sub.2 are independently selected from the group consisting of: H, C.sub.1-C.sub.4 alkyl, OC.sub.1-C.sub.4 alkyl, and C.sub.1-C.sub.4 haloalkyl, and R.sub.3 is selected from the group consisting of: H, C.sub.1-C.sub.12 alkyl, OC.sub.1-C.sub.12 alkyl, and C.sub.1-C.sub.12 haloalkyl; or R.sub.1 and R.sub.2 are both CH.sub.3 or R.sub.1 and R.sub.2 are both OCH.sub.3, and R.sub.3 is selected from the group consisting of:

(156) ##STR00123##
n is 0, 1, 2, 3, or 4;
R.sub.4, R.sub.5, R.sub.6, and R.sub.7 are independently selected from the group consisting of: H, OH, C.sub.1-C.sub.12 alkyl, C.sub.2-C.sub.12 alkenyl, C.sub.1-C.sub.12 haloalkyl, OC.sub.1-C.sub.12 alkyl, OC(O)C.sub.1-C.sub.12 alkyl, OC.sub.1-C.sub.12 haloalkyl, C.sub.6-C.sub.10 aryl, OC.sub.6-C.sub.10 aryl, C.sub.1-C.sub.6 alkyl-C.sub.6-C.sub.10 aryl, OC.sub.1-C.sub.6 alkyl-C.sub.6-C.sub.10 aryl, N(R.sub.8)(R.sub.9), C(O)N(R.sub.13)(R.sub.14), C(O)OC.sub.1-C.sub.12 alkyl, S(O).sub.2C.sub.1-C.sub.12 alkyl,

(157) ##STR00124##
with the proviso that at least two of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 are independently selected from the group consisting of: H and CH.sub.3;

(158) R.sub.8 and R.sub.9 are independently H or C.sub.1-C.sub.12 alkyl;

(159) R.sub.13 is H or C.sub.1-C.sub.4 alkyl;

(160) R.sub.14 is C.sub.1-C.sub.12 alkyl optionally substituted with hydroxy, OC.sub.1-C.sub.4, heterocyclyl, aryl, or heteroaryl, or wherein R.sub.14 is C.sub.1-C.sub.15 alkyl wherein two or more of the carbons in the alkyl group have been replaced by oxygen; and

(161) m is 0, 1, 2, or 3;

(162) or a stereoisomer, mixture of stereoisomers, solvate, hydrate, or pharmaceutically acceptable salt thereof;

(163) with the proviso that the compound is not:

(164) ##STR00125##
wherein R.sub.10 is H, OH, OC(O)-alkyl, OC(O)-aryl, or

(165) ##STR00126##
or a stereoisomer, mixture of stereoisomers, solvate, hydrate, or pharmaceutically acceptable salt thereof.

(166) 2. The compound of embodiment 1, wherein R.sub.4, R.sub.5, R.sub.6, and R.sub.7 are independently selected from the group consisting of: H, C.sub.1-C.sub.12 alkyl, C.sub.2-C.sub.12 alkenyl, haloalkyl, C.sub.1-C.sub.12 alkyl, OC.sub.1-C.sub.12 haloalkyl, C.sub.6-C.sub.10 aryl, OC.sub.6-C.sub.10 aryl, C.sub.1-C.sub.6 alkyl-C.sub.6-C.sub.10 aryl, OC.sub.1-C.sub.6 alkyl-C.sub.6-C.sub.10 aryl, N(R.sub.8)(R.sub.9),

(167) ##STR00127##
with the proviso that at least two of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 are independently selected from the group consisting of: H and CH.sub.3.

(168) 3. The compound of any one of embodiments 1-2, wherein one of R.sub.1, R.sub.2, and R.sub.3 is not H.

(169) 4. The compound of any one of embodiments 1-2, wherein two of R.sub.1, R.sub.2, and R.sub.3 are not H.

(170) 5. The compound of any one of embodiments 1-2, wherein R.sub.1, R.sub.2, and R.sub.3 are not H.

(171) 6. The compound of any one of embodiments 1-2, wherein one of R.sub.1, R.sub.2, and R.sub.3 is CH.sub.3.

(172) 7. The compound of any one of embodiments 1-2, wherein two of R.sub.1, R.sub.2, and R.sub.3 are CH.sub.3.

(173) 8. The compound of any one of embodiments 1-2, wherein R.sub.1, R.sub.2, and R.sub.3 are CH.sub.3.

(174) 9. The compound of any one of embodiments 1-2, wherein two of R.sub.1, R.sub.2, and R.sub.3 are CH.sub.3 and one of R.sub.1, R.sub.2, and R.sub.3 is H.

(175) 10. The compound of any one of embodiments 1-2, wherein R.sub.1 and R.sub.3 are CH.sub.3, and R.sub.2 is H.

(176) 11. The compound of any one of embodiments 1-2, wherein R.sub.1 and R.sub.2 are CH.sub.3.

(177) 12. The compound of any one of embodiments 1-2, wherein R.sub.1 and R.sub.2 are OCH.sub.3.

(178) 13. The compound of any one of embodiments 1-2, wherein R.sub.1 and R.sub.2 are OCH.sub.3, and R.sub.3 is CH.sub.3.

(179) 14. The compound of any one of embodiments 1-2, wherein R.sub.1 and R.sub.2 are CH.sub.3, and wherein R.sub.3 is -n-C.sub.1-C.sub.12 alkyl.

(180) 15. The compound of any one of embodiments 1-2, wherein R.sub.1 and R.sub.2 are OCH.sub.3, and wherein R.sub.3 is -n-C.sub.1-C.sub.12 alkyl.

(181) 16. The compound of any one of embodiments 1-2, wherein R.sub.1 and R.sub.2 are CH.sub.3, and wherein R.sub.3 is selected from the group consisting of:

(182) ##STR00128##

(183) 17. The compound of any one of embodiments 1-2, wherein R.sub.1 and R.sub.2 are CH.sub.3, and wherein R.sub.3 is

(184) ##STR00129##

(185) 18. The compound of embodiment 17, wherein n is 2.

(186) 19. The compound of any one of embodiments 1-2, wherein R.sub.1 and R.sub.2 are CH.sub.3, and wherein R.sub.3 is

(187) ##STR00130##

(188) 20. The compound of embodiment 19, wherein n is 2.

(189) 21. The compound of any one of embodiments 1-2, wherein R.sub.1 and R.sub.2 are CH.sub.3, and wherein R.sub.3 is

(190) ##STR00131##

(191) 22. The compound of embodiment 21, wherein n is 1.

(192) 23. The compound of embodiment 21, wherein n is 2.

(193) 24. The compound of any one of embodiments 1-2, wherein R.sub.1 and R.sub.2 are OCH.sub.3, and wherein R.sub.3 is selected from the group consisting of:

(194) ##STR00132##

(195) 25. The compound of any one of embodiments 1-2, wherein R.sub.1 and R.sub.2 are OCH.sub.3, and wherein R.sub.3 is

(196) ##STR00133##

(197) 26. The compound of embodiment 25, wherein n is 2.

(198) 27. The compound of any one of embodiments 1-2, wherein R.sub.1 and R.sub.2 are OCH.sub.3, and wherein R.sub.3 is

(199) ##STR00134##

(200) 28. The compound of embodiment 27, wherein n is 2.

(201) 29. The compound of any one of embodiments 1-2, wherein R.sub.1 and R.sub.2 are OCH.sub.3, and wherein R.sub.3 is

(202) ##STR00135##

(203) 30. The compound of embodiment 29, wherein n is 1.

(204) 31. The compound of embodiment 29, wherein n is 2.

(205) 32. The compound of any one of embodiments 1-2, wherein R.sub.1 and R.sub.2 are independently H or C.sub.1-C.sub.4 alkyl.

(206) 33. The compound of any one of embodiments 1-2, wherein R.sub.1, R.sub.2, and R.sub.3 are H.

(207) 34. The compound of any one of embodiments 1-33, wherein two of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 are H.

(208) 35. The compound of any one of embodiments 1-33, wherein three of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 are H.

(209) 36. The compound of any one of embodiments 1-33, wherein R.sub.4, R.sub.5, R.sub.6, and R.sub.7 are H.

(210) 37. The compound of any one of embodiments 1-33, wherein at least one of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 is independently selected from the group consisting of: C.sub.1-C.sub.12 alkyl, C.sub.1-C.sub.12 haloalkyl, OC.sub.1-C.sub.12 alkyl, OC.sub.1-C.sub.6 alkyl-C.sub.6-C.sub.10 aryl, N(R.sub.8)(R.sub.9), and

(211) ##STR00136##

(212) 38. The compound of any one of embodiments 1-33, wherein at least one of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 is independently selected from the group consisting of: C.sub.1-C.sub.6 alkyl, OC.sub.1-C.sub.6 alkyl, N(R.sub.8)(R.sub.9) wherein R.sub.8 and R.sub.9 are independently H or C.sub.1-C.sub.4 alkyl, CF.sub.3, O-benzyl, and

(213) ##STR00137##
wherein m is 1 or 2.

(214) 39. The compound of any one of embodiments 1-33, wherein three of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 are H, and the other is N(CH.sub.3).sub.2.

(215) 40. The compound of any one of embodiments 1-33, wherein three of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 are H, and the other is O-benzyl.

(216) 41. The compound of any one of embodiments 1-33, wherein three of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 are H, and the other is OCH.sub.3.

(217) 42. The compound of any one of embodiments 1-33, wherein three of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 are H, and the other is O-n-C.sub.2-C.sub.5 alkyl.

(218) 43. The compound of any one of embodiments 1-33, wherein three of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 are H, and the other is CF.sub.3.

(219) 44. The compound of any one of embodiments 1-33, wherein three of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 are H, and the other is

(220) ##STR00138##
wherein m is 1 or 2.

(221) 45. The compound of any one of embodiments 1-33, wherein three of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 are H, and the other is CH.sub.3.

(222) 46. The compound of any one of embodiments 1-35, wherein at least one of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 is selected from the group consisting of: OH, OC(O)C.sub.1-C.sub.12 alkyl, C(O)N(R.sub.13)(R.sub.14), C(O)OC.sub.1-C.sub.12 alkyl, S(O).sub.2C.sub.1-C.sub.12 alkyl, and

(223) ##STR00139##

(224) 47. The compound of any one of embodiments 1-35, wherein at least one of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 is OH.

(225) 48. The compound of any one of embodiments 1-35, wherein one of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 is OC(O)C.sub.1-C.sub.12 alkyl, C(O)OC.sub.1-C.sub.12 alkyl, or S(O).sub.2C.sub.1-C.sub.12 alkyl.

(226) 49. The compound of any one of embodiments 1-35, wherein one of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 is C(O)N(R.sub.13)(R.sub.14).

(227) 50. The compound of any one of embodiments 1-35, wherein at least one of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 is C.sub.1-C.sub.12 haloalkyl.

(228) 51. The compound of any one of embodiments 1-35, wherein at least one of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 is C.sub.1-C.sub.12 alkyl.

(229) 52. The compound of any one of embodiments 1-35, wherein one of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 is

(230) ##STR00140##

(231) 53. The compound of any one of embodiments 1-35, wherein at least one of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 is OC.sub.1-C.sub.12 alkyl.

(232) 54. The compound of embodiment 1, wherein the compound has the formula:

(233) ##STR00141##
wherein R.sub.11 is selected from the group consisting of: C.sub.1-C.sub.6 alkyl, OC.sub.1-C.sub.6 alkyl, N(CH.sub.3).sub.2, CF.sub.3, O-benzyl, and

(234) ##STR00142##
wherein m is 1 or 2, or a stereoisomer, mixture of stereoisomers, solvate, hydrate, or pharmaceutically acceptable salt thereof.

(235) 55. The compound of embodiment 1, wherein the compound has the formula:

(236) ##STR00143##
wherein R.sub.11 is selected from the group consisting of: C.sub.1-C.sub.6 alkyl, OC.sub.1-C.sub.6 alkyl, N(CH.sub.3).sub.2, CF.sub.3, O-benzyl, and

(237) ##STR00144##
wherein m is 1 or 2, or a stereoisomer, mixture of stereoisomers, solvate, hydrate, or pharmaceutically acceptable salt thereof.

(238) 56. The compound of embodiment 1, wherein the compound has the formula:

(239) ##STR00145##
wherein R.sub.11 is selected from the group consisting of: C.sub.1-C.sub.6 alkyl, OC.sub.1-C.sub.6 alkyl, N(CH.sub.3).sub.2, CF.sub.3, O-benzyl, and

(240) ##STR00146##
wherein m is 1 or 2, or a stereoisomer, mixture of stereoisomers, solvate, hydrate, or pharmaceutically acceptable salt thereof.

(241) 57. The compound of embodiment 1, wherein the compound has the formula:

(242) ##STR00147##
wherein R.sub.1 and R.sub.2 are CH.sub.3, or R.sub.1 and R.sub.2 are OCH.sub.3,
wherein R.sub.3 is:

(243) ##STR00148##
wherein n is 1 or 2, and wherein R.sub.11 is a group as defined for R.sub.4, R.sub.5, R.sub.6, or R.sub.7, or a stereoisomer, mixture of stereoisomers, solvate, hydrate, or pharmaceutically acceptable salt thereof.

(244) 58. The compound of embodiment 1, wherein the compound is selected from the group consisting of:

(245) ##STR00149##
or a stereoisomer, mixture of stereoisomers, solvate, hydrate, or pharmaceutically acceptable salt thereof.

(246) 59. The compound of embodiment 1, wherein the compound is selected from the group consisting of:

(247) ##STR00150##
or a stereoisomer, mixture of stereoisomers, solvate, hydrate, or pharmaceutically acceptable salt thereof.

(248) 60. The compound of embodiment 1, wherein the compound is selected from the group consisting of:

(249) ##STR00151##
or a stereoisomer, mixture of stereoisomers, solvate, hydrate, or pharmaceutically acceptable salt thereof.

(250) 61. The compound of embodiment 1, wherein the compound is selected from the group consisting of:

(251) ##STR00152##
or a stereoisomer, mixture of stereoisomers, solvate, hydrate, or pharmaceutically acceptable salt thereof.

(252) 62. The compound of embodiment 1, wherein the compound is selected from the group consisting of:

(253) ##STR00153## ##STR00154##
or a stereoisomer, mixture of stereoisomers, solvate, hydrate, or pharmaceutically acceptable salt thereof.

(254) 63. The compound of embodiment 1, wherein the compound is selected from the group consisting of:

(255) ##STR00155##
or a stereoisomer, mixture of stereoisomers, solvate, hydrate, or pharmaceutically acceptable salt thereof.

(256) 64. The compound of embodiment 1, wherein the compound is selected from the group consisting of:

(257) ##STR00156##
or a stereoisomer, mixture of stereoisomers, solvate, hydrate, or pharmaceutically acceptable salt thereof.

(258) 65. The compound of any one of embodiments 1-64, wherein the compound has an EC50 of less than about 1 micromolar as measured by an assay described in any one of Examples 1-6.

(259) 66. A pharmaceutical formulation comprising a compound according to any one of embodiments 1-65 and a pharmaceutically acceptable excipient.

(260) 67. A method of treating or suppressing an oxidative stress disorder, modulating one or more energy biomarkers, normalizing one or more energy biomarkers, or enhancing one or more energy biomarkers, comprising administering to a subject a therapeutically effective amount or effective amount of a compound of formula (I):

(261) ##STR00157##
wherein: R.sub.1 and R.sub.2 are independently selected from the group consisting of: H, C.sub.1-C.sub.4 alkyl, OC.sub.1-C.sub.4 alkyl, and C.sub.1-C.sub.4 haloalkyl, and R.sub.3 is selected from the group consisting of: H, C.sub.1-C.sub.12 alkyl, OC.sub.1-C.sub.12 alkyl, and C.sub.1-C.sub.12 haloalkyl; or R.sub.1 and R.sub.2 are both CH.sub.3 or R.sub.1 and R.sub.2 are both OCH.sub.3, and R.sub.3 is selected from the group consisting of:

(262) ##STR00158##
n is 0, 1, 2, 3, or 4; R.sub.4, R.sub.5, R.sub.6, and R.sub.7 are independently selected from the group consisting of: H, OH, C.sub.1-C.sub.12 alkyl, C.sub.2-C.sub.12 alkenyl, C.sub.1-C.sub.12 haloalkyl, OC.sub.1-C.sub.12 alkyl, OC(O)C.sub.1-C.sub.12 alkyl, OC.sub.1-C.sub.12 haloalkyl, C.sub.6-C.sub.10 aryl, OC.sub.6-C.sub.10 aryl, C.sub.1-C.sub.6 alkyl-C.sub.6-C.sub.10 aryl, OC.sub.1-C.sub.6 alkyl-C.sub.6-C.sub.10 aryl, N(R.sub.8)(R.sub.9), C(O)N(R.sub.13)(R.sub.14), C(O)OC.sub.1-C.sub.12 alkyl, S(O).sub.2C.sub.1-C.sub.12 alkyl,

(263) ##STR00159##
with the proviso that at least two of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 are independently selected from the group consisting of: H and CH.sub.3; R.sub.8 and R.sub.9 are independently H or C.sub.1-C.sub.12 alkyl; R.sub.13 is H or C.sub.1-C.sub.4 alkyl; R.sub.14 is C.sub.1-C.sub.12 alkyl optionally substituted with hydroxy, OC.sub.1-C.sub.4, heterocyclyl, aryl, or heteroaryl, or wherein R.sub.14 is C.sub.1-C.sub.15 alkyl wherein two or more of the carbons in the alkyl group have been replaced by oxygen; and m is 0, 1, 2, or 3;
or a stereoisomer, mixture of stereoisomers, solvate, hydrate, or pharmaceutically acceptable salt thereof.

(264) 68. The method of embodiment 67, wherein R.sub.4, R.sub.5, R.sub.6, and R.sub.7 are independently selected from the group consisting of: H, C.sub.1-C.sub.12 alkyl, C.sub.2-C.sub.12 alkenyl, C.sub.1-C.sub.12 haloalkyl, OC.sub.1-C.sub.12 alkyl, OC.sub.1-C.sub.12 haloalkyl, C.sub.6-C.sub.10 aryl, OC.sub.6-C.sub.10 aryl, C.sub.1-C.sub.6 alkyl-C.sub.6-C.sub.10 aryl, OC.sub.1-C.sub.6 alkyl-C.sub.6-C.sub.10 aryl, N(R.sub.8)(R.sub.9),

(265) ##STR00160##
with the proviso that at least two of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 are independently selected from the group consisting of: H and CH.sub.3.

(266) 69. The method of any one of embodiments 67-68, wherein one of R.sub.1, R.sub.2, and R.sub.3 is not H.

(267) 70. The method of any one of embodiments 67-68, wherein two of R.sub.1, R.sub.2, and R.sub.3 are not H.

(268) 71. The method of any one of embodiments 67-68, wherein R.sub.1, R.sub.2, and R.sub.3 are not H.

(269) 72. The method of any one of embodiments 67-68, wherein one of R.sub.1, R.sub.2, and R.sub.3 is CH.sub.3.

(270) 73. The method of any one of embodiments 67-68, wherein two of R.sub.1, R.sub.2, and R.sub.3 are CH.sub.3.

(271) 74. The method of any one of embodiments 67-68, wherein R.sub.1, R.sub.2, and R.sub.3 are CH.sub.3.

(272) 75. The method of any one of embodiments 67-68, wherein two of R.sub.1, R.sub.2, and R.sub.3 are CH.sub.3 and one of R.sub.1, R.sub.2, and R.sub.3 is H.

(273) 76. The method of any one of embodiments 67-68, wherein R.sub.1 and R.sub.3 are CH.sub.3, and R.sub.2 is H.

(274) 77. The method of any one of embodiments 67-68, wherein R.sub.1 and R.sub.2 are CH.sub.3.

(275) 78. The method of any one of embodiments 67-68, wherein R.sub.1 and R.sub.2 are OCH.sub.3.

(276) 79. The method of any one of embodiments 67-68, wherein R.sub.1 and R.sub.2 are OCH.sub.3, and R.sub.3 is CH.sub.3.

(277) 80. The method of any one of embodiments 67-68, wherein R.sub.1 and R.sub.2 are CH.sub.3, and wherein R.sub.3 is -n-C.sub.1-C.sub.12 alkyl.

(278) 81. The method of any one of embodiments 67-68, wherein R.sub.1 and R.sub.2 are OCH.sub.3, and wherein R.sub.3 is -n-C.sub.1-C.sub.12 alkyl.

(279) 82. The method of any one of embodiments 67-68, wherein R.sub.1 and R.sub.2 are CH.sub.3, and wherein R.sub.3 is selected from the group consisting of:

(280) ##STR00161##

(281) 83. The method of any one of embodiments 67-68, wherein R.sub.1 and R.sub.2 are CH.sub.3, and wherein R.sub.3 is

(282) ##STR00162##

(283) 84. The method of embodiment 83, wherein n is 2.

(284) 85. The method of any one of embodiments 67-68, wherein R.sub.1 and R.sub.2 are CH.sub.3, and wherein R.sub.3 is

(285) ##STR00163##

(286) 86. The method of embodiment 85, wherein n is 2.

(287) 87. The method of any one of embodiments 67-68, wherein R.sub.1 and R.sub.2 are CH.sub.3, and wherein R.sub.3 is

(288) ##STR00164##

(289) 88. The method of embodiment 87, wherein n is 1.

(290) 89. The method of embodiment 87, wherein n is 2.

(291) 90. The method of any one of embodiments 67-68, wherein R.sub.1 and R.sub.2 are OCH.sub.3, and wherein R.sub.3 is selected from the group consisting of:

(292) ##STR00165##

(293) 91. The method of any one of embodiments 67-68, wherein R.sub.1 and R.sub.2 are OCH.sub.3, and wherein R.sub.3 is

(294) ##STR00166##

(295) 92. The method of embodiment 91, wherein n is 2.

(296) 93. The method of any one of embodiments 67-68, wherein R.sub.1 and R.sub.2 are OCH.sub.3, and wherein R.sub.3 is

(297) ##STR00167##

(298) 94. The method of embodiment 93, wherein n is 2.

(299) 95. The method of any one of embodiments 67-68, wherein R.sub.1 and R.sub.2 are OCH.sub.3, and wherein R.sub.3 is

(300) ##STR00168##

(301) 96. The method of embodiment 95, wherein n is 1.

(302) 97. The method of embodiment 95, wherein n is 2.

(303) 98. The method of any one of embodiments 67-68, wherein R.sub.1 and R.sub.2 are independently H or C.sub.1-C.sub.4 alkyl.

(304) 99. The method of any one of embodiments 67-68, wherein R.sub.1, R.sub.2, and R.sub.3 are H.

(305) 100. The method of any one of embodiments 67-99, wherein two of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 are H.

(306) 101. The method of any one of embodiments 67-99, wherein three of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 are H.

(307) 102. The method of any one of embodiments 67-99, wherein R.sub.4, R.sub.5, R.sub.6, and R.sub.7 are H.

(308) 103. The method of any one of embodiments 67-99, wherein at least one of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 is independently selected from the group consisting of: C.sub.1-C.sub.12 alkyl, C.sub.1-C.sub.12 haloalkyl, OC.sub.1-C.sub.12 alkyl, OC.sub.1-C.sub.12 alkyl-C.sub.6-C.sub.10 aryl, N(R.sub.8)(R.sub.9), and

(309) ##STR00169##

(310) 104. The method of any one of embodiments 67-99, wherein at least one of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 is independently selected from the group consisting of: C.sub.1-C.sub.6 alkyl, OC.sub.1-C.sub.6 alkyl, N(R.sub.8)(R.sub.9) wherein R.sub.8 and R.sub.9 are independently H or C.sub.1-C.sub.4 alkyl, CF.sub.3, O-benzyl, and

(311) ##STR00170##
wherein m is 1 or 2.

(312) 105. The method of any one of embodiments 67-99, wherein three of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 are H, and the other is N(CH.sub.3).sub.2.

(313) 106. The method of any one of embodiments 67-99, wherein three of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 are H, and the other is O-benzyl.

(314) 107. The method of any one of embodiments 67-99, wherein three of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 are H, and the other is OCH.sub.3.

(315) 108. The method of any one of embodiments 67-99, wherein three of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 are H, and the other is O-n-C.sub.2-C.sub.5 alkyl.

(316) 109. The method of any one of embodiments 67-99, wherein three of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 are H, and the other is CF.sub.3.

(317) 110. The method of any one of embodiments 67-99, wherein three of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 are H, and the other is

(318) ##STR00171##
wherein m is 1 or 2.

(319) 111. The method of any one of embodiments 67-99, wherein three of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 are H, and the other is CH.sub.3.

(320) 112. The method of any one of embodiments 67-101, wherein at least one of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 is selected from the group consisting of: OH, OC(O)C.sub.1-C.sub.12 alkyl, C(O)N(R.sub.13)(R.sub.14), C(O)OC.sub.1-C.sub.12 alkyl, S(O).sub.2C.sub.1-C.sub.12 alkyl, and

(321) ##STR00172##

(322) 113. The method of any one of embodiments 67-101, wherein at least one of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 is OH.

(323) 114. The method of any one of embodiments 67-101, wherein one of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 is OC(O)C.sub.1-C.sub.12 alkyl, C(O)OC.sub.1-C.sub.12 alkyl, or S(O).sub.2C.sub.1-C.sub.12 alkyl.

(324) 115. The method of any one of embodiments 67-101, wherein one of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 is C(O)N(R.sub.13)(R.sub.14).

(325) 116. The method of any one of embodiments 67-101, wherein at least one of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 is C.sub.1-C.sub.12 haloalkyl.

(326) 117. The method of any one of embodiments 67-101, wherein at least one of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 is C.sub.1-C.sub.12 alkyl.

(327) 118. The method of any one of embodiments 67-101, wherein one of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 is

(328) ##STR00173##

(329) 119. The method of any one of embodiments 67-101, wherein at least one of R.sub.4, R.sub.5, R.sub.6, and R.sub.7 is OC.sub.1-C.sub.12 alkyl.

(330) 120. The method of embodiment 67, wherein the compound has the formula:

(331) ##STR00174##
wherein R.sub.11 is selected from the group consisting of: C.sub.1-C.sub.6 alkyl, OC.sub.1-C.sub.6 alkyl, N(CH.sub.3).sub.2, CF.sub.3, O-benzyl, and

(332) ##STR00175##
wherein m is 1 or 2, or a stereoisomer, mixture of stereoisomers, solvate, hydrate, or pharmaceutically acceptable salt thereof.

(333) 121. The method of embodiment 67, wherein the compound has the formula:

(334) ##STR00176##
wherein R.sub.11 is selected from the group consisting of: C.sub.1-C.sub.6 alkyl, OC.sub.1-C.sub.6 alkyl, N(CH.sub.3).sub.2, CF.sub.3, O-benzyl, and

(335) ##STR00177##
wherein m is 1 or 2, or a stereoisomer, mixture of stereoisomers, solvate, hydrate, or pharmaceutically acceptable salt thereof.

(336) 122. The method of embodiment 67, wherein the compound has the formula:

(337) ##STR00178##
wherein R.sub.11 is selected from the group consisting of: C.sub.1-C.sub.6 alkyl, OC.sub.1-C.sub.6 alkyl, N(CH.sub.3).sub.2, CF.sub.3, O-benzyl, and

(338) ##STR00179##
wherein m is 1 or 2, or a stereoisomer, mixture of stereoisomers, solvate, hydrate, or pharmaceutically acceptable salt thereof.

(339) 123. The method of embodiment 67, wherein the compound has the formula:

(340) ##STR00180##
wherein R.sub.1 and R.sub.2 are CH.sub.3, or R.sub.1 and R.sub.2 are OCH.sub.3, wherein R.sub.3 is:

(341) ##STR00181##
wherein n is 1 or 2, and wherein R.sub.11 is a group as defined for R.sub.4, R.sub.5, R.sub.6, or R.sub.7, or a stereoisomer, mixture of stereoisomers, solvate, hydrate, or pharmaceutically acceptable salt thereof.

(342) 124. The method of any one of embodiments 57-119, wherein the compound is not:

(343) ##STR00182##
wherein R.sub.10 is H, OH, O-alkyl, O-benzyl, OC(O)-alkyl, OC(O)-aryl, or

(344) ##STR00183##
or a stereoisomer, mixture of stereoisomers, solvate, hydrate, or pharmaceutically acceptable salt thereof.

(345) 125. The method of embodiment 67, wherein the compound is selected from the group consisting of:

(346) ##STR00184##
or a stereoisomer, mixture of stereoisomers, solvate, hydrate, or pharmaceutically acceptable salt thereof.

(347) 126. The method of embodiment 67, wherein the compound is selected from the group consisting of:

(348) ##STR00185##
or a stereoisomer, mixture of stereoisomers, solvate, hydrate, or pharmaceutically acceptable salt thereof.

(349) 127. The method of embodiment 67, wherein the compound is selected from the group consisting of:

(350) ##STR00186##
or a stereoisomer, mixture of stereoisomers, solvate, hydrate, or pharmaceutically acceptable salt thereof.

(351) 128. The method of embodiment 67, wherein the compound is selected from the group consisting of:

(352) ##STR00187##
or a stereoisomer, mixture of stereoisomers, solvate, hydrate, or pharmaceutically acceptable salt thereof.

(353) 129. The method of embodiment 67, wherein the compound is selected from the group consisting of:

(354) ##STR00188##
or a stereoisomer, mixture of stereoisomers, solvate, hydrate, or pharmaceutically acceptable salt thereof.

(355) 130. The method of embodiment 67, wherein the compound is selected from the group consisting of:

(356) ##STR00189##
or a stereoisomer, mixture of stereoisomers, solvate, hydrate, or pharmaceutically acceptable salt thereof.

(357) 131. The method of embodiment 67, wherein the compound is selected from the group consisting of:

(358) ##STR00190## ##STR00191##
or a stereoisomer, mixture of stereoisomers, solvate, hydrate, or pharmaceutically acceptable salt thereof.

(359) 132. The method of embodiment 67, wherein the compound is selected from the group consisting of:

(360) ##STR00192##
or a stereoisomer, mixture of stereoisomers, solvate, hydrate, or pharmaceutically acceptable salt thereof.

(361) 133. The method of embodiment 67, wherein the compound is selected from the group consisting of:

(362) ##STR00193##
or a stereoisomer, mixture of stereoisomers, solvate, hydrate, or pharmaceutically acceptable salt thereof.

(363) 134. The method of any one of embodiments 67-133, wherein the compound is administered as a pharmaceutical formulation comprising the compound and a pharmaceutically acceptable excipient.

(364) 135. The method of any one of embodiments 67-134, wherein the method is a method of treating an oxidative stress disorder selected from the group consisting of: a mitochondrial disorder; an inherited mitochondrial disease; Alpers Disease; Barth syndrome; a Beta-oxidation Defect; Carnitine-Acyl-Carnitine Deficiency; Carnitine Deficiency; a Creatine Deficiency Syndrome; Co-Enzyme Q10 Deficiency; Complex I Deficiency; Complex II Deficiency; Complex III Deficiency; Complex IV Deficiency; Complex V Deficiency; COX Deficiency; chronic progressive external ophthalmoplegia (CPEO); CPT I Deficiency; CPT II Deficiency; Friedreich's Ataxia (FA); Glutaric Aciduria Type II; Kearns-Sayre Syndrome (KSS); Lactic Acidosis; Long-Chain Acyl-CoA Dehydrongenase Deficiency (LCAD); LCHAD; Leigh Disease; Leigh-like Syndrome; Leber's Hereditary Optic Neuropathy (LHON); Lethal Infantile Cardiomyopathy (LIC); Luft Disease; Multiple Acyl-CoA Dehydrogenase Deficiency (MAD); Medium-Chain Acyl-CoA Dehydrongenase Deficiency (MCAD); Mitochondrial Myopathy, Encephalopathy, Lactacidosis, Stroke (MELAS); Myoclonic Epilepsy with Ragged Red Fibers (MERRF); Mitochondrial Recessive Ataxia Syndrome (MIRAS); Mitochondrial Cytopathy, Mitochondrial DNA Depletion; Mitochondrial Encephalopathy; Mitochondrial Myopathy; Myoneurogastointestinal Disorder and Encephalopathy (MNGIE); Neuropathy, Ataxia, and Retinitis Pigmentosa (NARP); Pearson Syndrome; Pyruvate Carboxylase Deficiency; Pyruvate Dehydrogenase Deficiency; a POLG Mutation; a Respiratory Chain Disorder; Short-Chain Acyl-CoA Dehydrogenase Deficiency (SCAD); SCHAD; Very Long-Chain Acyl-CoA Dehydrongenase Deficiency (VLCAD); a myopathy; cardiomyopathy; encephalomyopathy; a neurodegenerative disease; Parkinson's disease; Alzheimer's disease; amyotrophic lateral sclerosis (ALS); a motor neuron disease; a neurological disease; epilepsy; an age-associated disease; macular degeneration; diabetes; metabolic syndrome; cancer; brain cancer; a genetic disease; Huntington's Disease; a mood disorder; schizophrenia; bipolar disorder; a pervasive developmental disorder; autistic disorder; Asperger's syndrome; childhood disintegrative disorder (CDD); Rett's disorder; PDD-not otherwise specified (PDD-NOS); a cerebrovascular accident; stroke; a vision impairment; optic neuropathy; dominant inherited juvenile optic atrophy; optic neuropathy caused by a toxic agent; glaucoma; Stargardt's macular dystrophy; diabetic retinopathy; diabetic maculopathy; retinopathy of prematurity; ischemic reperfusion-related retinal injury; oxygen poisoning; a haemoglobionopathy; thalassemia; sickle cell anemia; seizures; ischemia; renal tubular acidosis; attention deficit/hyperactivity disorder (ADHD); a neurodegenerative disorder resulting in hearing or balance impairment; Dominant Optic Atrophy (DOA); Maternally inherited diabetes and deafness (MIDD); chronic fatigue; contrast-induced kidney damage; contrast-induced retinopathy damage; Abetalipoproteinemia; retinitis pigmentosum; Wolfram's disease; Tourette syndrome; cobalamin c defect; methylmalonic aciduria; glioblastoma; Down's syndrome; acute tubular necrosis; a muscular dystrophy; a leukodystrophy; Progressive Supranuclear Palsy; spinal muscular atrophy; hearing loss; noise induced hearing loss; traumatic brain injury; Juvenile Huntington's Disease; Multiple Sclerosis; NGLY1; Multisystem atrophy; Adrenoleukodystrophy; and Adrenomyeloneuropathy.

(365) 136. The method of embodiment 135, wherein the oxidative stress disorder is a mitochondrial disorder.

(366) 137. The method of embodiment 135, wherein the oxidative stress disorder is an inherited mitochondrial disease.

(367) 138. The method of embodiment 135, wherein the oxidative stress disorder is Friedreich's Ataxia (FA).

(368) 139. The method of embodiment 135, wherein the oxidative stress disorder is Kearns-Sayre Syndrome (KSS).

(369) 140. The method of embodiment 135, wherein the oxidative stress disorder is Leigh Disease or Leigh-like Syndrome.

(370) 141. The method of embodiment 135, wherein the oxidative stress disorder is Leber's Hereditary Optic Neuropathy (LHON).

(371) 142. The method of embodiment 135, wherein the oxidative stress disorder is Mitochondrial Myopathy, Encephalopathy, Lactacidosis, Stroke (MELAS).

(372) 143. The method of embodiment 135, wherein the oxidative stress disorder is Myoclonic Epilepsy with Ragged Red Fibers (MERRF).

(373) 144. The method of embodiment 135, wherein the oxidative stress disorder is Parkinson's disease.

(374) 145. The method of embodiment 135, wherein the oxidative stress disorder is Alzheimer's disease.

(375) 146. The method of embodiment 135, wherein the oxidative stress disorder is amyotrophic lateral sclerosis (ALS).

(376) 147. The method of embodiment 135, wherein the oxidative stress disorder is epilepsy.

(377) 148. The method of embodiment 135, wherein the oxidative stress disorder is macular degeneration.

(378) 149. The method of embodiment 135, wherein the oxidative stress disorder is brain cancer.

(379) 150. The method of embodiment 135, wherein the oxidative stress disorder is Huntington's disease Disease.

(380) 151. The method of embodiment 135, wherein the oxidative stress disorder is autistic disorder.

(381) 152. The method of embodiment 135, wherein the oxidative stress disorder is Rett's disorder.

(382) 153. The method of embodiment 135, wherein the oxidative stress disorder is stroke.

(383) 154. The method of embodiment 135, wherein the oxidative stress disorder is Maternally inherited diabetes and deafness (MIDD).

(384) 155. The method of embodiment 135, wherein the oxidative stress disorder is chronic fatigue.

(385) 156. The method of embodiment 135, wherein the oxidative stress disorder is contrast-induced kidney damage.

(386) 157. The method of embodiment 135, wherein the oxidative stress disorder is contrast-induced retinopathy damage.

(387) 158. The method of embodiment 135, wherein the oxidative stress disorder is cobalamin c defect.

(388) 159. The method of any one of embodiments 67-134, wherein the method is a method for modulating one or more energy biomarkers, normalizing one or more energy biomarkers, or enhancing one or more energy biomarkers, wherein the one or more energy biomarkers are selected from the group consisting of: lactic acid (lactate) levels, either in whole blood, plasma, cerebrospinal fluid, or cerebral ventricular fluid; pyruvic acid (pyruvate) levels, either in whole blood, plasma, cerebrospinal fluid, or cerebral ventricular fluid; lactate/pyruvate ratios, either in whole blood, plasma, cerebrospinal fluid, or cerebral ventricular fluid; total, reduced or oxidized glutathione levels, or reduced/oxidized glutathione ratio either in whole blood, plasma, lymphocytes, cerebrospinal fluid, or cerebral ventricular fluid; total, reduced or oxidized cysteine levels, or reduced/oxidized cysteine ratio either in whole blood, plasma, lymphocytes, cerebrospinal fluid, or cerebral ventricular fluid; phosphocreatine levels, NADH (NADH+H+) levels; NADPH (NADPH+H+) levels; NAD levels; NADP levels; ATP levels; reduced coenzyme Q (CoQ.sub.red) 1 levels; oxidized coenzyme Q (CoQ.sub.ox) levels; total coenzyme Q (CoQ.sub.tot) levels; oxidized cytochrome C levels; reduced cytochrome C levels; oxidized cytochrome C/reduced cytochrome C ratio; acetoacetate levels, hydroxy butyrate levels, acetoacetate/ hydroxy butyrate ratio, 8-hydroxy-2-deoxyguanosine (8-OHdG) levels; levels of reactive oxygen species; levels of oxygen consumption (VO2); levels of carbon dioxide output (VCO2); respiratory quotient (VCO2/VO2); exercise tolerance; and anaerobic threshold.