# Patent

## Title
Neuroprotective chemicals and methods for identifying and using same

## Abstract

Provided herein are methods for identifying a compound having cell-protective (e.g., neuroprotective) activity. Compounds identified therefrom are also provided. These compounds can be used to treat various diseases, disorders, or conditions associated with, for example, unwanted cell death.

## Background
CROSS-REFERENCE TO RELATED APPLICATIONS
This application claims the benefit of and priority to U.S. Provisional Patent Application Nos. 61/902,680 filed Nov. 11, 2013; 61/912,625 filed Dec. 6, 2013; and 61/993,328 filed May 15, 2014, and is a continuation-in-part of PCT/US14/65058 filed Nov. 11, 2014, the entire disclosures of all of which applications are hereby incorporated by reference.


STATEMENT REGARDING FEDERALLY SPONSORED RESEARCH
This invention was made with government support under Grant No. 5-R01-MH087986 awarded by the National Institute of Mental Health; the Government has certain rights in the invention.


FIELD
This disclosure relates to methods for identifying and using cell-protective (e.g., neuroprotective) compounds.
BACKGROUND
It is now accepted that the adult vertebrate brain fosters the birth and functional incorporation of newly formed neurons (Goldman and Nottebohm, Proc Natl Acad Sci USA 1983, 80: 2390-2394; Paton and Nottebohm, Science 1984, 225, 1046-1048; Burd and Nottebohm, J Comp Neurol 1985, 240:143-152). However, it was long thought that no new neurons could be added to the adult mammalian brain. This dogma was challenged in the 1960's when autoradiographic evidence of new neuron formation in the hippocampal dentate gyrus, olfactory bulb, and cerebral cortex of the adult rat was presented (Altman, J. Science 1962, 135, 1127-1128; Altman, J. J Comp Neurol 1966, 128:431-474; Altman, Anat Rec 1963, 145:573-591; Altman and Das, J. Comp. Neurol. 1965, 124, 319-335; Altman and Das, J Comp Neurol 1966, 126:337-390). It is now accepted that within all mammalian species, including humans (Eriksson et al., Nat. Med. 1998, 4(11), 1313-1317), there are two major reservoirs of neuronal stem cells, one located in the subgranular zone (SGZ) of the hippocampal dentate gyrus and another in the subventricular zone (SVZ) (Gross, Natl. Rev. 2000, 1, 67-72). Neural stem cells in the SVZ facilitate formation of new neurons that migrate rostrally to populate the olfactory bulb, while neural stem cells in the SGZ produce neurons that integrate locally in the granular layer of the dentate gyrus, a region of the hippocampus that exhibits lifelong structural and functional plasticity.
The process of new neuron formation in the adult mouse brain can be influenced by environmental, chemical and genetic variables. As demonstrated by Gage and colleagues, neurogenesis in the adult mouse brain is enhanced when animals are exposed to an enriched environment (Kempermann et al., Nature 1997, 386, 493-495) or able to exercise voluntarily (van Praag et al., Nat. Neuro-sci. 1999, 2, 266-270). More recently, anti-depressant drugs have been shown to enhance levels of adult neurogenesis in animals, including humans (Schmidt et al., Behav Pharmacol. 2007 September; 18(5-6):391-418; Boldrini et al., Neuropsychopharmacology 2009, 34, 2376-2389). Among many genes reported to impact adult neurogenesis is the gene encoding neuronal PAS domain protein 3 (NPAS3), a central nervous system (CNS)-specific transcription factor that has been associated with schizophrenia and bipolar disorder (Kamnasaran et al., J. Med. Genet. 2003, 40, 325-332; Pickard et al., Am. J. Med. Genet. B. Neuropsychiatr. Genet. 2005, 136B, 26-32; Pickard et al., Ann. Med. 2006, 38, 439-448; Pickard et al., Mol. Psychiatry 2009, 14, 874-884; Lavedan et al., Pharmacogenomics 2008, 9: 289-301). Animals missing both copies of the NPAS3 gene suffer a profound loss of adult hippocampal neurogenesis coupled with significant behavioral deficits (Pieper et al., Proc. Natl. Acad. Sci. USA 2005, 102, 14052-14057). Knowing that impaired post-natal neurogenesis elicits unfavorable phenotypic deficits, it is predicted that pro-neurogenic chemical compounds should exhibit favorable therapeutic benefits for a variety of neuropsychiatric and neurodegenerative diseases.
Neurodegenerative diseases currently affect millions of people worldwide, and the incidence of disease is rapidly increasing as the aging population expands. The magnitude and trend of this problem places a growing human and financial strain on healthcare systems, which is exacerbated by the absence of effective treatments for many of the most common afflictions. Neurodegenerative diseases, such as amyotrophic lateral sclerosis (ALS) and Parkinson's disease (PD), traumatic brain injury (PDI) and normal age-related cognitive decline, feature, by definition, neuronal cell death. Thus, there remains a great need for small molecules that could prevent the death of neurons in a variety of in vivo contexts. Such neuroprotective agents could possess general utility for treating disorders associated with neuron cell death.
SUMMARY
This disclosure relates generally to methods for identifying compounds that promote survival of cells and/or reduce cell death. In some embodiments, this disclosure relates to methods for identifying compounds that promote survival of existing neurons, reduce neuronal cell death, protect neurons from axonal degeneration, and/or promote neurogenesis (e.g., hippocampal neurogenesis) in the mammalian brain. For the purpose of simplicity these compounds are referred to as being neuroprotective. In certain embodiments, the compounds promote survival and integrity of neurons in the post-natal mammalian brain. In certain embodiments, the compounds are neuroprotective, that is, they promote the survival, health, integrity, growth, development and/or function of neurons, and/or protect neurons from cell death, apoptosis and/or degeneration, particularly CNS, brain, cerebral, and hippocampal neurons. In certain embodiments, the compounds stimulate post-natal hippocampal neurogenesis, reduce neuronal cell death, and/or protect neurons from axonal degeneration, which while not wishing to be bound by theory, is believed to represent a therapeutic target useful for treating a variety of diseases. Also included are compounds identified by such methods, and use of the compounds for the treatment of various diseases.
Provided herein, in one aspect, is a method for identifying a compound having cell-protective (e.g., neuroprotective) activity. The method includes: incubating a test compound with a nicotinamide phosphoribosyltransferase (NAMPT); and measuring an activity of the NAMPT; wherein an increase in the activity of the NAMPT compared to a control that is not incubated with the test compound is indicative of cell-protective (e.g., neuroprotective) activity of the test compound.
In some embodiments, in the incubating step, the NAMPT is recombinantly produced and optionally further purified. The NAMPT can be present at about 0.1 to about 10 μM, about 0.5 to about 5 μM, or about 1 μM. In certain embodiments, the test compound can be additionally incubated with nicotinamide, phosphoribosylpyrophosphate, alcohol dehydrogenase, nicotinamide mononucleotide adenylyl-transferase, and an alcohol (e.g., ethanol). In embodiments, the measuring step includes determining an amount of nicotinamide adenine dinucleotide reduced form (NADH) or nicotinamide mononucleotide (NMN), which can optionally be measured by ultra violet light, mass spectrometry or fluorescence, either directly or after suitable derivatization. In one example, the amount of NADH is measured by optical density 340 nm. In some embodiments, an increase in the amount of NADH is indicative of increased NAMPT activity. In embodiments, the test compound having said cell-protective (e.g., neuroprotective) activity can be further determined to bind and/or activate the NAMPT. In some examples, the method further includes determining that the test compound having said cell-protective (e.g., neuroprotective) activity binds and/or activates the NAMPT, e.g., by mass spec and/or gel electrophoresis.
A further aspect relates to another method for identifying a compound having cell-protective (e.g., neuroprotective) activity. The method includes: exposing a population of cells to a test compound and a DNA-damaging agent; and determining survival rate of the population of cells; wherein an increase in the survival rate compared to a control that is not treated with the test compound is indicative of cell-protective (e.g., neuroprotective) activity of the test compound.
In some embodiments, the exposing step comprises incubating the population of cells with the test compound and the DNA-damaging agent. In some alternative embodiments, the exposing step comprises incubating the population of cells with the test compound first, followed by the DNA-damaging agent. In yet other embodiments, the exposing step comprises incubating the population of cells with the DNA-damaging agent first, followed by the test compound. The DNA-damaging agent may activate poly-ADP-ribose polymerase (PARP), and/or lead to decline in nicotinamide adenine dinucleotide (NAD) level. In certain embodiments, the DNA-damaging agent is an anthracycline. The anthracycline can be one or more of daunorubicin, doxorubicin, epirubicin, idarubicin, valrubicin and/or mitoxantrone. In one example, the anthracycline is doxorubicin. The DNA-damaging agent (e.g., doxorubicin) can be provided at about 0.01-20 uM, or about 0.05-10 uM, or about 0.1-1.5 uM, or about 0.5 uM. The test compound can be provided at about 1-20 uM, or about 2-10 uM or about 5 uM. The test compound is a small molecule. In some embodiments, the cells are mammalian cells. In some embodiments, the test compound having said cell-protective (e.g., neuroprotective) activity can be determined to protect the cells from toxicity mediated by the DNA-damaging agent, and/or reduce apoptosis induced by the DNA-damaging agent. In certain embodiments, the test compound having said cell-protective (e.g., neuroprotective) activity can be determined to not protect the cells from toxicity induced by a toxin selected from the group consisting of bortezomib, staurosporine, taxol, brefeldin, cytochalasin D, TNFa and TRAIL.
The DNA-damaging agent based method, in some embodiments, further comprises incubating the test compound with nicotinamide phosphoribosyltransferase (NAMPT) and measuring an activity of the NAMPT, wherein an increase in the activity of the NAMPT additionally confirms the cell-protective (e.g., neuroprotective) activity of the test compound. In certain embodiments, the test compound having said cell-protective (e.g., neuroprotective) activity is determined to increase nicotinamide adenine dinucleotide (NAD) level, and/or enhance intracellular production of the NAD by increasing the activity of the NAMPT.
In some embodiments, the test compound having said cell-protective (e.g., neuroprotective) activity is determined to bind and/or activate the NAMPT. In some examples, the method further includes determining that the test compound having said cell-protective (e.g., neuroprotective) activity binds and/or activates the NAMPT, e.g., by mass spec and/or gel electrophoresis.
In another aspect, a compound having cell-protective (e.g., neuroprotective) activity, identified by the methods described herein is provided. In some embodiments, the compound can have a Δ(Sinf−S0)/AC50 value greater than about 0, or greater than about 1, or greater than about 2, or greater than about 3, or greater than about 4, or greater than about 5, or greater than about 10, or greater than about 20, or greater than about 30, or greater than about 40, or greater than about 50, or greater than about 60, or greater than about 70, or greater than about 80, or greater than about 90, or greater than about 100. Δ(Sinf−S0)/AC50 represents change in protection activity compared to vehicle control. Protection activity is expressed by (Sinf−S0)/AC50 in the twelve-point dose response curve (DRC) corresponding to each compound, wherein both efficacy and potency of compounds were considered. Sinf represents the expected maximal protection. S0 is the baseline level of toxicity associated with, for example, doxorubicin, in the absence of a protective compound. AC50 is the concentration of a compound where 50% of its maximal protection effect was observed.
In certain embodiments, the compounds can bind and/or activate nicotinamide phosphoribosyltransferase (NAMPT). The compounds may enhance an activity of NAMPT. The compounds may also enhance NAD levels compared to the control. In some embodiments, the compounds enhance intracellular production of NAD by agonizing or increasing an activity of NAMPT.
Also provided herein is a pharmaceutical composition comprising one or more of the compounds identified by the methods described herein, or a pharmaceutically acceptable salt thereof, and a pharmaceutically acceptable carrier.
In a further aspect, a method for the treatment of a disease, disorder, or condition associated with unwanted neuronal cell death is provided. The method includes administering an effective amount of one or more of the compounds identified by the methods described herein, or a pharmaceutically acceptable salt thereof, to a patient in need thereof. In some embodiments, the compound or salt enhances NAD levels.
In yet another aspect, a method for the treatment of a disease, disorder, or condition associated with unwanted neuronal cell death is provided, which includes administering an effective amount of one or more of the compounds described herein, or a pharmaceutically acceptable salt thereof, to a patient in need thereof, wherein the compound or salt binds NAMPT. In some embodiments, the compound or salt enhances NAD levels.
In yet another aspect, a method for the treatment of a disease, disorder, or condition associated with unwanted neuronal cell death is provided, which includes administering an effective amount of one or more of the compounds described herein, or a pharmaceutically acceptable salt thereof, to a patient in need thereof, wherein the compound or salt activates NAMPT. In some embodiments, the compound or salt enhances NAD levels.
In some embodiments, the disease, disorder, or condition is selected from: DNA-damaging agent (e.g., anthracycline) mediated cardiotoxicity, schizophrenia, major depression, bipolar disorder, normal aging, epilepsy, traumatic brain injury and/or a visual symptom associated therewith, post-traumatic stress disorder, Parkinson's disease, Alzheimer's disease, Down syndrome, spinocerebellar ataxia, amyotrophic lateral sclerosis, Huntington's disease, stroke, radiation therapy, chronic stress, abuse of a neuro-active drug, retinal degeneration, spinal cord injury, peripheral nerve injury, physiological weight loss associated with various conditions, cognitive decline and/or general frailty associated with normal aging and/or chemotherapy, chemotherapy induced neuropathy, concussive injury, crush injury, peripheral neuropathy, diabetic neuropathy, post-traumatic headache, multiple sclerosis, retinal degeneration and dystrophy (such as Leber congenital amaurosis, retinitis pigmentosa, cone-rod dystrophy, microphthalmia, anophthalmia, myopia, and hyperopia), spinal cord injury, traumatic spinal cord injury, peripheral nerve injury (such as peripheral nerve crush injury, neonatal brachial plexus palsy, and traumatic facial nerve palsy), retinal neuronal death related diseases (such as glaucoma and age related macular degeneration, diabetic retinopathy, retinal blood vessel occlusions, retinal medication toxicity (such as what amino glycosides or plaquenil can cause), retinal trauma (e.g., post-surgical), retinal infections, choroidal dystrophies, retinal pigmentary retinopathies, inflammatory and cancer mediated auto immune diseases that result in retinal neuronal cell death), Autism, Stargardt disease, Kearns-Sayre syndrome, Pure neurosensory deafness, Hereditary hearing loss with retinal diseases, Hereditary hearing loss with system atrophies of the nervous system, Progressive spinal muscular atrophy, Progressive bulbar palsy, Primary lateral sclerosis, Hereditary forms of progressive muscular atrophy and spastic paraplegia, Frontotemporal dementia, Dementia with Lewy bodies, Corticobasal degeneration, Progressive supranuclear palsy, Prion disorders causing neurodegeneration, Multiple system atrophy (olivopontocerebellar atrophy), Hereditary spastic paraparesis, Friedreich ataxia, Non-Friedreich ataxia, Spinocerebellar atrophies, Amyloidoses, Metabolic-related (e.g., Diabetes) neurodegenerative disorders, Toxin-related neurodegenerative disorders, Multiple sclerosis, Charcot Marie Tooth, Diabetic neuropathy, Metabolic neuropathies, Endocrine neuropathies, Orthostatic hypotension, Creutzfeldt-Jacob Disease, Primary progressive aphasia, Frontotemporal Lobar Degeneration, Cortical blindness, Shy-Drager Syndrome (Multiple, System Atrophy with Orthostatic Hypotension), Diffuse cerebral cortical atrophy of non-Alzheimer type, Lewy-body dementia, Pick disease (lobar atrophy), Thalamic degeneration, Mesolimbocortical dementia of non-Alzheimer type, Nonhuntingtonian types of chorea and dementia, Cortical-striatal-spinal degeneration, Dementia-Parkinson-amyotrophic lateral sclerosis complex, Cerebrocerebellar degeneration, Cortico-basal ganglionic degeneration, Familial dementia with spastic paraparesis or myoclonus, and Tourette syndrome.



BRIEF DESCRIPTION OF THE DRAWINGS
The patent or application file contains at least one drawing executed in color. Copies of this patent or patent application publication with color drawing(s) will be provided by the Office upon request and payment of the necessary fee.
FIGS. 1A-1B. Protection of cultured U2OS cells from doxorubicin-mediated toxicity by active derivatives of P7C3. (FIG. 1A) U2OS cells were treated with 5 μM P7C3-A20 for 2 h prior to incubation with the indicated concentrations of doxorubicin for 72 h. (FIG. 1B) Comparison of the P7C3-S243 enantiomers in protection of cells from doxorubicin revealed that (−)-P7C3-S243 was more active than (+)-P7C3-S243, consistent with their respective neuroprotective activities in vivo (see text). In all cell survival graphs, data are expressed as mean±standard deviation (SD) of experimental duplicates.
FIGS. 2A-2D. Identification of the P7C3 binding protein p70 using the P7C3-S326 photo-crosslinking probe. (FIG. 2A) Chemical structure of P7C3-S326. (FIG. 2B) Full gel image of photo-crosslinking in H2122 cells with P7C3-S326 followed by click chemistry with Alexa 532 dye. The active analog P7C3-A20 competed away the UV-dependent binding of p70 to P7C3-S326. (FIG. 2C) Formulas used for calculating doxorubicin toxicity (dox:tox) protection activity. Protection activity is expressed by (Sinf−S0)/AC50 in the twelve-point dose response curve (DRC) corresponding to each compound, wherein both efficacy and potency of compounds were considered. Sinf represents the expected maximal protection. S0 is the baseline. AC50 is the concentration of a compound where 50% of its maximal protection effect was observed. (FIG. 2D) Scatter plot of 168 derivatives of P7C3 revealed a significant correlation between protective activity of P7C3 analogs from doxorubicin-mediated toxicity and their ability to compete for photo-crosslinking of P7C3-S326 to p70. In the photo-crosslinking assays, the p70 band intensity was quantified by Image J, and compared the sample of P7C3-S326 alone with that of P7C3-S326 plus competitor. Pearson correlation coefficient (r) and two tailed P value were determined by GraphPad Prism 6 and Spearman Rank Correlation (v1.0.1) software.
FIGS. 3A-2D. Identification of p70 and p55 targets of P7C3 by two-dimensional gel electrophoresis and mass spectrometry. Lysates from cells exposed to 0.3 μM P7C3-S326 were CLICKed with a green dye, Alexa 532, and those from cells co-exposed to 0.3 μM P7C3-S326 and 5 μM of the active competitor P7C3-A20 were CLICKed with a red dye Cy5. CLICK reacted lysates were combined, subjected to two-dimensional gel electrophoresis, and scanned in the green channel (FIG. 3A) and the red channel (FIG. 3B). Images from both channels were merged to reveal green-only spots (FIG. 3C). After spot picking, total proteins were visualized by Sypro Ruby staining (FIG. 3D). White circles in (FIG. 3D) indicate spots excised for shotgun mass spectrometry analysis.
FIGS. 4A-4B. Conversion of p70 into p55 in the presence of urea. (FIG. 4A) CLICK reacted lysates from H2122 cells treated with P7C3-S326 were separated on a standard 8% SDS-PAGE gel (left panel) or one supplemented with 7M urea (right panel), and visualized on a Typhoon scanner. Asterisk indicates the crosslinked protein that migrates as 70KDa in a standard SDS-PAGE gel and 55KDa in the SDS-PAGE gel supplemented with 7M urea. (FIG. 4B) The same lysates were resolved on a horizontal urea gradient gel co-loaded with crosslinked p70 and the same 75 kD and 50 kD size standard proteins displayed in FIG. 4A. The horizontal urea gradient proceeds from zero denaturant on the left to 7M denaturant on the right.
FIGS. 5A-5C. Active variants of P7C3 compensate NAD exhaustion induced by doxorubicin. (FIG. 5A) U2OS cells were treated with the indicated concentration of P7C3-A20. Cells were harvested and NAD metabolites were measured by LC-MS/MS. Abundance of NAD was normalized relative to total metabolites (Experimental Procedures). The data are represented as the mean±SD of experimental duplicates. (FIG. 5B) Active derivatives P7C3-A20 and P7C3-S243, but not inactive derivatives P7C3-S6, or P7C3-S117, facilitate replenishment of NAD levels in doxorubicin-treated cells. Cells were grown in 96-well plates and treated with the indicated concentrations of P7C3-A20, P7C3-S243, P7C3-S6 or P7C3-S117 together with 0.5 μM doxorubicin for 45 h. Cellular NAD abundance was determined by NAD/NADH Glo assay kit. (FIG. 5C) Scatter plots revealed a strong correlation between dox:tox protective activities of 159 compounds and their relative abilities to replenish NAD levels. The activities in both assays are represented by (Sinf−S0)/AC50 in dose response curves of test compounds.
FIGS. 6A-6B. P7C3-A20 enhances the flux of nicotinamide through the salvage pathway. (FIG. 6A) Cells were pre-treated with 0.5 μM doxorubicin for 48 hours, followed by 6 hours treatment with 14C-nicotinamide in the presence of the indicated amount of P7C3-A20. Metabolites were extracted and analyzed by thin layer chromatography. (FIG. 6B) Quantification of the relative intensities of NAD and NMN from the thin layer chromatogram.
FIGS. 7A-7C. Active variants of P7C3 enhance the activity of purified NAMPT enzyme. (FIG. 7A) P7C3-A20 was incubated at indicated concentrations in a reaction coupled with three enzymes; NAMPT, NMNAT, and ADH (Experimental Procedures). NAMPT activity was recorded for the indicated period of time at OD340 nm by measuring NADH appearance, leading to the indicated concentration-time plot. Each assay was repeated three independent times with similar results. (FIG. 7B) Analysis of the activities of thirty P7C3 analogs was performed to assess their effects on NAMPT enzymatic activity. The reaction rate was calculated as the slope of the concentration-time curve. Relative reaction rate was normalized by the control reaction run prior to compound addition. Data represents the mean of experimental duplicates. Scatter graphs were plotted to compare the ability of compounds to activate NAMPT relative to their ability to compete away P7C3-S326 crosslinking (top scatter plot), ability to protect cells from doxorubicin-mediated toxicity (middle scatter plot), or ability to facilitate NAD restoration in doxorubicin-treated cells (bottom scatter plot). Significant correlations were observed from all three sets of data. (FIG. 7C) Comparison of P7C3-S243 enantiomers showed that (−)-P7C3-S243 was superior to (+)-P7C3-S243 in activating the purified NAMPT enzyme. Data are expressed as mean±SD of duplicate independent assays.
FIG. 8. P7C3A20 protects U2OS cells from doxorubicin-mediated toxicity. U2OS cells were treated with 5 μM P7C3-A20 for 2 h prior to incubation with the indicated concentrations of eight toxins for 72 h.
FIGS. 9A-9B. P7C3A20 blocks apoptosis, but not DNA damage response induced by doxorubicin. (FIG. 9A) U2OS cells were treated with increasing concentrations of P7C3-A20 for 2 h prior to exposure to 0.5 μM doxorubicin for another 2 h. Cells were harvested and subjected to western blotting with the DNA damage marker, γ-H2AX. Actin was served as loading control. (FIG. 9B) U2OS cells were treated with P7C3-A20 and doxorubicin for the indicated time. Caspase-3 activation was determined by western blotting. Caspase-3 cleavage was observed when treated with doxorubicin alone at 60 h, but was prevented in the presence of P7C3-A20.
FIG. 10. Twelve-point dose response curves (DRC) of all tested compounds in doxorubicin toxicity protection assay. The cells were grown in 384-well plates and treated with 5 μM-1.7 nM (3-fold serial dilution) of various P7C3 derivatives together with 0.5 μM doxorubicin for 72 h. Cell viability was determined by Cell Titer Glo assay kit.
FIG. 11. Competition for photo-crosslinking of P7C3-S326 to p70 of all tested compounds. Lysates from crosslinked cells exposed to 0.3 μM P7C3-S326 and 5 μM of various P7C3 derivatives were CLICKed with Alexa 532 and visualized on SDS-PAGE.
FIG. 12. Five-point dose response curves (DRC) of all tested compounds in NAD rebound assay. Cells were grown in 384-well plates and treated with 5 μM-62 nM (3-fold serial dilution) of various P7C3 derivatives together with 0.5 μM doxorubicin for 45 h. Cellular NAD abundance was determined by NAD/NADH Glo assay kit.



DETAILED DESCRIPTION
A number of small molecules with in vivo neuroprotective properties have been previously identified and disclosed in U.S. Pat. No. 8,362,277; U.S. Publication No. 2011/0015217; U.S. Publication No. 2012/0022096 and U.S. Publication No. 2013/0040977; and U.S. application Ser. No. 14/339,772 filed Jul. 24, 2014, all of which are hereby incorporated herein by reference in their entirety, in particular the compounds disclosed in the Examples section. Additional compounds are disclosed in U.S. Provisional Patent Application No. 61/902,680 filed Nov. 11, 2013 and U.S. Provisional Patent Application No. 61/912,625 filed Dec. 6, 2013, all of which are hereby incorporated herein by reference in their entirety, in particular the compounds disclosed in the Examples section.
It has now been surprisingly discovered that the in vivo neuroprotective properties of these compounds coincide or correlate with their protective activity against DNA-damaging agent-mediated cell toxicity. Unexpectedly, such protection is observed with DNA-damaging agent such as anthracyclines but not with other potent toxins such as bortezomib, staurosporine, taxol, brefeldin, cytochalasin D, TNFa and TRAIL. As such, DNA-damaging agents can be used in a method to screen for or identify compounds having neuroprotective activity. More broadly, compounds having general cell-protective activity (as opposed neuron specific protection) to can also be identified using such methods. As demonstrated herein, non-neuron cells can be used in such methods, revealing a general protective activity of tested compounds of non-neuron cells from toxicity.
DNA-damaging agents are widely used in treatment of malignant conditions such as various cancer. However, they are also known to induce cardiac toxicity, especially dose-dependent cardiomyopathy. As such, compounds identified to have cell-protective activity against DNA-damaging agent (e.g., anthracycline) mediated toxicity can also be used to treat DNA-damaging agent (e.g., anthracycline) mediated cardiotoxicity. In some embodiments, such compounds can be administered along with, or subsequent to, DNA-damaging agent (e.g., anthracycline) administration.
Another surprising finding is that the compounds bind to and/or activate nicotinamide phosphoribosyltransferase (NAMPT). The compounds may enhance an activity of NAMPT. The compounds may also enhance nicotinamide adenine dinucleotide (NAD) levels. In some embodiments, the compounds enhance intracellular production of NAD by agonizing an activity of NAMPT. Thus, in addition to the cell-protective activities that render these compounds useful in treating diseases or conditions associated with, for example, unwanted cell death and/or insufficient cell production, they can also be used as potential treatments for generalized frailty typical of aged animals and humans, since NAD is an important coenzyme found in all living cells and is involved in numerous redox reactions in metabolism.
DEFINITIONS
Unless defined otherwise, all technical and scientific terms used herein have the meaning commonly understood by one of ordinary skill in the art to which the disclosure pertains. The Definitions section at paragraphs [1001]-[1031] of U.S. Publication No. 2013/0040977 is incorporated herein by reference. Specific terminology is defined below.
As used in the specification and the appended claims, the singular forms “a,” “an,” and “the” include plural referents unless the context clearly dictates otherwise.
As used herein, the term “about” means within 20%, more preferably within 10% and most preferably within 5%.
The terms “cell-protective” and “cell-protective activity” refer to an activity in promoting the survival, health, integrity, growth, development and/or function of a cell, and/or protecting a cell from cell death, apoptosis and/or degeneration, and/or stimulating generation, production, differentiation and/or multiplication.
The terms “neuroprotective” and “neuroprotective activity” refer to an activity in promoting the survival, health, integrity, growth, development and/or function of neurons, and/or protecting neurons from cell death, apoptosis and/or degeneration, and/or stimulating neurogenesis, particularly CNS, brain, cerebral, and hippocampal neurons.
The term “neurogenesis” refers to the process by which neurons are generated from neural stem cells and progenitor cells, which is responsible for populating the growing brain with neurons. While neurogenesis generally is most active during pre-natal development, in some embodiments the compounds disclosed herein can stimulate or promote post-natal neurogenesis such as hippocampal neurogenesis.
The terms “treating” and “treatment” as used herein refer to reduction in severity and/or frequency of symptoms, elimination of symptoms and/or underlying cause, and improvement or remediation of damage.
By “pharmaceutically acceptable” is meant a material that is not biologically or otherwise undesirable, i.e., the material may be incorporated into a pharmaceutical composition administered to a patient without causing any undesirable biological effects or interacting in a deleterious manner with any of the other components of the composition in which it is contained. When the term “pharmaceutically acceptable” is used to refer to a pharmaceutical carrier or excipient, it is implied that the carrier or excipient has met the required standards of toxicological and manufacturing testing and/or that it is included on the Inactive Ingredient Guide prepared by the U.S. Food and Drug administration.
As used herein, the term “patient” or “individual” or “subject” refers to any person or mammalian subject for whom or which therapy is desired, and generally refers to the recipient of the therapy to be practiced according to the disclosure.
The term “substituent” refers to a group “substituted” on, e.g., an alkyl, haloalkyl, cycloalkyl, heterocyclyl, heterocycloalkenyl, cycloalkenyl, aryl, or heteroaryl group at any atom of that group, replacing one or more hydrogen atom therein. In one aspect, the substituent(s) on a group are independently any one single, or any combination of two or more of the permissible atoms or groups of atoms delineated for that substituent. In another aspect, a substituent may itself be substituted with any one of the above substituents. Further, as used herein, the phrase “optionally substituted” means unsubstituted (e.g., substituted with an H) or substituted. It is understood that substitution at a given atom is limited by valency. Common substituents include halo, straight chain or branched chain alkyl, alkenyl, alkynyl, cycloalkyl, aryl, heteroaryl, heterocyclyl, alkylsulfonyl, nitro, cyano, —COOR, —C(O)NRR′, —OR, —SR, —NRR′, and oxo, such as mono- or di- or tri-substitutions with moieties such as trifluoromethoxy, chlorine, bromine, fluorine, methyl, methoxy, pyridyl, furyl, triazyl, piperazinyl, pyrazoyl, imidazoyl, and the like, each optionally containing one or more heteroatoms such as halo, N, O, S, and P. R and R′ are independently hydrogen, alkyl, haloalkyl, alkenyl, alkynyl, cycloalkyl, cycloalkylalkyl, aryl, aralkyl, heterocyclyl, heterocyclylalkyl, heteroaryl or heteroarylalkyl. Unless otherwise noted, all groups described herein optionally contain one or more common substituents, to the extent permitted by valency.
Screening Methods
Aspects of the invention relate to screening methods for identifying a compound having cell-protective (e.g., neuroprotective) activity. These methods can be used in high-throughput screens of many compounds in parallel, e.g., at least 10 compounds, at least 50 compounds, at least 100 compounds, at least 500 compounds, at least 1000 compounds, at least 10,000 compounds, or more or less compounds.
In one aspect, a method for identifying a compound having cell-protective (e.g., neuroprotective) activity is based on the surprising discovery that certain compounds (e.g., the P7C3 class of compounds) are capable of activating nicotinamide phosphoribosyltransferase (NAMPT). The method can include: incubating a test compound with a NAMPT; and measuring an activity of the NAMPT; wherein an increase in the activity of the NAMPT compared to a control that is not incubated with the test compound is indicative of cell-protective (e.g., neuroprotective) activity of the test compound.
In some embodiments, the test compound can be provided at any suitable amount or concentration, e.g., about 0.1-20 uM, or about 0.3-5 uM, about 1 uM or about 3 uM, or any other suitable concentration one of ordinary skill can determine through routine experimentation depending on the specific compound. The test compound can be any compound or agent of interest. The test compound can be a small molecule (e.g., having a molecular weight less than 1000 Da). The test compound can be from a library. In one example, the test compound may be selected from the compounds listed in Table 1. The test compound can also be those disclosed in U.S. Pat. No. 8,362,277; U.S. Publication No. 2011/0015217; U.S. Publication No. 2012/0022096 and U.S. Publication No. 2013/0040977; U.S. application Ser. No. 14/339,772 filed Jul. 24, 2014; U.S. Provisional Patent Application No. 61/902,680 filed Nov. 11, 2013 and U.S. Provisional Patent Application No. 61/912,625 filed Dec. 6, 2013, all of which are hereby incorporated herein by reference in their entirety, in particular the compounds disclosed in the Examples section.
In some embodiments, the NAMPT can be recombinantly produced and optionally further purified. The NAMPT can be from a mammalian source such as human. Purified NAMPT is also commercially available. The NAMPT is present at about 0.1 to about 10 μM, about 0.5 to about 5 μM, or about 1 μM in the reaction mixture.
NAMPT activity can be measured by any suitable methods such as known immunometric, fluorometric and colorimetric assays (e.g., the CycLex® NAMPT Colorimetric Assay Kit by MBL International, and the assay described in Zhang et al., Anal. Biochem. 2011; 412(1):18-25 which is incorporated herein by reference in its entirety). In one example, NAMPT activity is measured by a coupled assay where the reaction mixture can further include nicotinamide, phosphoribosylpyrophosphate, alcohol dehydrogenase, nicotinamide mononucleotide adenylyl-transferase (NMNAT), and an alcohol. NAMPT can convert nicotinamide to nicotinamide mononucleotide (NMN), which is then converted to NAD by NMNAT. In turn, NAD is reduced to the reduced form, NADH, by alcohol dehydrogenase, using alcohol (e.g., ethanol) as a substrate. The amount of NADH can be monitored by ultra violet light (e.g., optical density (OD) 340 nm), mass spectrometry or fluorescence, either directly or after suitable derivatization. The amount of NADH reflects the activity of NAMPT. That is, the higher the amount of NADH, the higher the activity of NAMPT. In another example, an amount of NMN can be measured (e.g., in a reaction mixture containing NAMPT and nicotinamide, which can be measured by ultra violet light, mass spectrometry or fluorescence, either directly or after suitable derivatization.
In some embodiments, the test compound having said cell-protective (e.g., neuroprotective) activity can be further determined to bind and/or activate the NAMPT. Determining the test compound having said cell-protective (e.g., neuroprotective) activity binds and/or activates the NAMPT can be done by any suitable methods such as mass spec and/or gel electrophoresis.
In a further aspect, another method for identifying a compound having cell-protective (e.g., neuroprotective) activity is based on the surprising finding that certain compounds (e.g., the P7C3 class of compounds) are capable of protecting cells from the toxicity induced by DNA-damaging agents. The method can include: exposing a population of cells to a test compound and a DNA-damaging agent; and determining survival rate of the population of cells; wherein an increase in the survival rate compared to a control that is not treated with the test compound is indicative of cell-protective (e.g., neuroprotective) activity of the test compound.
In some embodiments, the exposing step includes incubating the population of cells with the test compound and the DNA-damaging agent at the same time (e.g., in the same reaction mixture for the same amount of time). Alternatively, the population of cells can be incubated with the test compound first (e.g., for a first period of time such as 0.5-5 hours, or about 1-3 hours, or about 2 hours, or any other suitable length one of ordinary skill can determine through routine experimentation depending on the specific cells or compound), followed by the DNA-damaging agent (e.g., for a second period of time such as about 5-200 hours, or about 10-100 hours, or about 72 hours, or any other suitable length one of ordinary skill can determine through routine experimentation depending on the specific cells or the DNA-damaging agent). In yet another embodiment, the population of cells are incubated with the DNA-damaging agent first (e.g., for the second period of time), followed by the test compound (e.g., for the first period of time).
In certain embodiments, the DNA-damaging agent can activate poly-ADP-ribose polymerase (PARP). PARP uses NAD as the donor for poly-ADP-ribose synthesis and hence lowers cellular levels of NAD. Introduction of the compounds disclosed herein (e.g., the P7C3 class), by increasing or replenishing NAD levels, thus can protect the cells from toxicity induced by the DNA-damaging agent, increase their general health, and in some embodiments extend the life span of the cells.
In some embodiments, the DNA-damaging agent can be an anthracycline. Anthracycline is a class of drugs used in cancer chemotherapy. Examples include daunorubicin, doxorubicin, epirubicin, idarubicin, valrubicin and/or mitoxantrone. Anthracyclines have several mechanisms of action, including inhibition of DNA and RNA synthesis by intercalating between base pairs of the DNA/RNA strand, thus preventing the replication of rapidly growing cancer cells; inhibition of topoisomerase II enzyme, preventing the relaxing of supercoiled DNA and thus blocking DNA transcription and replication; iron-mediated generation of free oxygen radicals that damage the DNA, proteins and cell membranes; and induction of histone eviction from chromatin that deregulates DNA damage response, epigenome and transcriptome. These all lead to toxicity to the cells, eventually cell death. The compounds disclosed herein (e.g., the P7C3 class) can mitigate and reverse the toxicity and/or cell death induced by anthracyclines. In one example, doxorubicin can be used as the DNA-damaging agent in the screen.
It has been surprisingly found that certain compounds having cell-protective (e.g., neuroprotective) activity (e.g., the P7C3 class) protect the cells from DNA-damaging agent (e.g., anthracycline) mediated toxicity, while failing to protect cells from toxicity induced by other powerful toxins such as bortezomib, staurosporine, taxol, brefeldin, cytochalasin D, TNFa and TRAIL. While without wishing to be bound by theory, it is hypothesized that because DNA-damaging agent (e.g., anthracycline) activates PARP which lowers cellular levels of NAD, cell-protective (e.g., neuroprotective) compounds can increase or replenish NAD levels, thereby protecting the cells from DNA-damaging agent (e.g., anthracycline) mediated toxicity, increasing the general health of the cells, and in some embodiments extending the life span of the cells.
Any cells can be used in the screen. As long as the cells contain DNA to be targeted by the DNA-damaging agent, they can be used to screen for compounds that mitigate or reverse toxicity mediated by the DNA-damaging agent. In some embodiments, the cells are mammalian cells. The cells can also be established cell lines commonly used in laboratory experiments.
In some embodiments, the test compound can be provided at any suitable amount or concentration, e.g., about 1-20 uM, or about 2-10 uM or about 5 uM, or any other suitable concentration one of ordinary skill can determine through routine experimentation depending on the specific cells or the compound. The test compound can be any compound or agent of interest. The test compound can be a small molecule (e.g., having a molecular weight less than 1000 Da). The test compound can be from a library. In one example, the test compound may be selected from the compounds listed in Table 1. The test compound can also be those disclosed in U.S. Pat. No. 8,362,277; U.S. Publication No. 2011/0015217; U.S. Publication No. 2012/0022096 and U.S. Publication No. 2013/0040977; U.S. application Ser. No. 14/339,772 filed Jul. 24, 2014; U.S. Provisional Patent Application No. 61/902,680 filed Nov. 11, 2013 and U.S. Provisional Patent Application No. 61/912,625 filed Dec. 6, 2013, all of which are hereby incorporated herein by reference in their entirety, in particular the compounds disclosed in the Examples section.
The DNA-damaging agent is provided at can be provided at any suitable amount or concentration, e.g., about 0.01-20 uM, or about 0.05-10 uM, or about 0.1-1.5 uM, or about 0.5 uM, or any other suitable concentration one of ordinary skill can determine through routine experimentation depending on the specific cells or the DNA-damaging agent.
In some embodiments, the DNA-damaging agent based screen can be combined with the NAMPT based screen, to further confirm the cell-protective (e.g., neuroprotective) activity of the test compounds. For example, compounds of interest identified from the DNA-damaging agent based screen can be further incubated with NAMPT, and an activity of the NAMPT can be measured thereafter, wherein an increase in the activity of the NAMPT additionally confirms the cell-protective (e.g., neuroprotective) activity of the compound. Alternatively, compounds of interest identified from the NAMPT based screen can be further incubated with a population of cells and a DNA-damaging agent (the cells can be incubated with the compound and the DNA-damaging agent together or separately in two sequential steps), and survival rate of the population of cells can be determined thereafter; wherein an increase in the survival rate compared to a control that is not treated with the compound is indicative of cell-protective (e.g., neuroprotective) activity of the compound.
In some embodiments, the test compound having said cell-protective (e.g., neuroprotective) activity can be further determined to bind and/or activate the NAMPT. Determining the test compound having said cell-protective (e.g., neuroprotective) activity binds and/or activates the NAMPT can be done by any suitable methods such as mass spec and/or gel electrophoresis.
Compounds, Compound Forms and Salts
Compounds identified by the above screen methods are included in the present invention. In some embodiments, the compound can have formula (I):




wherein:

each of R1, R2, R3, and R4 is independently selected from hydrogen, halo, hydroxyl, sulfhydryl, C1-C6 alkoxy, C1-C6 thioalkoxy, C1-C6 haloalkoxy, C1-C6 thiohaloalkoxy, C1-C6 alkyl, C1-C6 haloalkyl, C2-C6 alkynyl, cyclopropyl, —N3, cyano, —NH2, —NH(C1-C6 alkyl), —N(C1-C6 alkyl)2, —NHC(O)(C1-C6 alkyl), nitro, —C(O)O(C1-C6 alkyl), —C(O)NH2, —C(O)NH(C1-C6 alkyl), —C(O)N(C1-C6 alkyl)2, —S(O)2NH2, —S(O)2NH(C1-C6 alkyl), and —S(O)2N(C1-C6 alkyl)2;

R and R′ are defined according to (1), (2), (3) or (4) below:

(1) R and R′ together with C2 and C3, respectively, form a fused phenyl ring having formula (II):





wherein each of R5, R6, R7, and R8 is independently selected from hydrogen, halo, hydroxyl, sulfhydryl, C1-C6 alkoxy, C1-C6 thioalkoxy, C1-C6 haloalkoxy, C1-C6 thiohaloalkoxy, C1-C6 alkyl, C1-C6 haloalkyl, C2-C6 alkynyl, cyclopropyl, —N3, cyano, —NH2, —NH(C1-C6 alkyl), —N(C1-C6 alkyl)2, —NHC(O)(C1-C6 alkyl), nitro, —C(O)O(C1-C6 alkyl), —C(O)NH2, —C(O)NH(C1-C6 alkyl), —C(O)N(C1-C6 alkyl)2, —S(O)2NH2, —S(O)2NH(C1-C6 alkyl), and —S(O)2N(C1-C6 alkyl)2; or

(2) R and R′ together with C2 and C3, respectively, form a fused heteroaryl ring containing 6 ring atoms, wherein from 1-2 independently selected ring atoms is N; and wherein said heteroaryl ring is optionally substituted with from 1-2 independently selected Rb; or

(3) R and R′ together with C2 and C3, respectively, form a fused heterocyclic ring containing from 5-6 ring atoms, wherein from 1-2 of the ring atoms is independently selected from N, NH, N(C1-C6 alkyl), NC(O)(C1-C6 alkyl), O, and S; and wherein said heterocyclic ring is optionally substituted with from 1-3 independently selected Ra; or

(4) each of R and R′ is, independently, hydrogen, C1-C6 alkyl, or C1-C6 haloalkyl;

each of L1 and L2 is, independently, C1-C3 alkylene, which is optionally substituted with from 1-2 independently selected Rc;

A is:

    
    
        (i) CRA1RA2, wherein each of RA1 and RA2 is independently selected from hydrogen, halo, C1-C3 alkyl, OR9, wherein R9 is hydrogen or C1-C3 alkyl that is optionally substituted with hydroxyl or C1-C3 alkoxy, or a double bond formed between A and one of L1 and L2; or
        (ii) C═O; or
        (iii) C3-C5 cycloalkylene that is (a) substituted with 1 oxo; and (b) optionally further substituted with from 1-4 independently selected Ra; or
        (iv) heterocycloalkylene containing from 3-5 ring atoms, wherein from 1-2 of the ring atoms is independently selected from N, NH, N(C1-C3 alkyl), O, and S; and wherein said heterocycloalkylene is (a) substituted with 1 oxo; and (b) is optionally further substituted with from 1-4 independently selected Ra;

Z is:

        (i) —NR10R11; or
        (ii) —C(O)NR10R11; or
        (iii) —OR12; or
        (iv) —S(O)nR13, wherein n is 0, 1, or 2; or
        (v) heterocycloalkenyl containing from 5-6 ring atoms, wherein from 1-3 of the ring atoms is independently selected from N, NH, N(C1-C6 alkyl), NC(O)(C1-C6 alkyl), O, and S; and wherein said heterocycloalkenyl is optionally substituted with from 1-4 independently selected Ra; or
        (vi) C6-C10 aryl that is optionally substituted with from 1-4 independently selected Rb; or
        (vii) heteroaryl containing from 5-14 ring atoms, wherein from 1-6 of the ring atoms is independently selected from N, NH, N(C1-C3 alkyl), O, and S; and wherein said heteroaryl is optionally substituted with from 1-4 independently selected Rb; or
        (viii) C8-C14 arylcycloalkyl, wherein:
        
            (1) the aryl portion is optionally substituted with from 1-4 independently selected Rb, and
            (2) the cycloalkyl portion is optionally substituted with from 1-4 independently selected Ra; or
        
        
        (ix) arylheterocyclyl containing from 8-14 ring atoms, wherein:
        
            (1) the aryl portion from is optionally substituted with from 1-4 independently selected Rb, and
            (2) from 1-2 of the ring atoms of the heterocyclyl portion is independently selected from N, NH, N(C1-C6 alkyl), NC(O)(C1-C6 alkyl), O, and S; and wherein said heterocyclyl portion is optionally substituted with from 1-3 independently selected Ra; or
        
        
        (x) heteroarylheterocyclyl containing from 8-14 ring atoms, wherein:
        
            (1) from 1-2 of the ring atoms of the heteroaryl portion is independently selected from N, NH, N(C1-C3 alkyl), O, and S; and wherein said heteroaryl portion is optionally substituted with from 1-3 independently selected Rb; and
            (2) from 1-2 of the ring atoms of the heterocyclyl portion is independently selected from N, NH, N(C1-C6 alkyl), NC(O)(C1-C6 alkyl), O, and S; and wherein said heterocyclyl portion is optionally substituted with from 1-3 independently selected Ra; or
        
        
        (xi) heteroarylcycloalkyl containing from 8-14 ring atoms, wherein:
        
            (1) from 1-2 of the ring atoms of the heteroaryl portion is independently selected from N, NH, N(C1-C3 alkyl), O, and S; and wherein said heteroaryl portion is optionally substituted with from 1-3 independently selected Rb; and
            (2) the cycloalkyl portion is optionally substituted with from 1-4 independently selected Ra;

each of R10 and R11 is independently selected from the substituents delineated collectively in (a) through (l) below:

        
        
        (a) hydrogen;
        (b) C6-C10 aryl that is optionally substituted with from 1-4 Rb;
        (c) heteroaryl containing from 5-14 ring atoms, wherein from 1-6 of the ring atoms is independently selected from N, NH, N(C1-C3 alkyl), O, and S; and wherein said heteroaryl is optionally substituted with from 1-4 Rb;
        (d) C1-C6 alkyl or C1-C6 haloalkyl, each of which is optionally substituted with from 1-3 Rd;
        (e) —C(O)(C1-C6 alkyl), —C(O)(C1-C6 haloalkyl), —C(O)O(C1-C6 alkyl), —S(O)2(C1-C6 alkyl), —S(O)2(C6-C10 aryl), or —S(O)2(C1-C13 heteroaryl), wherein the C6-C10 aryl and C1-C13 heteroaryl are each independently optionally substituted with 1-4 Rb;
        (f) C2-C6 alkenyl or C2-C6 alkynyl;
        (g) C8-C14 arylcycloalkyl, wherein:
        
            (1) the aryl portion is optionally substituted with from 1-4 independently selected Rb, and
            (2) the cycloalkyl portion is optionally substituted with from 1-4 independently selected Ra;
        
        
        (h) arylheterocyclyl containing from 8-14 ring atoms, wherein:
        
            (1) the aryl portion from is optionally substituted with from 1-4 independently selected Rb, and
            (2) from 1-2 of the ring atoms of the heterocyclyl portion is independently selected from N, NH, N(C1-C6 alkyl), NC(O)(C1-C6 alkyl), O, and S; and wherein said heterocyclyl portion is optionally substituted with from 1-3 independently selected Ra;
        
        
        (i) heteroarylheterocyclyl containing from 8-14 ring atoms, wherein:
        
            (1) from 1-2 of the ring atoms of the heteroaryl portion is independently selected from N, NH, N(C1-C3 alkyl), O, and S; and wherein said heteroaryl portion is optionally substituted with from 1-3 independently selected Rb; and
            (2) from 1-2 of the ring atoms of the heterocyclyl portion is independently selected from N, NH, N(C1-C6 alkyl), NC(O)(C1-C6 alkyl), O, and S; and wherein said heterocyclyl portion is optionally substituted with from 1-3 independently selected Ra;
        
        
        (j) heteroarylcycloalkyl containing from 8-14 ring atoms, wherein:
        
            (1) from 1-2 of the ring atoms of the heteroaryl portion is independently selected from N, NH, N(C1-C3 alkyl), O, and S; and wherein said heteroaryl portion is optionally substituted with from 1-3 independently selected Rb; and
            (2) the cycloalkyl portion is optionally substituted with from 1-4 independently selected Ra;
        
        
        (k) C3-C8 cycloalkyl or C3-C8 cycloalkenyl, each of which is optionally substituted with from 1-4 independently selected Ra; and
        (l) C7-C12 aralkyl, wherein the aryl portion is optionally substituted with from 1-4 independently selected Rb, provided that one of R10 and R11 must be selected from (b), (c), (g), (h), (i), (j), and (k);

R12 is:

        (i) C6-C10 aryl that is optionally substituted with from 1-4 Rb; or
        (ii) heteroaryl containing from 5-14 ring atoms, wherein from 1-6 of the ring atoms is independently selected from N, NH, N(C1-C3 alkyl), O, and S; and wherein said heteroaryl is optionally substituted with from 1-4 Rb; or
        (iii) C1-C6 alkyl or C1-C6 haloalkyl, each of which is substituted with from 1-3 Rd; or
        (iv) C8-C14 arylcycloalkyl, wherein:
        
            (1) the aryl portion is optionally substituted with from 1-4 independently selected Rb, and
            (2) the cycloalkyl portion is optionally substituted with from 1-4 independently selected Ra; or
        
        
        (v) arylheterocyclyl containing from 8-14 ring atoms, wherein:
        
            (1) the aryl portion from is optionally substituted with from 1-4 independently selected Rb, and
            (2) from 1-2 of the ring atoms of the heterocyclyl portion is independently selected from N, NH, N(C1-C6 alkyl), NC(O)(C1-C6 alkyl), O, and S; and wherein said heterocyclyl portion is optionally substituted with from 1-3 independently selected Ra; or
        
        
        (vi) heteroarylheterocyclyl containing from 8-14 ring atoms, wherein:
        
            (1) from 1-2 of the ring atoms of the heteroaryl portion is independently selected from N, NH, N(C1-C3 alkyl), O, and S; and wherein said heteroaryl portion is optionally substituted with from 1-3 independently selected Rb; and
            (2) from 1-2 of the ring atoms of the heterocyclyl portion is independently selected from N, NH, N(C1-C6 alkyl), NC(O)(C1-C6 alkyl), O, and S; and wherein said heterocyclyl portion is optionally substituted with from 1-3 independently selected Ra;
        
        
        or
        (vii) heteroarylcycloalkyl containing from 8-14 ring atoms, wherein:
        
            (1) from 1-2 of the ring atoms of the heteroaryl portion is independently selected from N, NH, N(C1-C3 alkyl), O, and S; and wherein said heteroaryl portion is optionally substituted with from 1-3 independently selected Rb; and
            (2) the cycloalkyl portion is optionally substituted with from 1-4 independently selected Ra;

R13 is:

        
        
        (i) C6-C10 aryl that is optionally substituted with from 1-4 Rb; or
        (ii) heteroaryl containing from 5-14 ring atoms, wherein from 1-6 of the ring atoms is independently selected from N, NH, N(C1-C3 alkyl), O, and S; and wherein said heteroaryl is optionally substituted with from 1-4 Rb; or
        (iii) C8-C14 arylcycloalkyl, wherein:
        
            (1) the aryl portion is optionally substituted with from 1-4 independently selected Rb, and
            (2) the cycloalkyl portion is optionally substituted with from 1-4 independently selected Ra;
        
        
        or
        (iv) arylheterocyclyl containing from 8-14 ring atoms, wherein:
        
            (1) the aryl portion from is optionally substituted with from 1-4 independently selected Rb, and
            (2) from 1-2 of the ring atoms of the heterocyclyl portion is independently selected from N, NH, N(C1-C6 alkyl), NC(O)(C1-C6 alkyl), O, and S; and wherein said heterocyclyl portion is optionally substituted with from 1-3 independently selected Ra;
        
        
        or
        (v) heteroarylheterocyclyl containing from 8-14 ring atoms, wherein:
        
            (1) from 1-2 of the ring atoms of the heteroaryl portion is independently selected from N, NH, N(C1-C3 alkyl), O, and S; and wherein said heteroaryl portion is optionally substituted with from 1-3 independently selected Rb; and
            (2) from 1-2 of the ring atoms of the heterocyclyl portion is independently selected from N, NH, N(C1-C6 alkyl), NC(O)(C1-C6 alkyl), O, and S; and wherein said heterocyclyl portion is optionally substituted with from 1-3 independently selected Ra;
        
        
        or
        (vi) heteroarylcycloalkyl containing from 8-14 ring atoms, wherein:
        
            (1) from 1-2 of the ring atoms of the heteroaryl portion is independently selected from N, NH, N(C1-C3 alkyl), O, and S; and wherein said heteroaryl portion is optionally substituted with from 1-3 independently selected Rb; and
            (2) the cycloalkyl portion is optionally substituted with from 1-4 independently selected Ra;

Ra at each occurrence is, independently selected from halo, hydroxyl, C1-C6 alkoxy, C1-C6 thioalkoxy, C1-C6 haloalkoxy, C1-C6 thiohaloalkoxy, oxo, thioxo, ═NH, ═N(C1-C6 alkyl), C1-C6 alkyl, C1-C6 haloalkyl, —NH2, —NH(C1-C6 alkyl), —N(C1-C6 alkyl)2, —NHC(O)(C1-C6 alkyl), and cyano;

Rb at each occurrence is independently selected from the substituents delineated in (aa) through (dd) below:

        
        
        (aa) C1-C6 alkoxy; C1-C6 haloalkoxy; C1-C6 thioalkoxy; C1-C6 thiohaloalkoxy; —O—(CH2)1-3-[O(CH2)1-3]1-3—H; —C1-C6 alkyl, C1-C6 haloalkyl, —NH(C1-C6 alkyl), —N(C1-C6 alkyl)2, —NHC(O)(C1-C6 alkyl), wherein the alkyl portion of each is optionally substituted with from 1-3 independently selected Re;
        (bb) halo; hydroxyl; cyano; nitro; —NH2; azido; sulfhydryl; C2-C6 alkenyl; C2-C6 alkynyl; —C(O)H; —C(O)(C1-C6 alkyl); —C(O)(C1-C6 haloalkyl); —C(O)OH; —C(O)O(C1-C6 alkyl); —C(O)NH2; —C(O)NH(C1-C6 alkyl); —C(O)N(C1-C6 alkyl)2; —SO2(C1-C6 alkyl); —SO2NH2; —SO2NH(C1-C6 alkyl); —SO2N(C1-C6 alkyl)2;
        (cc) C3-C6 cycloalkyl or heterocyclyl containing from 5-6 ring atoms, wherein from 1-2 of the ring atoms of the heterocyclyl is independently selected from N, NH, N(C1-C6 alkyl), NC(O)(C1-C6 alkyl), O, and S; and wherein each of said phenyl and heterocyclyl is optionally substituted with from 1-3 independently selected Ra; and
        (dd) phenyl or heteroaryl containing from 5-6 ring atoms, wherein from 1-2 of the ring atoms of the heteroaryl is independently selected from N, NH, N(C1-C3 alkyl), O, and S; wherein each of said phenyl and heteroaryl is optionally substituted with from 1-3 substituents independently selected from halo; hydroxyl; cyano; nitro; —NH2; —NH(C1-C6 alkyl), —N(C1-C6 alkyl)2, —NHC(O)(C1-C6 alkyl), C1-C6 alkoxy; C1-C6 haloalkoxy; C1-C6 thioalkoxy; C1-C6 thiohaloalkoxy; C1-C6 alkyl, and C1-C6 haloalkyl;

Rc at each occurrence is, independently selected from halo, C1-C6 alkoxy, C1-C6 thioalkoxy, C1-C6 haloalkoxy, C1-C6 thiohaloalkoxy, C1-C6 alkyl, C1-C6 haloalkyl, —NH2, —NH(C1-C6 alkyl), —N(C1-C6 alkyl)2, —NHC(O)(C1-C6 alkyl), and cyano;

Rd at each occurrence is, independently selected from hydroxyl, C1-C6 alkoxy, C1-C6 thioalkoxy, C1-C6 haloalkoxy, C1-C6 thiohaloalkoxy, C1-C6 alkyl, C1-C6 haloalkyl, —NH2, —NH(C1-C6 alkyl), —N(C1-C6 alkyl)2, —NHC(O)(C1-C6 alkyl), and cyano; and

Re at each occurrence is, independently selected from hydroxyl, C1-C6 alkoxy; C1-C6 thioalkoxy; C1-C6 haloalkoxy; C1-C6 thiohaloalkoxy; —NH2; —NH(C1-C6 alkyl); —N(C1-C6 alkyl)2; —NHC(O)(C1-C6 alkyl); cyano; —C(O)H; —C(O)(C1-C6 alkyl); —C(O)(C1-C6 haloalkyl); —C(O)OH; —C(O)O(C1-C6 alkyl); —C(O)NH2; —C(O)NH(C1-C6 alkyl); —C(O)N(C1-C6 alkyl)2; —SO2(C1-C6 alkyl); —SO2NH2; —SO2NH(C1-C6 alkyl); —SO2N(C1-C6 alkyl)2; and L3-(C1-C6 alkylene)-biotin, where in L3 is a —O—, —NH—, —NCH3—, —C(O)—, —C(O)NH—, —C(O)NCH3—, —NHC(O)—, or —NCH3C(O)—.

    
    


In some embodiments, one or more of (A), (B), or (C) apply:
(A) Provided that when R and R′ are defined according to definition (3), then:
(i) each of 12 and L2 must be C1-C3 alkylene, which is optionally substituted with from 1-2 independently selected Rc when A is CH2; or
(ii) -L3-A-L2 cannot be —CH2—CH2— when Z is 2-methylpyridyl; or
(iii) Z must be other than heteroaryl containing from 5-14 (e.g., 5-6 or 6) ring atoms, wherein from 1-6 of the ring atoms is independently selected from N, NH, N(C1-C3 alkyl), O, and S; and wherein said heteroaryl is optionally substituted with from 1-4 independently selected Rb; e.g., other than substituted pyridyl, e.g., other than pyridyl substituted with C1-C3 alkyl (e.g., CH3), e.g., other than 2 or 6-methylpyridyl.

(B) Each of R10 and R11 cannot be optionally substituted naphthyl (e.g., each of R10 and R11 cannot be unsubstituted naphthyl). In embodiments, each of R10 and R11 is other than optionally substituted naphthyl (e.g., unsubstituted naphthyl) when R and R′ are defined according to definitions (1), (2), and (4); and A is CRA1RA2 (e.g., CHOR9, e.g., CHOH), and each of L1 and L2 is C1-C3 alkylene (e.g., each of L1 and L2 is CH2).

(C) R12 and/or R13 cannot be substituted phenyl. In embodiments, R12 and/or R13 cannot be substituted phenyl when R and R′ are defined according to definition (1); and A is CRA1RA2 (e.g., CHOR9, e.g., CHOH), and each of L1 and L2 is C1-C3 alkylene (e.g., each of L1 and L2 is CH2).

In some embodiments, (A), (B), or (C) applies. In other embodiments, (A) and (B); or (A) and (C); or (B) and (C) applies. In still other embodiments, (A), (B), and (C) apply.
In certain embodiments, the compounds are of formula (III):




in which R1, R2, R3, R4, L1, L2, A, and Z can be as defined anywhere herein.

In some embodiments, one or more of the following can apply:

    
    
        each of L1 and L2 is CH2;
        A is CRA1RA2, wherein one of RA1 and RA2 is OR9, and the other is hydrogen;
        Z is —NR10R11; and
        each of R10 and R11 is independently selected from:
        
            (a) hydrogen;
            (b) C6-C10 aryl that is optionally substituted with from 1-4 Rb;
            (c) heteroaryl containing from 5-14 ring atoms, wherein from 1-6 of the ring atoms is independently selected from N, NH, N(C1-C3 alkyl), O, and S, and wherein said heteroaryl is optionally substituted with from 1-4 Rb; e.g., pyridyl optionally substituted with 1 Rb; e.g., 2-methoxypyridyl;
            (d) C1-C6 alkyl or C1-C6 haloalkyl, each of which is optionally substituted with from 1-3 Rd;
            (f) C2-C6 alkenyl or C2-C6 alkynyl.
        
        
    
    


In embodiments, one or more of the following may apply:

    
    
        provided that R3 and R6 cannot both be hydrogen when A is CH2, and R and R′ are defined according to definition (1);
        provided that R3 cannot be hydrogen when A is CH2, and R and R′ are defined according to definition (2);
        provided that R3 and R6 cannot both be chloro when A is CH2, R and R′ are defined according to definition (1), Z is —OR12, and R12 is unsubstituted phenyl;
        provided that R3 and R6 cannot both be bromo when A is CH2, R and R′ are defined according to definition (1), Z is —OR12, and R12 is phenyl that is substituted with pyridyl or alkyl that is substituted with from 1-3 Re;
        provided that R3 and R6 cannot both be hydrogen when A is CH(CH3), R and R′ are defined according to definition (1), Z is NR10R11, R10 is CH3, and R11 is unsubstituted phenyl;
        provided that when A is CRA1RA2, and one of RA1 and RA2 is OH (i.e., R9 is H), then the other of RA1 and RA2 is C1-C3 alkyl.
    
    


In certain embodiments, one or more of the following apply, e.g., when A is CHOH and Z is NR10R11:

    
    
        each of R3 and R6 is CH3; and/or each of R3 and R6 is bromo; and/or each of R3 and R6 is chloro; and/or one of R3 and R6 is CH3 (e.g., R6), and the other is bromo (e.g., R3);
        each of R10 and R11 is other than hydrogen;
        each of R10 and R11 is hydrogen;
        one of R10 and R11 is heteroaryl (optionally substituted) as defined herein; and
        L1 and/or L2 is C2-C3 alkylene (optionally substituted).
    
    


In certain embodiments, when R3 and R6 are both halo, one of RA1 and RA2 is OH and the other is hydrogen, Z is —NHR10, and R10 is C6-C10 aryl that is optionally substituted with 1 to 4 Rb, then R10 is unsubstituted phenyl or phenyl substituted with 1 Rb.
In some embodiments, one of R10 and R11 must be (b) or (c).
The compound, in some embodiments, can be (+) or (−) (dextrorotatory) when in the presence of plane polarized light. In some embodiments, the (+) (dextrorotatory) compound can be substantially free of (e.g., containing less than about 5% of, less than about 2% of, less than about 1%, less than about 0.5%) a compound that is (levororotatory). In some embodiments, the (−) (levororotatory) compound can be substantially free of (e.g., containing less than about 5% of, less than about 2% of, less than about 1%, less than about 0.5%) a compound that is (+) (dextrorotatory).
In embodiments, the carbon attached to RA1 and RA2 is substituted with four different substituents (for purposes of clarification, these four substituents include RA1 and RA2) and is therefore a stereogenic center.
In certain embodiments, the carbon attached to RA1 and RA2 is (R) configured, meaning that the carbon attached to RA1 and RA2 has the (R) configuration (Cahn Ingold Prelog sequence rules notation). Such compounds are sometimes referred to herein as an “(R)-configured compound” (this term also includes compounds that further contain one or more stereogenic centers in addition to the (R)—CRA1RA2 stereogenic center). In other embodiments, the carbon attached to RA1 and RA2 is (S) configured, meaning that the carbon attached to RA1 and RA2 has the (S) configuration (Cahn Ingold Prelog sequence rules notation). Such compounds are sometimes referred to herein as an “(S)-configured compound” (this term also includes compounds that further contain one or more stereogenic centers in addition to the (S)—CRA1RA2 stereogenic center). In embodiments, the (R) configured compound (or salt, e.g., a pharmaceutically acceptable salt, thereof) is substantially free of (e.g., contains less than about 5% of, less than about 2% of, less than about 1%, less than about 0.5% of) a compound (or salt thereof as described herein) that is (S) configured at the carbon attached to RA1 and RA2 (i.e., a compound in which the carbon attached to RA1 and RA2 has the (S) configuration). For example, the (R) configured compound can be an (R)-enantiomer that is substantially free of its opposing (S) enantiomer. As another example, an (R) configured compound can be substantially free of a diastereomer in which the carbon attached to RA1 and RA2 has the (S) configuration. In certain embodiments, the (R) configured compound can be additionally in substantially pure form (e.g., contains less than about 5% of, less than about 2% of, less than about 1%, less than about 0.5% of other substances, including, for example, one or more of other compounds). In embodiments, the (S) configured compound (or salt, e.g., a pharmaceutically acceptable salt, thereof) is substantially free of (e.g., contains less than about 5% of, less than about 2% of, less than about 1%, less than about 0.5% of) a compound (or salt thereof as described herein) that is (R) configured at the carbon attached to RA1 and RA2 (i.e., a compound in which the carbon attached to RA1 and RA2 has the (R) configuration). For example, the (S) configured compound can be an (S)-enantiomer that is substantially free of its opposing (R) enantiomer. As another example, the (S) configured compound can be substantially free of a diastereomer in which the carbon attached to RA1 and RA2 has the (R) configuration. In certain embodiments, the (S) configured compound can be additionally in substantially pure form (e.g., contains less than about 5% of, less than about 2% of, less than about 1%, less than about 0.5% of other substances, including, for example, one or more of other compounds).
The cell-protective (e.g., neuroprotective) compound of the present invention can include any one or more compounds selected from:

    R-1-(3,6-Dibromo-9H-carbazol-9-yl)-3-(3-methoxyphenylamino)-propan-2-ol;
    S-1-(3,6-Dibromo-9H-carbazol-9-yl)-3-(3-methoxyphenylamino)-propan-2-ol;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-(2-iminopyridin-1(2H)-yl)propan-2-ol;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-(phenylthio)propan-2-ol;
    N-(3-(3,6-dibromo-9H-carbazol-9-yl)-2-hydroxypropyl)-N-(3-methoxyphenyl)acetamide;
    5-((3,6-dibromo-9H-carbazol-9-yl)methyl)-3-(3-methoxyphenyl)-oxazolidin-2-one;
    N-(3-(3,6-dibromo-9H-carbazol-9-yl)-2-fluoropropyl)-3-methoxyaniline;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-(3-methoxyphenylamino)-propan-2-one;
    N-(3-(3,6-dibromo-9H-carbazol-9-yl)-2-methoxypropyl)-3-methoxyaniline;
    1-(3,6-Dimethyl-9H-carbazol-9-yl)-3-(3-methoxyphenylamino)propan-2-ol;
    1-(3-Bromo-6-methyl-9H-carbazol-9-yl)-3-(3-methoxyphenylamino)-propan-2-ol;
    1-(3,6-Dichloro-9H-carbazol-9-yl)-3-(3-methoxyphenylamino)propan-2-ol;
    1-(5-bromo-2,3-dimethyl-1H-indol-1-yl)-3-(phenylamino)propan-2-ol;
    1-(3,6-Dibromo-9H-pyrido[3,4-b]indol-9-yl)-3-(phenylamino)propan-2-ol;
    1-(3-Azidophenylamino)-3-(3,6-dibromo-9H-carbazol-9-yl)propan-2-ol;
    1,3-Bis(3,6-dibromo-9H-carbazol-9-yl)propan-2-ol;
    1-(9H-Carbazol-9-yl)-3-(3,6-dibromo-9H-carbazol-9-yl)propan-2-ol;
    3-(3,6-Dibromo-9H-carbazol-9-yl)-2-hydroxy-N-(3-methoxyphenyl)-propanamide;
    Ethyl 5-(2-Hydroxy-3-(3-methoxyphenylamino)propyl)-8-methyl-3,4-dihydro-1H-pyrido[4,3-b]indole-2(5H)-carboxylate;
    4-(3,6-dibromo-9H-carbazol-9-yl)-1-(phenylamino)butan-2-ol;
    N-(3-(3,6-dibromo-9H-carbazol-9-yl)propyl)aniline;
    1-(3,6-dibromo-9H-carbazol-9-yl)-4-(phenylamino)butan-2-ol;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-(pyridin-2-ylamino)propan-2-ol;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-((3-methoxyphenyl)(methyl)-amino)propan-2-ol;
    3-(3,6-dibromo-9H-carbazol-9-yl)-1-(3-methoxyphenylamino)-1-(methylthio)propan-2-one;
    3-amino-1-(3-(3,6-dibromo-9H-carbazol-9-yl)-2-hydroxypropyl)pyridinium;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-(pyrimidin-2-ylamino)propan-2-ol;
    N-(3-(3,6-dibromo-9H-carbazol-9-yl)-2-fluoropropyl)-3-methoxy-N-methylaniline;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-methoxypropan-2-ol;
    1-(3,6-dibromo-9H-carbazol-9-yl)-4-phenylbutan-2-ol;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-(1H-indol-1-yl)propan-2-ol;
    3-(1-(3-(3,6-dibromo-9H-carbazol-9-yl)-2-hydroxypropyl)-1H-1,2,3-triazol-4-yl)propan-1-ol;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-(3-ethoxyphenylamino)propan-2-ol;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-(3,5-dimethyl-1H-pyrazol-1-yl)propan-2-ol;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-(phenylsulfinyl)propan-2-ol;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-(phenylsulfonyl)propan-2-ol;
    1-(3-bromo-9H-carbazol-9-yl)-3-(3-methoxyphenylamino)propan-2-ol;
    N-(5-(3-(3-(3,6-dibromo-9H-carbazol-9-yl)-2-hydroxypropylamino)phenoxy)pentyl)-2-(7-(dimethylamino)-2-oxo-2H-chromen-4-yl)acetamide;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-phenoxypropan-2-ol;
    N-(2-(3-(3,6-dibromo-9H-carbazol-9-yl)-2-hydroxypropoxy)ethyl)-acetamide;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-(pyridin-3-ylamino)propan-2-ol;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-(pyridin-4-ylamino)propan-2-ol;
    1-(2,8-dimethyl-3,4-dihydro-1H-pyrido[4,3-b]indol-5(2H)-yl)-3-(phenylamino)propan-2-ol;
    N-(3-(3,6-dibromo-9H-carbazol-9-yl)-2,2-difluoropropyl)-3-methoxyaniline;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-phenoxypropan-2-ol;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-(phenylamino)propan-2-ol;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-(o-tolylamino)propan-2-ol;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-(m-tolylamino)propan-2-ol;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-(2-methoxyphenylamino)propan-2-ol;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-(naphthalen-1-ylamino)propan-2-ol;
    1-(4-bromophenylamino)-3-(3,6-dichloro-9H-carbazol-9-yl)propan-2-ol;
    1-(4-bromophenylamino)-3-(3,6-dibromo-9H-carbazol-9-yl)propan-2-ol;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-(4-ethoxyphenylamino)propan-2-ol;
    1-(4-chlorophenylamino)-3-(3,6-dibromo-9H-carbazol-9-yl)propan-2-ol;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-(phenethylamino)propan-2-ol;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-(2-hydroxyethylamino)propan-2-ol;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-(2,4-dimethoxyphenylamino)propan-2-ol;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-(2,3-dimethylphenylamino)propan-2-ol;
    1-(2-chlorophenylamino)-3-(3,6-dibromo-9H-carbazol-9-yl)propan-2-ol;
    1-(tert-butylamino)-3-(3,6-dibromo-9H-carbazol-9-yl)propan-2-ol;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-(isopropylamino)propan-2-ol;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-(4-methoxyphenylamino)propan-2-ol;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-(3-methoxyphenylamino)propan-2-ol;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-(m-tolylamino)propan-2-ol;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-(3,5-dimethylphenylamino)propan-2-ol;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-(3,4-dimethylphenylamino)propan-2-ol;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-(3,4-dimethylphenylamino)propan-2-ol;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-(2,5-dimethylphenylamino)propan-2-ol;
    1-(4-bromophenylamino)-3-(2,3-dimethyl-1H-indol-1-yl)propan-2-ol;
    1-(2,3-dimethyl-1H-indol-1-yl)-3-(4-methoxyphenylamino)propan-2-ol;
    1-(2,3-dimethyl-1H-indol-1-yl)-3-(4-ethoxyphenylamino)propan-2-ol;
    1-(2,3-dimethyl-1H-indol-1-yl)-3-(p-tolylamino)propan-2-ol;
    1-(2,3-dimethyl-1H-indol-1-yl)-3-(phenylamino)propan-2-ol oxalate;
    1-(1H-indol-1-yl)-3-(4-methoxyphenylamino)propan-2-ol hydrochloride;
    1-(1H-indol-1-yl)-3-(phenylamino)propan-2-ol oxalate;
    1-(3,4-dihydro-1H-carbazol-9(2H)-yl)-3-(m-tolylamino)propan-2-ol;
    1-(9H-carbazol-9-yl)-3-(phenylamino)propan-2-ol;
    1-(3,6-dichloro-9H-carbazol-9-yl)-3-(phenylamino)propan-2-ol;
    1-(9H-carbazol-9-yl)-3-(p-tolylamino)propan-2-ol;
    1-(3,6-dichloro-9H-carbazol-9-yl)-3-(p-tolylamino)propan-2-ol;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-(p-tolylamino)propan-2-ol;
    N-(4-(3-(9H-carbazol-9-yl)-2-hydroxypropoxy)phenyl)acetamide;
    1-(9H-carbazol-9-yl)-3-phenoxypropan-2-ol;
    1-(9H-carbazol-9-yl)-3-(4-methoxyphenylamino)propan-2-ol;
    1-(benzylamino)-3-(9H-carbazol-9-yl)propan-2-ol;
    methyl 4-(3-(9H-carbazol-9-yl)-2-hydroxypropoxy)benzoate;
    1-(9H-carbazol-9-yl)-3-(4-methoxyphenoxy)propan-2-ol;
    1-amino-3-(3,6-dibromo-9H-carbazol-9-yl)propan-2-ol;
    (S)-1-(3,6-dibromo-9H-carbazol-9-yl)-3-phenoxypropan-2-ol;
    (R)-1-(3,6-dibromo-9H-carbazol-9-yl)-3-phenoxypropan-2-ol;
    3,6-dibromo-9-(2-fluoro-3-phenoxypropyl)-9H-carbazole;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-(3-methoxyphenylamino)-2-methylpropan-2-ol;
    1-(2,8-dimethyl-3,4-dihydro-1H-pyrido[4,3-b]indol-5(2H)-yl)-3-(3-methoxyphenylamino)propan-2-ol;
    1-(4-azidophenylamino)-3-(3,6-dibromo-9H-carbazol-9-yl)propan-2-ol;
    1-(3-azido-6-bromo-9H-carbazol-9-yl)-3-(3-methoxyphenylamino)propan-2-ol;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-(4-methoxyphenoxy) propan-2-ol;
    1-(3,6-dichloro-9H-carbazol-9-yl)-3-(phenylsulfonyl)propan-2-ol;
    3,6-dibromo-9-(2-fluoro-3-(phenylsulfonyl)propyl)-9H-carbazole;
    S)-1-(3,6-dibromo-9H-carbazol-9-yl)-3-(phenylsulfonyl) propan-2-ol;
    (R)-1-(3,6-dibromo-9H-carbazol-9-yl)-3-(phenylsulfonyl) propan-2-ol;
    1-(3,6-dicyclopropyl-9H-carbazol-9-yl)-3-(phenylamino) propan-2-ol;
    1-(3,6-diiodo-9H-carbazol-9-yl)-3-(phenylamino)propan-2-ol;
    1-(3,6-diethynyl-9H-carbazol-9-yl)-3-(3-methoxyphenylamino) propan-2-ol;
    9-(2-hydroxy-3-(3-methoxyphenylamino)propyl)-9H-carbazole-3,6-dicarbonitrile;
    N-(3-(3,6-dibromo-9H-carbazol-9-yl)-2-fluoropropyl)aniline;
    3,6-dibromo-9-(2,2-difluoro-3-phenoxypropyl)-9H-carbazole;
    N-(3-(3,6-dibromo-9H-carbazol-9-yl)-2-fluoropropyl)-4-methoxyaniline;
    N-(2-bromo-3-(3,6-dibromo-9H-carbazol-9-yl)propyl)-N-(4-methoxyphenyl)-4-nitrobenzenesulfonamide;
    Ethyl 2-(4-(3-(3,6-dibromo-9H-carbazol-9-yl)-2-fluoropropylamino)phenoxy)acetate; and
    N-(3-(3,6-dibromo-9H-carbazol-9-yl)-2-fluoropropyl)-4-(2-(2-methoxyethoxyl)ethoxy)aniline;
    N-(2-(2-(4-(3-(3,6-dibromo-9H-carbazol-9-yl)-2-fluoropropylamino)phenoxy)acetamido)ethyl)-5-(2-oxohexahydro-1H-thieno[3,4-d]imidazol-4-yl)pentanamide;
    2-(4-(3-(3,6-dibromo-9H-carbazol-9-yl)-2-fluoropropylamino)phenoxy)-N,N-dimethylacetamide;
    2-(4-(3-(3,6-dibromo-9H-carbazol-9-yl)-2-fluoropropylamino)phenoxy)-N-(2-hydroxyethyl)acetamide;
    1-(bis(4-bromophenyl)amino)-3-(phenylamino)propan-2-ol;
    (E)-3,6-dibromo-9-(3-phenoxyallyl)-9H-carbazole;
    (E)-3,6-dibromo-9-(3-phenoxyprop-1-en-1-yl)-9H-carbazole;
    1-(3,6-bis(trifluoromethyl)-9H-carbazol-9-yl)-3-(phenylamino)propan-2-ol;
    1-(2,8-Dibromo-10,11-dihydro-5H-dibenzo[b,f]azepin-5-yl)-3-(3-methoxyphenylamino)propan-2-ol;
    1-(3,6-Dibromo-9H-carbazol-9-yl)-3-(3-methoxyphenylthio)propan-2-ol;
    1-(3,6-Dibromo-9H-carbazol-9-yl)-3-(4-methoxyphenylthio)propan-2-ol;
    3,6-Dibromo-9-(2-fluoro-3-(3-methoxyphenylthio)propyl)-9H-carbazole;
    3,6-Dibromo-9-(2-fluoro-3-(4-methoxyphenylthio)propyl)-9H-carbazole;
    3,6-Dibromo-9-(2-fluoro-3-(3-methoxyphenylsulfonyl)propyl)-9H-carbazole;
    1-(3,6-Dibromo-9H-carbazol-9-yl)-3-(3-methoxyphenylsulfonyl)propan-2-ol;
    3,6-Dibromo-9-(2-fluoro-3-(4-methoxyphenylsulfonyl)propyl)-9H-carbazole;
    1-(3,6-Dibromo-9H-carbazol-9-yl)-3-(4-methoxyphenylsulfonyl)propan-2-ol;
    3-(3-(3,6-Dibromo-9H-carbazol-9-yl)-2-hydroxypropylthio)phenol;
    4-(3-(3,6-Dibromo-9H-carbazol-9-yl)-2-hydroxypropylthio)phenol;
    3-(3-(3,6-Dibromo-9H-carbazol-9-yl)-2-hydroxypropylsulfonyl)phenol;
    4-(3-(3,6-Dibromo-9H-carbazol-9-yl)-2-hydroxypropylsulfonyl)phenol;
    1-(3-Aminophenylthio)-3-(3,6-dibromo-9H-carbazol-9-yl)propan-2-ol;
    1-(4-Aminophenylthio)-3-(3,6-dibromo-9H-carbazol-9-yl)propan-2-ol;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-phenoxypropan-2-amine;
    N-Benzyl-2-(3-(3-(3,6-dibromo-9H-carbazol-9-yl)-2-hydroxypropylthio)-phenoxy)acetamide;
    N-Benzyl-2-(4-(3-(3,6-dibromo-9H-carbazol-9-yl)-2-hydroxypropylthio)-phenoxy)acetamide;
    3-(3-(3,6-Dibromo-9H-carbazol-9-yl)-2-fluoropropylsulfonyl)phenol;
    N-Benzyl-2-(3-(3-(3,6-dibromo-9H-carbazol-9-yl)-2-hydroxypropylsulfonyl)-phenoxy)acetamide;
    4-(3-(3,6-Dibromo-9H-carbazol-9-yl)-2-fluoropropylsulfonyl)phenol;
    5-(5-(3-(3-(3,6-dibromo-9H-carbazol-9-yl)-2-hydroxypropylamino)phenoxy)pentylcarbamoyl)-2-(6-hydroxy-3-oxo-3H-xanthen-9-yl)benzoic acid;
    1-(8-bromo-3,4-dihydro-1H-pyrido[4,3-b]indol-5(2H)-yl)-3-phenoxypropan-2-ol;
    1-(8-bromo-2-cyclopropyl-3,4-dihydro-1H-pyrido[4,3-b]indol-5(2H)-yl)-3-phenoxypropan-2-ol;
    8-bromo-5-(2-hydroxy-3-phenoxypropyl)-3,4-dihydro-1H-pyrido[4,3-b]indole-2(5H)-carbonitrile;
    8-bromo-5-(2-fluoro-3-phenoxypropyl)-2,3,4,5-tetrahydro-1H-pyrido[4,3-b]indole;
    1-(cyclohexylamino)-3-(3,6-dibromo-9H-carbazol-9-yl)propan-2-ol;
    (9-(2-hydroxy-3-(phenylthio)propyl)-9H-carbazole-3,6-dicarbonitrile;
    9-(2-hydroxy-3-phenoxypropyl)-9H-carbazole-3,6-dicarbonitrile;
    R—N-(3-(3,6-dibromo-9H-carbazol-9-yl)-2-fluoropropyl)-3-methoxyaniline
    S—N-(3-(3,6-dibromo-9H-carbazol-9-yl)-2-fluoropropyl)-3-methoxyaniline
    N-(2-(3,6-dibromo-9H-carbazol-9-yl)ethyl)aniline;
    2-(6-Amino-3-imino-3H-xanthen-9-yl)-4-(6-(5-(3-(3-(3,6-dibromo-9H-carbazol-9-yl)-2-hydroxypropylamino)phenoxy)pentylamino)-6-oxohexylcarbamoyl)benzoic acid AND
    2-(6-amino-3-imino-3H-xanthen-9-yl)-5-(6-(5-(3-(3-(3,6-dibromo-9H-carbazol-9-yl)-2-hydroxypropylamino)phenoxy)pentylamino)-6-oxohexylcarbamoyl)benzoic acid;
    1-(8-bromo-2-methyl-3,4-dihydro-1H-pyrido[4,3-b]indol-5(2H)-yl)-3-phenoxypropan-2-ol;
    6-((4-bromophenyl)(2-hydroxy-3-phenoxypropyl)amino)nicotinonitrile;
    1-(3-(3,6-dibromo-9H-carbazol-9-yl)-2-hydroxypropyl)pyridin-2(1H)-one;
    9-(2-hydroxy-3-phenoxypropyl)-9H-carbazole-3-carbonitrile;
    tert-butyl(5-(4-((3-(3,6-dibromo-9H-carbazol-9-yl)-2-hydroxypropyl)sulfonyl) phenoxy)pentyl)carbamate;
    6-bromo-9-(2-hydroxy-3-phenoxypropyl)-9H-carbazole-3-carbonitrile;
    6-bromo-9-(2-hydroxy-3-phenoxypropyl)-9H-carbazole-3-carboxamide;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-(pyridin-2-yloxy)propan-2-ol;
    methyl 6-bromo-9-(2-hydroxy-3-phenoxypropyl)-9H-carbazole-3-carboxylate;
    6-bromo-9-(2-hydroxy-3-phenoxypropyl)-9H-carbazole-3-carboxylic acid;
    6-bromo-9-(2-hydroxy-3-phenoxypropyl)-9H-pyrido[2,3-b]indole-3-carbonitrile;
    9-(2-hydroxy-3-phenoxypropyl)-9H-pyrido[2,3-b]indole-3-carbonitrile;
    tert-butyl 3-(2-(2-(2-(3-((3-(3,6-dibromo-9H-carbazol-9-yl)-2-hydroxypropyl)amino)phenoxy)ethoxy)ethoxy)ethoxy)propanoate;
    1-(3,6-dibromo-1,4-dimethoxy-9H-carbazol-9-yl)-3-(phenylamino)propan-2-ol;
    1-(3,6-dibromo-1,8-dimethyl-9H-carbazol-9-yl)-3-(phenylamino)propan-2-ol;
    2-(3,6-dibromo-9H-carbazol-9-yl)acetic acid;
    1-(6-bromo-3-methoxy-1-methyl-9H-carbazol-9-yl)-3-(phenylamino)propan-2-ol;
    1-(4,6-dibromo-3-methoxy-1-methyl-9H-carbazol-9-yl)-3-(phenylamino)propan-2-ol;
    1-(3,6-dibromo-4-methoxy-9H-carbazol-9-yl)-3-(phenylamino)propan-2-ol;
    9-(2-hydroxy-3-phenoxypropyl)-9H-pyrido[3,4-b]indole-3-carboxylic acid;
    6-bromo-9-(2-hydroxy-3-phenoxypropyl)-9H-pyrido[3,4-b]indole-3-carboxylic acid;
    ethyl 6-bromo-9-(2-hydroxy-3-phenoxypropyl)-9H-pyrido[3,4-b]indole-3-carboxylate;
    9-(2-fluoro-3-phenoxypropyl)-9H-carbazole-3,6-dicarbonitrile;
    9-(2-hydroxy-2-methyl-3-phenoxypropyl)-9H-carbazole-3,6-dicarbonitrile;
    1-(cyclohexyloxy)-3-(3,6-dibromo-9H-carbazol-9-yl)propan-2-ol;
    (E)-N-(3-(3,6-dibromo-9H-carbazol-9-yl)prop-1-en-1-yl)-1,1,1-trifluoro-N-(3-methoxyphenyl)methanesulfonamide;
    1-(3,6-dibromo-9H-pyrido[2,3-b]indol-9-yl)-3-phenoxypropan-2-ol;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-((6-methoxypyridin-2-yl)amino)propan-2-ol;
    1-(8-bromo-5H-pyrido[4,3-b]indol-5-yl)-3-phenoxypropan-2-ol;
    6-bromo-9-(2-hydroxy-3-phenoxypropyl)-9H-pyrido[3,4-b]indole-3-carboxamide;
    8-bromo-5-(2-hydroxy-3-phenoxypropyl)-5H-pyrido[4,3-b]indole 2-oxide;
    8-bromo-5-(2-hydroxy-3-phenoxypropyl)-5H-pyrido[3,2-b]indole 1-oxide;
    (6-bromo-9H-pyrido[3,4-b]indol-3-yl)methanol;
    ethyl 6-bromo-9H-pyrido[3,4-b]indole-3-carboxylate;
    tert-butyl(3-(3,6-dibromo-9H-carbazol-9-yl)-2-fluoropropyl)carbamate;
    2-(3,6-dibromo-9H-carbazol-9-yl)-N-methylacetamide;
    3-(3,6-dibromo-9H-carbazol-9-yl)-2-fluoropropan-1-amine hydrochloride;
    N-(3-(3,6-dibromo-9H-carbazol-9-yl)-2-fluoropropyl)acetamide;
    2-(3,6-dibromo-9H-carbazol-9-yl)propanamide;
    6-bromo-9H-pyrido[3,4-b]indole-3-carbonitrile;
    6-bromo-3-methyl-9H-pyrido[3,4-b]indole;
    methyl(2-(3,6-dibromo-9H-carbazol-9-yl)acetyl)carbamate;
    N-(3-(3,6-dibromo-9H-carbazol-9-yl)-2-fluoropropyl)-1,1,1-trifluoro-N-(3-methoxyphenyl)methanesulfonamide;
    N-(3-(3,6-dibromo-9H-carbazol-9-yl)-2-fluoropropyl)-6-methoxypyridin-2-amine;
    N-(3-(3,6-dibromo-9H-carbazol-9-yl)-2-hydroxypropyl)-1,1,1-trifluoro-N-(3-methoxyphenyl)methanesulfonamide;
    1-(3,6-dibromo-9H-carbazol-9-yl)-3-((4-methoxybenzyl)(3-methoxyphenyl)amino)propan-2-ol;
    N-(3-(3,6-dibromo-9H-carbazol-9-yl)-2-hydroxypropyl)-2,2,2-trifluoroacetamide;
    tert-butyl(3-(3,6-dibromo-9H-carbazol-9-yl)-2-hydroxypropyl)carbamate;
    5-(2-hydroxy-3-phenoxypropyl)-5H-pyrimido[5,4-b]indole-2-carboxylic acid;
    N-(3-(3,6-dibromo-9H-carbazol-9-yl)-2-hydroxypropyl)acetamide;
    ethyl(3-(3,6-dibromo-9H-carbazol-9-yl)-2-hydroxypropyl)carbamate;
    6-bromo-9-(3-(4-bromophenoxy)-2-hydroxypropyl)-9H-carbazole-3-carbonitrile;
    methyl 9-(2-hydroxy-3-phenoxypropyl)-9H-pyrido[3,4-b]indole-3-carboxylate;
    N-(3-(3-bromo-6-methyl-9H-carbazol-9-yl)-2-fluoropropyl)-6-methoxypyridin-2-amine;

or a salt (e.g., a pharmaceutically acceptable salt) thereof.



In some embodiments, the compound can be those listed in Table 1, in particular those having a Δ(Sinf−S0)/AC50 value greater than about 0, or greater than about 1, or greater than about 2, or greater than about 3, or greater than about 4, or greater than about 5, or greater than about 10, or greater than about 20, or greater than about 30, or greater than about 40, or greater than about 50, or greater than about 60, or greater than about 70, or greater than about 80, or greater than about 90, or greater than about 100.
The compounds can be further studied, purified and/or modified. For example, the compounds may contain one or more asymmetric centers and thus occur as racemates and racemic mixtures, enantiomerically enriched mixtures, single enantiomers, individual diastereomers and diastereomeric mixtures. All such isomeric forms of these compounds are expressly included in the present disclosure. The compounds of the present disclosure may also contain linkages (e.g., carbon-carbon bonds, carbon-nitrogen bonds such as amide bonds) wherein bond rotation is restricted about that particular linkage, e.g. restriction resulting from the presence of a ring or double bond. Accordingly, all cis/trans and E/Z isomers and rotational isomers are expressly included in the present disclosure. The compounds of the present disclosure may also be represented in multiple tautomeric forms, in such instances, the present disclosure expressly includes all tautomeric forms of the compounds described herein, even though only a single tautomeric form may be represented. All such isomeric forms of such compounds are expressly included in the present disclosure.
Optical isomers can be obtained in pure form by standard procedures known to those skilled in the art, and include, but are not limited to, diastereomeric salt formation, kinetic resolution, and asymmetric synthesis. See, for example, Jacques, et al., Enantiomers, Racemates and Resolutions (Wiley Interscience, New York, 1981); Wilen, S. H., et al., Tetrahedron 33:2725 (1977); Eliel, E. L. Stereochemistry of Carbon Compounds (McGraw-Hill, NY, 1962); Wilen, S. H. Tables of Resolving Agents and Optical Resolutions p. 268 (E. L. Eliel, Ed., Univ. of Notre Dame Press, Notre Dame, Ind. 1972), each of which is incorporated herein by reference in their entireties. It is also understood that the present disclosure encompass all possible regioisomers, and mixtures thereof, which can be obtained in pure form by standard separation procedures known to those skilled in the art, and include, but are not limited to, column chromatography, thin-layer chromatography, and high-performance liquid chromatography.
The compounds of the present disclosure include the compounds themselves, as well as their salts and their prodrugs, if applicable. A salt, for example, can be formed between an anion and a positively charged substituent (e.g., amino) on a compound described herein. Suitable anions include chloride, bromide, iodide, sulfate, nitrate, phosphate, citrate, methanesulfonate, trifluoroacetate, and acetate. Likewise, a salt can also be formed between a cation and a negatively charged substituent (e.g., carboxylate) on a compound described herein. Suitable cations include sodium ion, potassium ion, magnesium ion, calcium ion, and an ammonium cation such as tetramethylammonium ion. Examples of prodrugs include C1-6 alkyl esters of carboxylic acid groups, which, upon administration to a subject, are capable of providing active compounds.
Pharmaceutically acceptable salts of the compounds of the present disclosure include those derived from pharmaceutically acceptable inorganic and organic acids and bases. As used herein, the term “pharmaceutically acceptable salt” refers to a salt formed by the addition of a pharmaceutically acceptable acid or base to a compound disclosed herein. As used herein, the phrase “pharmaceutically acceptable” refers to a substance that is acceptable for use in pharmaceutical applications from a toxicological perspective and does not adversely interact with the active ingredient.
Examples of suitable acid salts include acetate, adipate, alginate, aspartate, benzoate, benzenesulfonate, bisulfate, butyrate, citrate, camphorate, camphorsulfonate, digluconate, dodecylsulfate, ethanesulfonate, formate, fumarate, glucoheptanoate, glycolate, hemisulfate, heptanoate, hexanoate, hydrochloride, hydrobromide, hydroiodide, 2-hydroxyethanesulfonate, lactate, maleate, malonate, methanesulfonate, 2-naphthalenesulfonate, nicotinate, nitrate, palmoate, pectinate, persulfate, 3-phenylpropionate, phosphate, picrate, pivalate, propionate, salicylate, succinate, sulfate, tartrate, thiocyanate, tosylate and undecanoate. Other acids, such as oxalic, while not in themselves pharmaceutically acceptable, may be employed in the preparation of salts useful as intermediates in obtaining the compounds of the present disclosure and their pharmaceutically acceptable acid addition salts. Salts derived from appropriate bases include alkali metal (e.g., sodium), alkaline earth metal (e.g., magnesium), ammonium and N-(alkyl)4+ salts. The present disclosure also envisions the quaternization of any basic nitrogen-containing groups of the compounds disclosed herein. Water or oil-soluble or dispersible products may be obtained by such quaternization. Salt forms of the compounds of any of the formulae herein can be amino acid salts of carboxyl groups (e.g. L-arginine, -lysine, -histidine salts).
Lists of suitable salts are found in Remington's Pharmaceutical Sciences, 17th ed., Mack Publishing Company, Easton, Pa., 1985, p. 1418; Journal of Pharmaceutical Science, 66, 2 (1977); and “Pharmaceutical Salts: Properties, Selection, and Use A Handbook; Wermuth, C. G. and Stahl, P. H. (eds.) Verlag Helvetica Chimica Acta, Zurich, 2002 [ISBN 3-906390-26-8] each of which is incorporated herein by reference in their entireties.
The neutral forms of the compounds may be regenerated by contacting the salt with a base or acid and isolating the parent compound in the conventional manner. The parent form of the compound differs from the various salt forms in certain physical properties, such as solubility in polar solvents, but otherwise the salts are equivalent to the parent form of the compound for the purposes of the present disclosure.
In addition to salt forms, the present disclosure provides compounds which are in a prodrug form. Prodrugs of the compounds described herein are those compounds that undergo chemical changes under physiological conditions to provide the compounds of the present disclosure. Additionally, prodrugs can be converted to the compounds of the present disclosure by chemical or biochemical methods in an ex vivo environment. For example, prodrugs can be slowly converted to the compounds of the present disclosure when placed in a transdermal patch reservoir with a suitable enzyme or chemical reagent. Prodrugs are often useful because, in some situations, they may be easier to administer than the parent drug. They may, for instance, be more bioavailable by oral administration than the parent drug. The prodrug may also have improved solubility in pharmacological compositions over the parent drug. A wide variety of prodrug derivatives are known in the art, such as those that rely on hydrolytic cleavage or oxidative activation of the prodrug. An example, without limitation, of a prodrug would be a compound of the present disclosure which is administered as an ester (the “prodrug”), but then is metabolically hydrolyzed to the carboxylic acid, the active entity. Additional examples include peptidyl derivatives of a compound of the present disclosure.
The present disclosure also includes various hydrate and solvate forms of the compounds.
The compounds of the present disclosure may also contain unnatural proportions of atomic isotopes at one or more of the atoms that constitute such compounds. For example, the compounds may be radiolabeled with radioactive isotopes, such as for example tritium (3H), iodine-125 (125I) or carbon-14 (14C). All isotopic variations of the compounds of the present disclosure, whether radioactive or not, are intended to be encompassed within the scope of the present disclosure.
Synthesis
The compounds of the present disclosure can be conveniently prepared in accordance with the procedures outlined in the Examples sections of U.S. Pat. No. 8,362,277; U.S. Publication No. 2011/0015217; U.S. Publication No. 2012/0022096; U.S. Publication No. 2013/0040977; U.S. application Ser. No. 14/339,772 filed Jul. 24, 2014; U.S. Provisional Patent Application No. 61/902,680 filed Nov. 11, 2013 and U.S. Provisional Patent Application No. 61/912,625 filed Dec. 6, 2013, all of which are hereby incorporated herein by reference in their entirety. The compounds can also be prepared from commercially available starting materials, compounds known in the literature, or readily prepared intermediates, by employing standard synthetic methods and procedures known to those skilled in the art. Standard synthetic methods and procedures for the preparation of organic molecules and functional group transformations and manipulations can be readily obtained from the relevant scientific literature or from standard textbooks in the field. 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. Those skilled in the art of organic synthesis will recognize that the nature and order of the synthetic steps presented may be varied for the purpose of optimizing the formation of the compounds described herein.
Synthetic chemistry transformations (including protecting group methodologies) useful in synthesizing the compounds described herein are known in the art and include, for example, those such as described in R. C. Larock, Comprehensive Organic Transformations, 2d. ed., Wiley-VCH Publishers (1999); P. G. M. Wuts and T. W. Greene, Protective Groups in Organic Synthesis, 4th Ed., John Wiley and Sons (2007); L. Fieser and M. Fieser, Fieser and Fieser's Reagents for Organic Synthesis, John Wiley and Sons (1994); and L. Paquette, ed., Encyclopedia of Reagents for Organic Synthesis, John Wiley and Sons (1995), and subsequent editions thereof.
The processes described herein can be monitored according to any suitable method known in the art. For example, product formation can be monitored by spectroscopic means, such as nuclear magnetic resonance spectroscopy (e.g., 1H or 13C), infrared spectroscopy (FT-IR), spectrophotometry (e.g., UV-visible), or mass spectrometry (MS), or by chromatography such as high performance liquid chromatography (HPLC) or thin layer chromatography (TLC).
Preparation of compounds can involve the protection and deprotection of various chemical groups. The need for protection and deprotection, and the selection of appropriate protecting groups can be readily determined by one skilled in the art. The chemistry of protecting groups can be found, for example, in Greene, et al., Protective Groups in Organic Synthesis, 2d. Ed., Wiley & Sons, 1991, which is incorporated herein by reference in its entirety.
The reactions of the processes described herein can be carried out in suitable solvents which can be readily selected by one of skill in the art of organic synthesis. Suitable solvents can be substantially nonreactive with the starting materials (reactants), the intermediates, or products at the temperatures at which the reactions are carried out, i.e., temperatures which can range from the solvent's freezing temperature to the solvent's boiling temperature. A given reaction can be carried out in one solvent or a mixture of more than one solvent. Depending on the particular reaction step, suitable solvents for a particular reaction step can be selected.
Resolution of racemic mixtures of compounds can be carried out by any of numerous methods known in the art. An example method includes preparation of the Mosher's ester or amide derivative of the corresponding alcohol or amine, respectively. The absolute configuration of the ester or amide is then determined by proton and/or 19F NMR spectroscopy. An example method includes fractional recrystallization using a “chiral resolving acid” which is an optically active, salt-forming organic acid. Suitable resolving agents for fractional recrystallization methods are, for example, optically active acids, such as the D and L forms of tartaric acid, diacetyltartaric acid, dibenzoyltartaric acid, mandelic acid, malic acid, lactic acid or the various optically active camphorsulfonic acids. Resolution of racemic mixtures can also be carried out by elution on a column packed with an optically active resolving agent (e.g., dinitrobenzoylphenylglycine). Suitable elution solvent compositions can be determined by one skilled in the art.
Pharmaceutical Compositions
The term “pharmaceutically acceptable carrier” refers to a carrier or adjuvant that may be administered to a subject (e.g., a patient), together with a compound of the present disclosure, and which does not destroy the pharmacological activity thereof and is nontoxic when administered in doses sufficient to deliver a therapeutic amount of the compound.
Pharmaceutically acceptable carriers, adjuvants and vehicles that may be used in the compositions of the present disclosure include, but are not limited to, ion exchangers, alumina, aluminum stearate, lecithin, self-emulsifying drug delivery systems (SEDDS) such as d-α-tocopherol polyethyleneglycol 1000 succinate, surfactants used in pharmaceutical dosage forms such as Tweens or other similar polymeric delivery matrices, serum proteins, such as human serum albumin, buffer substances such as phosphates, glycine, sorbic acid, potassium sorbate, partial glyceride mixtures of saturated vegetable fatty acids, water, salts, or electrolytes, such as protamine sulfate, disodium hydrogen phosphate, potassium hydrogen phosphate, sodium chloride, zinc salts, colloidal silica, magnesium trisilicate, polyvinyl pyrrolidone, cellulose-based substances, polyethylene glycol, sodium carboxymethylcellulose, polyacrylates, waxes, polyethylene-polyoxypropylene-block polymers, polyethylene glycol and wool fat. Cyclodextrins such as α-, β-, and γ-cyclodextrin, or chemically modified derivatives such as hydroxyalkylcyclodextrins, including 2- and 3-hydroxypropyl-β-cyclodextrins, or other solubilized derivatives may also be advantageously used to enhance delivery of compounds of the formulae described herein.
The compositions for administration can take the form of bulk liquid solutions or suspensions, or bulk powders. More commonly, however, the compositions are presented in unit dosage forms to facilitate accurate dosing. The term “unit dosage forms” refers to physically discrete units suitable as unitary dosages for human subjects and other mammals, each unit containing a predetermined quantity of active material calculated to produce the desired therapeutic effect, in association with a suitable pharmaceutical excipient. Typical unit dosage forms include prefilled, premeasured ampules or syringes of the liquid compositions or pills, tablets, capsules, losenges or the like in the case of solid compositions. In such compositions, the compound is usually a minor component (from about 0.1 to about 50% by weight or preferably from about 1 to about 40% by weight) with the remainder being various vehicles or carriers and processing aids helpful for forming the desired dosing form.
The amount administered depends on the compound formulation, route of administration, etc. and is generally empirically determined in routine trials, and variations will necessarily occur depending on the target, the host, and the route of administration, etc. Generally, the quantity of active compound in a unit dose of preparation may be varied or adjusted from about 1, 3, 10 or 30 to about 30, 100, 300 or 1000 mg, according to the particular application. In a particular embodiment, unit dosage forms are packaged in a multipack adapted for sequential use, such as blisterpack, comprising sheets of at least 6, 9 or 12 unit dosage forms. The actual dosage employed may be varied depending upon the requirements of the patient and the severity of the condition being treated. Determination of the proper dosage for a particular situation is within the skill of the art. Generally, treatment is initiated with smaller dosages which are less than the optimum dose of the compound. Thereafter, the dosage is increased by small amounts until the optimum effect under the circumstances is reached. For convenience, the total daily dosage may be divided and administered in portions during the day if desired.
The following are examples (Formulations 1-4) of capsule formulations.
Capsule Formulations













Capsule Formulation












Formula-
Formula-
Formula-
Formula-



tion 1
tion 2
tion 3
tion 4



mg/capsule
mg/capsule
mg/capsule
mg/capsule















Compound
100
400
400
200


(solid solution)


Silicon Dioxide
0.625
2.5
3.75
1.875


Magnesium
0.125
0.5
0.125
0.625


Stearate NF2


Croscarmellose
11.000
44.0
40.0
20.0


Sodium NF


Pluronic F68
6.250
25.0
50.0
25.0


NF


Silicon Dioxide
0.625
2.5
3.75
1.875


NF


Magnesium
0.125
0.5
1.25
0.625


Stearate NF




Total
118.750
475.00
475.00
475.00


Capsule Size
No. 4
No. 0
No. 0
No. 2









Preparation of Solid Solution

Crystalline compound (80 g/batch) and the povidone (NF K29/32 at 160 g/batch) are dissolved in methylene chloride (5000 mL). The solution is dried using a suitable solvent spray dryer and the residue reduced to fine particles by grinding. The powder is then passed through a 30 mesh screen and confirmed to be amorphous by x-ray analysis.
The solid solution, silicon dioxide and magnesium stearate are mixed in a suitable mixer for 10 minutes. The mixture is compacted using a suitable roller compactor and milled using a suitable mill fitted with 30 mesh screen. Croscarmellose sodium, Pluronic F68 and silicon dioxide are added to the milled mixture and mixed further for 10 minutes. A premix is made with magnesium stearate and equal portions of the mixture. The premix is added to the remainder of the mixture, mixed for 5 minutes and the mixture encapsulated in hard shell gelatin capsule shells.
Use
The compounds disclosed herein can be used, in one aspect, to treat DNA-damaging agent (e.g., anthracycline) mediated cardiotoxicity. The compounds can also be used to treat one or more diseases, disorders, or conditions caused by, or associated with, aberrant (e.g., insufficient) neurogenesis or accelerated neuron cell death in a subject in need thereof.
In one aspect, methods for treating (e.g., controlling, relieving, ameliorating, alleviating, or slowing the progression of) or methods for preventing (e.g., delaying the onset of or reducing the risk of developing) one or more diseases, disorders, or conditions. The methods include administering to the subject an effective amount of a compound of formula (I) (and/or any other compound described herein) or a salt (e.g., a pharmaceutically acceptable salt) thereof as defined anywhere herein to the subject.
In another aspect, the use of a compound of formula (I) (and/or any other compound described herein) or a salt (e.g., a pharmaceutically acceptable salt) thereof as defined anywhere herein in the preparation of, or for use as, a medicament for the treatment (e.g., controlling, relieving, ameliorating, alleviating, or slowing the progression of) or prevention (e.g., delaying the onset of or reducing the risk of developing) of one or more diseases, disorders, or conditions.
In embodiments, the one or more diseases, disorders, or conditions can include DNA-damaging agent (e.g., anthracycline) mediated cardiotoxicity, neuropathies, nerve trauma, and neurodegenerative diseases. In embodiments, the one or more diseases, disorders, or conditions can be diseases, disorders, or conditions caused by, or associated with aberrant (e.g., insufficient) neurogenesis (e.g., aberrant hippocampal neurogenesis as is believed to occur in neuropsychiatric diseases) or accelerated death of existing neurons. Examples of the diseases, disorders, or conditions include, but are not limited to, DNA-damaging agent (e.g., anthracycline) mediated cardiotoxicity, schizophrenia, major depression, bipolar disorder, normal aging, epilepsy, traumatic brain injury and/or a visual symptom associated therewith, post-traumatic stress disorder, Parkinson's disease, Alzheimer's disease, Down syndrome, spinocerebellar ataxia, amyotrophic lateral sclerosis, Huntington's disease, stroke, radiation therapy, chronic stress, abuse of a neuro-active drug, retinal degeneration, spinal cord injury, peripheral nerve injury, physiological weight loss associated with various conditions, cognitive decline and/or general frailty associated with normal aging and/or chemotherapy, chemotherapy induced neuropathy, concussive injury, crush injury, peripheral neuropathy, diabetic neuropathy, post-traumatic headache, multiple sclerosis, retinal degeneration and dystrophy (such as Leber congenital amaurosis, retinitis pigmentosa, cone-rod dystrophy, microphthalmia, anophthalmia, myopia, and hyperopia), spinal cord injury, traumatic spinal cord injury, peripheral nerve injury (such as peripheral nerve crush injury, neonatal brachial plexus palsy, and traumatic facial nerve palsy), retinal neuronal death related diseases (such as glaucoma and age related macular degeneration, diabetic retinopathy, retinal blood vessel occlusions, retinal medication toxicity (such as what amino glycosides or plaquenil can cause), retinal trauma (e.g., post-surgical), retinal infections, choroidal dystrophies, retinal pigmentary retinopathies, inflammatory and cancer mediated auto immune diseases that result in retinal neuronal cell death), Autism, Stargardt disease, Kearns-Sayre syndrome, Pure neurosensory deafness, Hereditary hearing loss with retinal diseases, Hereditary hearing loss with system atrophies of the nervous system, Progressive spinal muscular atrophy, Progressive bulbar palsy, Primary lateral sclerosis, Hereditary forms of progressive muscular atrophy and spastic paraplegia, Frontotemporal dementia, Dementia with Lewy bodies, Corticobasal degeneration, Progressive supranuclear palsy, Prion disorders causing neurodegeneration, Multiple system atrophy (olivopontocerebellar atrophy), Hereditary spastic paraparesis, Friedreich ataxia, Non-Friedreich ataxia, Spinocerebellar atrophies, Amyloidoses, Metabolic-related (e.g., Diabetes) neurodegenerative disorders, Toxin-related neurodegenerative disorders, Multiple sclerosis, Charcot Marie Tooth, Diabetic neuropathy, Metabolic neuropathies, Endocrine neuropathies, Orthostatic hypotension, Creutzfeldt-Jacob Disease, Primary progressive aphasia, Frontotemporal Lobar Degeneration, Cortical blindness, Shy-Drager Syndrome (Multiple, System Atrophy with Orthostatic Hypotension), Diffuse cerebral cortical atrophy of non-Alzheimer type, Lewy-body dementia, Pick disease (lobar atrophy), Thalamic degeneration, Mesolimbocortical dementia of non-Alzheimer type, Nonhuntingtonian types of chorea and dementia, Cortical-striatal-spinal degeneration, Dementia-Parkinson-amyotrophic lateral sclerosis complex, Cerebrocerebellar degeneration, Cortico-basal ganglionic degeneration, Familial dementia with spastic paraparesis or myoclonus, and Tourette syndrome.
The resultant promotion of neurogenesis or survival of existing neurons (i.e., a resultant promotion of survival, growth, development, function and/or generation of neurons) may be detected directly, indirectly or inferentially from an improvement in, or an amelioration of one or more symptoms of the disease or disorder caused by or associated with aberrant neurogenesis or survival of existing neurons. Suitable assays which directly or indirectly detect neural survival, growth, development, function and/or generation are known in the art, including axon regeneration in rat models (e.g. Park et al., Science. 2008 Nov. 7; 322:963-6), nerve regeneration in a rabbit facial nerve injury models (e.g. Zhang et al., J Transl Med. 2008 Nov. 5; 6(1):67); sciatic nerve regeneration in rat models (e.g. Sun et al., Cell Mol Neurobiol. 2008 Nov. 6); protection against motor neuron degeneration in mice (e.g. Poesen et al., J. Neurosci. 2008 Oct. 15; 28(42):10451-9); rat model of Alzheimer's disease, (e.g. Xuan et al., Neurosci Lett. 2008 Aug. 8; 440(3):331-5); animal models of depression (e.g. Schmidt et al., Behav Pharmacol. 2007 September; 18(5-6):391-418; Krishnan et al., Nature 2008, 455, 894-902); and/or those exemplified herein.
Administration
The compounds and compositions described herein can, for example, be administered orally, parenterally (e.g., subcutaneously, intracutaneously, intravenously, intramuscularly, intraarticularly, intraarterially, intrasynovially, intrasternally, intrathecally, intralesionally and by intracranial injection or infusion techniques), by inhalation spray, topically, rectally, nasally, buccally, vaginally, via an implanted reservoir, by injection, subdermally, intraperitoneally, transmucosally, or in an ophthalmic preparation, with a dosage ranging from about 0.01 mg/kg to about 1000 mg/kg, (e.g., from about 0.01 to about 100 mg/kg, from about 0.1 to about 100 mg/kg, from about 1 to about 100 mg/kg, from about 1 to about 10 mg/kg) every 4 to 120 hours, or according to the requirements of the particular drug. The interrelationship of dosages for animals and humans (based on milligrams per meter squared of body surface) is described by Freireich et al., Cancer Chemother. Rep. 50, 219 (1966). Body surface area may be approximately determined from height and weight of the patient. See, e.g., Scientific Tables, Geigy Pharmaceuticals, Ardsley, N.Y., 537 (1970). In certain embodiments, the compositions are administered by oral administration or administration by injection. The methods herein contemplate administration of an effective amount of compound or compound composition to achieve the desired or stated effect. Typically, the pharmaceutical compositions of the present disclosure will be administered from about 1 to about 6 times per day or alternatively, as a continuous infusion. Such administration can be used as a chronic or acute therapy.
Lower or higher doses than those recited above may be required. Specific dosage and treatment regimens for any particular patient will depend upon a variety of factors, including the activity of the specific compound employed, the age, body weight, general health status, sex, diet, time of administration, rate of excretion, drug combination, the severity and course of the disease, condition or symptoms, the patient's disposition to the disease, condition or symptoms, and the judgment of the treating physician.
Upon improvement of a patient's condition, a maintenance dose of a compound, composition or combination of the present disclosure may be administered, if necessary. Subsequently, the dosage or frequency of administration, or both, may be reduced, as a function of the symptoms, to a level at which the improved condition is retained when the symptoms have been alleviated to the desired level. Patients may, however, require intermittent treatment on a long-term basis upon any recurrence of disease symptoms.
In some embodiments, the compounds described herein can be coadministered with one or more other therapeutic agents. In certain embodiments, the additional agents may be administered separately, as part of a multiple dose regimen, from the compounds of the present disclosure (e.g., sequentially, e.g., on different overlapping schedules with the administration of one or more compounds of formula (I) (including any subgenera or specific compounds thereof)). In other embodiments, these agents may be part of a single dosage form, mixed together with the compounds of the present disclosure in a single composition. In still another embodiment, these agents can be given as a separate dose that is administered at about the same time that one or more compounds of formula (I) (including any subgenera or specific compounds thereof) are administered (e.g., simultaneously with the administration of one or more compounds of formula (I) (including any subgenera or specific compounds thereof)). When the compositions of the present disclosure include a combination of a compound of the formulae described herein and one or more additional therapeutic or prophylactic agents, both the compound and the additional agent can be present at dosage levels of between about 1 to 100%, and more preferably between about 5 to 95% of the dosage normally administered in a monotherapy regimen.
The compositions of the present disclosure may contain any conventional non-toxic pharmaceutically-acceptable carriers, adjuvants or vehicles. In some cases, the pH of the formulation may be adjusted with pharmaceutically acceptable acids, bases or buffers to enhance the stability of the formulated compound or its delivery form.
The compositions may be in the form of a sterile injectable preparation, for example, as a sterile injectable aqueous or oleaginous suspension. This suspension may be formulated according to techniques known in the art using suitable dispersing or wetting agents (such as, for example, Tween 80) and suspending agents. The sterile injectable preparation may also be a sterile injectable solution or suspension in a non-toxic parenterally acceptable diluent or solvent, for example, as a solution in 1,3-butanediol. Among the acceptable vehicles and solvents that may be employed are mannitol, 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. Fatty acids, such as oleic acid and its glyceride derivatives are useful in the preparation of injectables, as are natural pharmaceutically-acceptable oils, such as olive oil or castor oil, especially in their polyoxyethylated versions. These oil solutions or suspensions may also contain a long-chain alcohol diluent or dispersant, or carboxymethyl cellulose or similar dispersing agents which are commonly used in the formulation of pharmaceutically acceptable dosage forms such as emulsions and or suspensions. Other commonly used surfactants such as Tweens or Spans and/or other similar emulsifying agents or bioavailability enhancers which are commonly used in the manufacture of pharmaceutically acceptable solid, liquid, or other dosage forms may also be used for the purposes of formulation.
The compositions of the present disclosure may be orally administered in any orally acceptable dosage form including, but not limited to, capsules, tablets, emulsions and aqueous suspensions, dispersions and solutions. In the case of tablets for oral use, carriers which are commonly used include lactose and corn starch. Lubricating agents, such as magnesium stearate, are also typically added. For oral administration in a capsule form, useful diluents include lactose and dried corn starch. When aqueous suspensions and/or emulsions are administered orally, the active ingredient may be suspended or dissolved in an oily phase is combined with emulsifying and/or suspending agents. If desired, certain sweetening and/or flavoring and/or coloring agents may be added.
The compositions of the present disclosure may also be administered in the form of suppositories for rectal administration. These compositions can be prepared by mixing a compound of the present disclosure with a suitable non-irritating excipient which is solid at room temperature but liquid at the rectal temperature and therefore will melt in the rectum to release the active components. Such materials include, but are not limited to, cocoa butter, beeswax and polyethylene glycols.
Topical administration of the compositions of the present disclosure is useful when the desired treatment involves areas or organs readily accessible by topical application. For application topically to the skin, the composition should be formulated with a suitable ointment containing the active components suspended or dissolved in a carrier. Carriers for topical administration of the compounds of the present disclosure include, but are not limited to, mineral oil, liquid petroleum, white petroleum, propylene glycol, polyoxyethylene polyoxypropylene compound, emulsifying wax and water. Alternatively, the composition can be formulated with a suitable lotion or cream containing the active compound suspended or dissolved in a carrier with suitable emulsifying agents. Suitable carriers include, but are not limited to, mineral oil, sorbitan monostearate, polysorbate 60, cetyl esters wax, cetearyl alcohol, 2-octyldodecanol, benzyl alcohol and water. The compositions of the present disclosure may also be topically applied to the lower intestinal tract by rectal suppository formulation or in a suitable enema formulation.
In some embodiments, topical administration of the compounds and compositions described herein may be presented in the form of an aerosol, a semi-solid pharmaceutical composition, a powder, or a solution. By the term “a semi-solid composition” is meant an ointment, cream, salve, jelly, or other pharmaceutical composition of substantially similar consistency suitable for application to the skin. Examples of semi-solid compositions are given in Chapter 17 of The Theory and Practice of Industrial Pharmacy, Lachman, Lieberman and Kanig, published by Lea and Febiger (1970) and in Remington's Pharmaceutical Sciences, 21st Edition (2005) published by Mack Publishing Company, which is incorporated herein by reference in its entirety.
Topically-transdermal patches are also included in the present disclosure. Also within the present disclosure is a patch to deliver active chemotherapeutic combinations herein. A patch includes a material layer (e.g., polymeric, cloth, gauze, bandage) and the compound of the formulae herein as delineated herein. One side of the material layer can have a protective layer adhered to it to resist passage of the compounds or compositions. The patch can additionally include an adhesive to hold the patch in place on a subject. An adhesive is a composition, including those of either natural or synthetic origin, that when contacted with the skin of a subject, temporarily adheres to the skin. It can be water resistant. The adhesive can be placed on the patch to hold it in contact with the skin of the subject for an extended period of time. The adhesive can be made of a tackiness, or adhesive strength, such that it holds the device in place subject to incidental contact, however, upon an affirmative act (e.g., ripping, peeling, or other intentional removal) the adhesive gives way to the external pressure placed on the device or the adhesive itself, and allows for breaking of the adhesion contact. The adhesive can be pressure sensitive, that is, it can allow for positioning of the adhesive (and the device to be adhered to the skin) against the skin by the application of pressure (e.g., pushing, rubbing,) on the adhesive or device.
The compositions of the present disclosure may be administered by nasal aerosol or inhalation. Such compositions are prepared according to techniques well-known in the art of pharmaceutical formulation and may be prepared as solutions in saline, employing benzyl alcohol or other suitable preservatives, absorption promoters to enhance bioavailability, fluorocarbons, and/or other solubilizing or dispersing agents known in the art.
A composition having the compound of the formulae herein and an additional agent (e.g., a therapeutic agent) can be administered using any of the routes of administration described herein. In some embodiments, a composition having the compound of the formulae herein and an additional agent (e.g., a therapeutic agent) can be administered using an implantable device. Implantable devices and related technology are known in the art and are useful as delivery systems where a continuous or timed-release delivery of compounds or compositions delineated herein is desired. Additionally, the implantable device delivery system is useful for targeting specific points of compound or composition delivery (e.g., localized sites, organs). Negrin et al., Biomaterials, 22(6):563 (2001). Timed-release technology involving alternate delivery methods can also be used in the present disclosure. For example, timed-release formulations based on polymer technologies, sustained-release techniques and encapsulation techniques (e.g., polymeric, liposomal) can also be used for delivery of the compounds and compositions delineated herein.
The present disclosure will be further described in the following examples. It should be understood that these examples are for illustrative purposes only and are not to be construed as limiting the present disclosure in any manner. For example, while the examples refer to neuroprotective compounds, it should be understood that these compounds can also be used to protect other cells from DNA-damaging agent induced cell toxicity, and/or promote the general health, survival and growth of other cells.
Examples
Active members of the “pool seven compound three” (P7C3) class of aminopropyl carbazole chemicals foster the survival of neurons in a variety of rodent models of neurodegeneration or nerve cell injury. A P7C3 derivative modified to contain a benzophenone moiety facilitated UV light-mediated cross linking to nicotinamide phosphoribosyltransferase (NAMPT), the rate limiting enzyme involved in the conversion of nicotinamide into nicotinamide adenine dinucleotide (NAD). Administration of active variants of this class of chemicals to cells treated with doxorubicin led to a rebound in intracellular levels of NAD and concomitant protection from doxorubicin-mediated toxicity. Active P7C3 variants likewise enhanced the activity of the purified NAMPT enzyme. Optimized aminopropyl carbazole chemicals offer promise for the development of therapeutics for the treatment of neurodegenerative diseases and other conditions involving nerve cell injury.
Background
No substantive therapeutics are available for the treatment of almost any form of disease entailing nerve cell death. Patients suffering from any of a wide spectrum of neurodegenerative diseases, including Parkinson's disease, Alzheimer's disease, amyotrophic lateral sclerosis, fronto-temporal dementia and Huntington's disease are condemned to progressive demise of the CNS by virtue of nerve cell death. It is likewise the case that no effective treatments exist for injuries to the brain or peripheral nervous system, including traumatic or concussive brain injury, spinal cord injury, or peripheral nerve injury. Any chemical having the capacity to safely impede nerve cell death in the context of these varied diseases or injuries would offer the opportunity for transformative impact in modern medicine.
Previously we performed a target-agnostic, in vivo screen in search of chemicals that might enhance hippocampal neurogenesis in adult mice (Pieper et al., 2010). The screen was simple in concept. With help from chemists in the Department of Biochemistry at UTSWMC, we selected 1,000 druglike chemicals from the 250,000 compounds in our high throughput screening center. The compounds were selected to preserve representative chemical diversity of the entire library. They were further selected to enhance the representation of chiral molecules, and to avoid untoward chemical properties such as reactive moieties. The 1,000 molecules were randomly pooled into groups of ten, and each pool was administered directly into the left ventricle of two adult mice. Intracranial delivery was facilitated by stereotactic positioning of a canula fed directly by an Alzet mini-pump containing the mixture of ten chemicals. The drug mixture was administered over a week-long period at concentrations anticipated to deliver mid-nanomolar levels of the ten test compounds. Daily injections of the thymidine analog, bromodeoxyuridine (BrdU), were coadministered in order to monitor the formation of new hippocampal nerve cells. Following compound administration, animals were sacrificed such that brain tissue could be recovered, sectioned and stained with antibodies to BrdU. This two-year screen led to the discovery of a handful of pools that enhanced neurogenesis in both test mice that had been exposed to the pool. Breakdown of the active pools allowed the individual testing of each of the ten chemicals in the pool, leading to the discovery of eight pro-neurogenic chemicals (Pieper et al., 2010).
Among the eight, pro-neurogenic chemicals, pharmacological testing gave evidence that only one of the compounds had favorable pharmacological properties. Pool seven (P7) contained an aminopropyl carbazole as its active, third compound (C3). When administered to mice via intraperitoneal (IP), intravenous (IV) or oral routes, the P7C3 compound revealed favorable half-life, volume of distribution and brain penetration. It was also found that P7C3 could be safely administered to mice and rats for prolonged periods at concentrations well above those required to stimulate hippocampal neurogenesis, giving evidence that the molecule was not overtly toxic to rodents.
Although it was initially anticipated that pro-neurogenic compounds would act by stimulating the mitotic birth of newborn nerve cells in the subgranular layer of the dentate gyrus, P7C3 revealed no such activity. The two-fold enhanced level of BrdU-positive neurons observed over a week-long dose of P7C3 was absent when animals were pulsed with BrdU for only 24 hours. More strikingly, when BrdU was pulsed for only one day, and animals were subsequently administered P7C3 for a month, we observed a far larger enhancement in BrdU-positive hippocampal neurons (500%). Instead of stimulating the mitotic division of neuronal stem cells, these observations gave evidence that P7C3 mitigated the death of newborn neurons. Under the conditions of our study only 10-20% of newborn neurons survive the month-long differentiation process to become properly wired hippocampal neurons. Prolonged administration of P7C3 significantly mitigated the death of newborn neurons, such that upwards of half of the cells survive the month-long “differentiation gauntlet” taking place between stem cell mitosis and terminal nerve cell differentiation. Indeed, localized expression of pro-apoptotic proteins in newborn neurons has been found to limit neurogenesis, whereas expression of anti-apoptotic proteins enhances neurogenesis in adult mice (Kim et al., 2009) (Kuhn et al., 2005) (Sun et al., 2004). It has likewise been found that the pro-neurogenic benefits of wheel running and/or enriched environment for caged rodents is primarily attributable to neuroprotective effects on newborn hippocampal neurons (Kempermann et al., 1997; Kim et al., 2010) (van Praag et al., 1999).
Having discovered the aminopropyl carbazole chemical in an unbiased, in vivo screen, and having found that it protects newborn neurons from death, we use methods of medicinal chemistry to improve the potency and pharmacological properties of P7C3 (MacMillan et al., 2011; Naidoo et al., 2014; Pieper et al., 2014). Using these improved, active derivatives of P7C3 we have observed neuroprotective activity in animal models of Parkinson's disease (De Jesus-Cortes et al., 2012), amyotrophic lateral sclerosis (Tesla et al., 2012), as well as concussive injury to the rodent brain (accompanying manuscript). Of significant concern, however, was the fact that the mechanism of action of the P7C3 class of neuroprotective chemicals remained unknown. Here we provide evidence that these chemicals function by enhancing the activity of the rate-limiting enzyme in the salvage of nicotinamide adenine dinucleotide (NAD) from nicotinamide.
Results
Active Variants of P7C3 Protect Cultured Cells from Doxorubicin-Mediated Toxicity
Progress on studies aimed towards resolving the mode of action of P7C3 has been hampered by the fact that we have been limited to studies of drug action in living animals. Our standard assay of neurogenesis requires, under optimal conditions, a one month turn-around from the synthesis of a new derivative to a score for its neuroprotective activity. In efforts to break this logjam, we tested whether P7C3 might have cell-protective activity to any of eight generic toxins. The active A20 variant of P7C3 was found to protect cultured U2OS cells from doxorubicin-mediated toxicity (FIG. 1A). By contrast, no evidence of drug-mediated protection was observed for any of seven other toxins (FIG. 8). Furthermore, as judged by the DNA damage marker—phosphorylation of H2AX, and the hallmark of apoptosis—caspase-3 activation, co-administration of A20 blocked doxorubicin-induced apoptosis, but not DNA damage response (FIG. 9).
In order to assess whether a correlation might exist between pro-neurogenic activity in living mice and doxorubicin toxicity (dox:tox) protection, we assayed 224 compounds that have been synthesized and assayed for pro-neurogenic activity over the past 4-5 years (Table 1). These include hundreds of structure:activity relationship (SAR) derivatives of P7C3, as well as a number of tricyclic antidepressants reported in the literature to have pro-neurogenic activity (Malberg et al., 2000). P7C3 derivatives were the only molecules having dox:tox protective activity (FIG. 10). Further inspection of the data revealed that the chemical features of the carbazole ring, length of the aliphatic linker, and nature of the aromatic ring were all important determinants for both pro-neurogenic activity and dox:tox protection. Perhaps most compellingly, it was observed that the (−)-P7C3-S243 enantiomer that was active in the in vivo neurogenesis assay (Naidoo et al., 2014), the MPTP model of Parkinson's disease (Naidoo et al., 2014), and the concussive blast injury model (co-submitted manuscript) was also protective in the dox:tox assay (FIG. 1B). By contrast, the (+)-P7C3-S243 enantiomer that was far less active in the three in vivo assays of neuroprotection was also considerably less active in the dox:tox protection assay. From these observations we conclude that active derivatives of P7C3 function by a related mechanism to protect neurons in living animals as well as cultured U2OS cells exposed to doxorubicin.
Identification of p70 and p55 as Intracellular Targets of P7C3
Various methods have been employed in efforts to identify the intracellular target of P7C3, including biotinylation followed by affinity purification, radiolabeling followed by filter binding assays, and photo-crosslinking. Among these strategies, the photo-crosslinking approach has been uniquely successful. P7C3-S326 was prepared to contain both a benzophenone for photo-crosslinking and an alkyne moiety for use in click chemistry (FIG. 2A). This derivative was found to be active in both the in vivo neurogenesis assay and the dox:tox assay. When incubated with cultured cells, exposed to UV light, subjected to click chemistry-mediated addition of a fluorescent dye, then resolved on SDS polyacrylamide gels, the P7C3-S326 derivative became covalently attached to roughly a dozen proteins. Among the covalently modified proteins, only one could be competed when the cells were co-incubated with a 30× excess of the active A20 variant of P7C3. This polypeptide exhibited an apparent molecular mass of 70 kD (FIG. 2B).
Binding competition assays were conducted with 168 chemical derivatives of P7C3 as a means of testing whether there might be a correlation between dox:tox protection and binding competition. Cultured cells were co-exposed to P7C3-S326 (0.3 uM) and the individual P7C3 variants (5 uM), exposed to UV light, lysed, clicked to a fluorescent dye and run on SDS gels (FIG. 11). The scatter plot shown in FIG. 2D revealed a statistically significant correlation between the two activities, yielding a P value of 9.4×10−20. It can thus be predicted with a high level of confidence that active variants of P7C3 are able to compete for P7C3-S326 crosslinking, but that inactive variants cannot. Armed with this knowledge, cell fractionation experiments were performed in order to enrich for the p70 band. During the course of these studies it was periodically observed that P7C3-S326 could also be crosslinked to a second band running with an apparent molecular weight of 55 kD. Just as was the case for p70, active variants of P7C3 competed for p55 binding, whereas inactive variants did not. Moreover, both proteins co-purified with a cellular fraction following centrifugation at 12,000 G.
The p70 and p55 Targets of P7C3 Correspond to NAMPT
Partially purified protein preparations were resolved by 2D gel electrophoresis. In order to discriminate between protein spots competed by an excess of the active, A20 variant of P7C3, and those that were not, separate lysates were prepared from cells that had been co-exposed to the P7C3-A20 competitor or not. Click chemistry was used to append a red fluorescent dye onto P7C3-S326-modified proteins of the former lysates (Kolb et al., 2001). The latter lysates were modified by a green dye, such that in imaging 2D gels, we could focus on green protein spots and avoid spots labeled by both green and red dyes. Such efforts led to the identification of green-only spots migrating at either 70 kD or 55 kD (FIGS. 3A-3C). Proteins of both molecular weights migrated in the isoelectric focusing dimension at four closely spaced pH positions. This electrophoretic behavior might be consistent with post-translational modifications of the same protein, leading to different isoforms bearing slight differences in ionic charge. Perplexingly, the pattern of charge distribution was identical for the 70 kD and 55 kD polypeptides.
The eight green-only spots, four from p70 and four from p55, were picked and subjected to shotgun mass spectrometry for protein identification. All four of the p55 spots yielded by far the highest number of spectral counts for nicotinamide phosphoribosyltransferase (NAMPT) (Table 2). Both the predicted size (55 kD) and isoelectric point (pH 6.7) of NAMPT match spots 1-4 picked from the 2D gel. Likewise, mass spectrometry based analysis gave substantive percentage coverage levels of 12%, 82%, 38% and 62% for the NAMPT enzyme in spots 1-4 (Table 2). By contrast, no proteins could be identified above the false discovery rate for the four p70 spots. Post-staining of the 2D gel with spyro ruby dye showed prominent protein staining for all four of the p55 spots, and no staining for any of the four p70 spots (FIG. 3D). Apparently, despite equivalent photo-crosslinking by P7C3-S326, the molar ratio of drug modification of p70 must be at least three orders of magnitude greater than p55.
The perplexing relationship between p70 and p55 was clarified upon adding 7M urea to the SDS PAGE gels used to resolve the two bands. In the absence of urea, almost all of the P7C3-S326-modified material migrated as the p70 band. Addition of urea to the gel converted all of the labeled material to the p55 band (FIG. 4A). By running a gel crafted to contain a horizontal gradient of urea, 7M on the right and no urea on the left, it was possible to observe graded conversion of p70 into p55 (FIG. 4B). These observations give evidence that when NAMPT is covalently bound by P7C3-S326, it can adopt an anomalous pattern of electrophoretic migration under gel conditions that are not fully denaturing.
Active Derivatives of P7C3 Restore NAD Levels in Doxorubicin-Treated Cells
Having observed P7C3-S326 crosslinking to both the p70 and p55 forms of NAMPT, we wondered whether active variants of P7C3 might modify the activity of the enzyme. The NAMPT enzyme controls the rate limiting step in the NAD salvage pathway (Preiss and Handler, 1958). NAMPT is an obligate dimer whose molecular structure has been resolved by X-ray crystallography (Khan et al., 2006) (Wang et al., 2006). On the basis of molar ratio of crosslinking, P7C3-S326 strongly prefers the p70 isoform of NAMPT relative to the p55 isoform. Hypothesizing that p70 represents a drug-altered form of NAMPT, we tested whether highly active P7C3-A20 variant might either enhance or reduce NAD levels in living cells.
Doxorubicin is a DNA-damaging toxin known to activate the poly ADP-ribose polymerase (PARP) enzyme as a central feature of DNA repair (Pacher et al., 2002) (Munoz-Gamez et al., 2009). PARP uses NAD as the donor for poly ADP-ribose synthesis and hence lowers cellular levels of NAD. U2OS cells exposed to sub-lethal levels of doxorubicin were lysed in methanol, cleared by centrifugation and subjected to metabolite analysis by mass spectrometry. These methods allow for the simultaneous, quantitative analysis of hundreds of intracellular metabolites (Tu et al., 2007) (Wang et al., 2009). As expected, doxorubicin treatment led to a significant decline in NAD levels relative to all other metabolites assayed. Co-administration of the A20 variant of P7C3 led to a dose-dependent replenishment of NAD (FIG. 5A). The mass spectrometry methods used to quantitate metabolite levels measured NAD relative to hundreds of other intracellular metabolites. As such, the ability of the A20 variant of P7C3 to restore intracellular levels of NAD does not simply reflect the generalized health of cells, but instead reflects the relative increase in NAD levels compared with hundreds of other metabolites.
A more facile method of quantifying the NAD analyte, employing the commercially available “NAD/NADH-Glo” kit (Promega), confirmed P7C3-A20-mediated rebound of NAD levels in doxorubicin-treated U2OS cells. We also observed NAD rebound for the racemic mix of the active P7C3-S243 compound, but no rebound at all for the inactive P7C3-S6 and P7C3-S117 compound variants (FIG. 5B). This method of assay was used to test 159 variants of P7C3 that had been used to query the correlative relationship between dox:tox protection and competition in the P7C3-S326 crosslinking assay (Table 1 and FIG. 2D). Each chemical variant of P7C3 was co-incubated with doxorubicin on cultured U2OS cells at five doses (0.03 uM, 0.1 uM, 0.3 uM, 1 uM and 3 uM). After 45 hrs incubation, cells were assayed for intracellular levels of NAD (FIG. 12). The scatter plot shown in FIG. 5C reveals exceptional concordance between the dox:tox protective activities of the 159 compounds and their relative abilities to enhance NAD levels (correlative P value of 1.8×10−35).
NAMPT is the rate limiting enzyme in the salvage pathway whereby cells sequentially convert nicotinamide into nicotinamide adenine mononucleotide (NMN) and NAD (Preiss and Handler, 1958). If active variants of P7C3 indeed bind to the NAMPT dimer in a manner fostering its activity, then these compounds should enhance the flux of nicotinamide through the salvage pathway. To test this hypothesis, 14C-labeled nicotinamide was administered to cultured U2OS cells. Six hours later, cells were lysed in perchloric acid and cleared by centrifugation so that soluble materials could be separated by thin layer chromatography (TLC) followed by autoradiography. As shown in FIG. 6, enhanced conversion of radiolabeled nicotinamide into NMN and NAD was observed in a dose-responsive manner upon exposure of cultured U2OS cells to the active, A20 variant of P7C3.
Active Variants of P7C3 Enhance the Activity of the Purified NAM PT Enzyme
A recombinant form of the human NAMPT enzyme was cloned, expressed and purified according to published conditions (Khan et al., 2006) (Wang et al., 2006). The enzymatic activity of recombinant NAMPT was monitored in a coupled assay wherein nicotinamide conversion to NMN was followed by sequential production of NAD (via the NMNAT enzyme) and NADH (via alcohol dehydrogenase). To minimize variation, a control reaction was run in each assay prior to compound addition. As shown in FIG. 7A, the A20 variant of P7C3 activated the enzyme reaction in a dose dependent manner. No activation of NADH production was observed when NAMPT was eliminated from the reaction, giving evidence that enhancement did not result from compound effects on either NMNAT or alcohol dehydrogenase.
Two additional experiments were conducted to investigate activation of the recombinant NAMPT enzyme. First, thirty derivatives of P7C3 having varied activity were tested for enzyme activation. The ability of the thirty variants to activate NAMPT in the coupled enzyme assay was then correlated on scatter plots to three other measures of compound activity: (i) ability to protect cultured cells from doxorubicin toxicity; (ii) ability to compete with photo cross-linking by P7C3-S326 in living cells; and (iii) ability to restore NAD levels in doxorubicin treated cells (FIG. 7B). In all cases statistically significant evidence of correlation was observed. Second, we compared the activities of the racemic mix of P7C3-S243, the (−)P7C3-S243 enantiomer and the (+)P7C3-S243 enantiomer in NAMPT enzyme assay. As shown in FIG. 7C, the (−)P7C3-S243 enantiomer was more active in stimulating NAMPT than the racemix mix, which—in turn—was more active than the (+)P7C3-S243 enantiomer. This same hierarchy of activity has been observed in all in vivo assays tested to date, including adult neurogenesis, and the MPTP model of Parkinson's disease (Naidoo et al., 2014), concussive blast injury (accompanying manuscript), protection of cultured cells from doxorubicin-mediated activity (FIG. 1) and rebound of NAD levels in doxorubicin-treated cells (FIG. 11).
Discussion
Why is it that active variants of P7C3 were able to protect cultured cells from doxorubicin-mediated toxicity, in the face of no protective activity against seven other toxins? Three observations can now be seen to help understand this selectivity. First, doxorubicin reduces intracellular levels of NAD, likely via activation of poly-ADP ribose polymerase (PARP). Second, active variants of P7C3 protect cultured cells from dox:tox, likely by stimulating a rebound in the intracellular levels of NAD. Third, active variants of P7C3 enhance the activity of the purified, recombinant NAMPT enzyme. We conclude that the dox:tox protective activity of our aminopropyl carbazole chemicals is directly reflective of their ability to enhance the salvage pathway whereby nicotinamide is converted to NAD.
The target-agnostic in vivo screen performed years ago led, in an unbiased manner, to the P7C3 class of neuroprotective chemicals (Pieper et al., 2010). We now hypothesize that the neuroprotective efficacy of our aminopropyl carbazole chemicals can be attributed to their ability to foster salvage of NAD from nicotinamide. This interpretation is concordant with an equally unbiased series of forward genetic studies performed over the past three decades. In the 1980's scientists working in Oxford, England described a variant strain of mice that impedes Wallerian degeneration, designated the Wallerian degeneration slow (wlds) strain (Lunn et al., 1989). In simple terms, Wallerian degeneration can be described as the demise of axonal processes distal from the cell body to a site of nerve crush. Axons of wlds mice survive a nerve crush far longer than those of wild type mice. The wlds gene was positionally cloned in the 1990's and found to exist as a triplicated fusion gene encoding the first 70 amino acids of Ufd2a, a ubiquitin-chain assembly factor, linked directly to the complete coding sequence of nicotinamide mononucleotide adenylyl-transferase 1 (NMNAT1) (Coleman et al., 1998) (Conforti et al., 2000) (Mack et al., 2001). Whereas NAMPT initiates salvage from nicotinamide, NMNAT1 is one of three enzymes that convert the NMN product into NAD. In a beautiful paper published in 2004 in Science, Dr. Jeff Milbrandt and colleagues provided compelling evidence that the wlds phenotype can be attributed primarily to the over-expression of NMNAT1 (Araki et al., 2004). The closing sentence of their manuscript is unusually prescient, reading—“It is possible that the alteration of NAD levels by manipulation of the NAD biosynthetic pathway, Sir2 protein activity, or other downstream effectors will provide new therapeutic opportunities for the treatment of diseases involving axonopathy and neurodegeneration.” We offer the conclusion that this is exactly what active variants of the P7C3 category of neuroprotective drugs do—they enhance the intracellular production of NAD by agonizing the activity of the rate limiting enzyme in the NAD salvage pathway.
It has recently been reported that NAD production attenuates as a function of aging in the hippocampus of rodents (Stein and Imai, 2014). This study further reported age-related decline in the expression of NAMPT in the hippocampus, along with evidence that selective elimination of the NAMPT gene in neuronal stem cells significantly impairs hippocampal neurogenesis. Now that we understand that active members of the P7C3 class of compounds function by enhancing the activity of the NAMPT enzyme, the observations of Stein and Imai lend credibility to our original discovery of P7C3 as a chemical stimulant of hippocampal neurogenesis.
In addition to offering progress towards an understanding of the mode of action of the P7C3 class of neuroprotective chemicals, this work also points to a number of important, unanswered questions. First and foremost, where on the NAMPT enzyme do our chemicals bind, and how do they facilitate agonistic activation? Second, why is it that covalent binding of S326 causes NAMPT to migrate in an anomalous manner in SDS PAGE gels? Third, is it indeed the case that NAD levels may be compromised as a function of nerve cell injury or neuronal dysfunction as a consequence of neurodegenerative disease? Fourth, might NAMPT be regulated in vivo by an endogenous metabolite that is either mimicked or counteracted by active variants of the P7C3 class of neuroprotective chemicals?
We close with two observations that may or may not be related. Studies of aged mice have led to the reported decline in tissue NAD levels, and that certain aspects of age-related decline in overall health can be reversed by nutritional supplementation of NMN (Gomes et al., 2013). In our initial studies of P7C3 we reported compound-mediated abrogation of cognitive decline in aged Fisher rats (Pieper et al., 2010). Included in such studies was the unanticipated observation that compound treated rats maintained body weight relative to the frailty of vehicle-treated controls. These distinct studies offer the possibility of considering the P7C3 class of neuroprotective chemicals as potential treatments for generalized frailty typical of aged animals and humans.
Experimental Procedures
Cell Culture
Osteosarcoma U2OS cells were grown in DMEM medium (Sigma) supplemented with 10% FBS. Lung cancer H2122 cells were cultured in RPMI-1640 medium (HyClone) supplemented with 5% FBS. These adherent cell lines were cultured employing standard procedures.
Cell Survival Assay
Cell survival assay was performed in 96-well plates using CellTiter-Glo Luminescent Cell Viability Assay kit (Promega) that measures cellular ATP content. The CellTiter-Glo reagent was diluted by adding 2 volumes of PBS containing 1% Triton X-100. 50 μl of diluted reagent was directly added to 100 μl of cell culture medium per well. Plates were incubated at room temperature for 10 minutes. Luminescence was recorded by Tecan SPECTRAFluor Plus reader (Tecan). Cell survival was presented as the percentage of viable cells compared with untreated control, and mean±SD was calculated from duplicates. The dox:tox assay of P7C3 analogs was carried out in the HTS Core (University of Texas Southwestern Medical Center) using the EnVison multimode plate reader (Perkin Elmer).
Chemical Synthesis of Photo-Crosslinking Probe P7C3-S326




N-(3-(3,6-dibromo-9H-carbazol-9-yl)-2-fluoropropyl)-4-(4-(prop-2-yn-1-yloxy)benzoyl)benzamide (P7C3-S326)
3-(3,6-dibromo-9H-carbazol-9-yl)-2-fluoropropan-1-amine (Naidoo et al., 2014) (40.2 mg, 0.10 mmol) was added to a solution of 4-(4-(prop-2-yn-1-yloxy)benzoyl)benzoic acid (Bandyopadhyay et al., 2011) (28.5 mg, 0.10 mmol), N-(3-dimethylaminopropyl)-N′-ethylcarbodiimide hydrochloride (21.2 mg, 0.11 mmol) and 1-hydroxybenzotriazole hydrate (15.0 mg, 0.11 mmol) in dimethylformamide (0.4 ml). The reaction went to completion within an hour. The mixture was diluted with EtOAc and washed several times with water and then brine. The organic layer was dried over Na2SO4, filtered and condensed to give a light brown solid in 90% yield. 1H NMR (Acetone-d6, 400 MHz) δ 8.41 (dd, J=2.0, 0.6 Hz, 2H), 8.07 (d, J=8.4 Hz, 2H), 7.82 (dd, J=10.3, 8.6 Hz, 4H), 7.71-7.56 (m, 4H), 7.16 (d, J=8.9 Hz, 2H), 5.39-5.10 (dm, 1H), 4.94 (d, J=2.4 Hz, 2H), 4.91-4.85 (m, 1H), 4.82 (d, J=5.4 Hz, 1H), 4.05-3.89 (m, 1H), 3.87-3.70 (m, 1H), 3.17 (t, J=2.4 Hz, 1H). 13C NMR (CD2Cl2, 100 MHz): 194.6, 167.3, 161.7, 141.4, 140.1, 136.9, 132.8, 130.7, 130.2, 129.7, 127.3, 124.1, 123.6, 114.9, 113.0, 111.2 (JC-F=1.9 Hz), 92.1 (JC-F=176.2 Hz), 78.2, 76.3, 56.4, 45.8 (JC-F=22.5 Hz), 42.3 (JC-F=21.2 Hz). MS (ESI), m/z: calculated 660.01. found 660.7 (M+1).
Live-Cell Crosslinking with Photo-Crosslinking Derivative P7C3-S326
P7C3-S326 was diluted to 0.3 μM in culture medium to treat H2122 cells. After incubation at 37° C. for 2 hours, H2122 cells were irradiated for 15 minutes under 306 nm ultraviolet light in a Stratalinker 2400 (Stratagene). Cells were then harvested by dissolving in 1% SDS lysis buffer 50 mM HEPES, pH 8.0, 2 mM MgCl2, 10 mM KCl, 1% SDS, 50 units/ml of Benzonase (Sigma), supplemented with Sigmafast protease inhibitor (Sigma).
Attachment of Fluorescent Tags Via Copper-Catalyzed Azide-Alkyne Cycloaddition (CUAAC) CLICK Reaction
For copper-catalyzed azide-alkyne cycloaddition CLICK reactions, 43 μl of SDS lysate were mixed with 3 μl of 1.7 mM Tris[(1-benzyl-1H-1,2,3-triazol-4-yl)methyl]amine (TBTA), 20 of 50 mM CuSO4, 1 μl of 50 mM Tris(2-carboxyethyl)phosphine (TCEP), and 1 μl of 1.25 mM Alexa 532-azide. The reaction was incubated at room temperature with constant agitation at 1,000 rpm on a thermomixer (Eppendorf) for 1 hour. Samples were then mixed with SDS sample loading buffer and loaded on an 8% SDS-PAGE gel, separated, and imaged using a Typhoon imager (filter settings: excitation 533 nm, emission 555 nm, and high sensitivity).
In Vivo Binding Competition Assay
H2122 cells were incubated with the P7C3-S326 (0.3 μM) in the absence or presence of P7C3 analogs for 2 hours following by UV crosslinking. Cells were lysed in 1% SDS lysis buffer and lysates were conjugated to the fluorescent Alexa 532 dye using CLICK reaction. The samples were run on SDS-PAGE gels scanned using a Typhoon Imager. The p70 band intensity was analyzed and quantified by Image J, and the relative intensity in each assay was normalized to that of the DMSO control.
Two-Dimensional Gel Electrophoresis
H2122 cells were incubated with P7C3-S326 (0.3 μM) in the absence or presence of 5 μM of the active analog P7C3-A20 for 2 hours followed by UV crosslinking. Cells were dissolved in 1% SDS lysis buffer and protein concentration was quantified by the BCA assay. For CLICK reactions, 1 mg of lysate prepared from P7C3-S326 treated cells were reacted with Alexa 532-azide (Red), and 1 mg of lysate from P7C3-S326 and P7C3-A20 treated cells were reacted with Cy5-azide (Green). After the CLICK reaction, the two lysates were combined, mixed with 4 volumes of acetone, incubated at −20° C. overnight. Precipitated proteins were collected by centrifugation at 8,000 g, 15 min, 4° C. After two washes with acetone, the pellet was air-dried and resuspended in 500 μl of 2D rehydration buffer (8M urea, 2% CHAPS (wt/vol), 50 mM dithiothreitol (DTT), 2% of IPG buffer). For two-dimensional gel electrophoresis, 500 μg of proteins was loaded onto immobilized pH gradient (IPG) strip of 24 cm pH 3-10 linear (GE Healthcare) by passive rehydration using rehydration chamber for overnight at room temperature. Isoelectric focusing was conducted on an IPG Phor3 manifold (GE healthcare) with the following protocol: 100V for 3 hours, 300V for 2 hours, 500V for 3 hours (Step-and-hold); 1000V for 1 hour (Gradient); 8000V for 3 hours (Gradient); 8000V for 4 hours (Step-and-hold) with total 42,000 V/hour. After isoelectric focusing, the strip was equilibrated for 15 minutes in equilibration buffer I (6M urea, 2% SDS (wt/vol), 0.375M Tris; pH 8.8, 20% glycerol (v/v), 100 mM DTT) for 15 minutes followed by equilibration buffer II (6M urea, 2% SDS (wt/vol), 0.375M Tris; pH 8.8, 20% glycerol (v/v), 250 mM iodoacetamide) for 15 minutes. Proteins were separated in the second dimension on 7.5% SDS-PAGE using Ettan Daltsix unit (GE Healthcare) at a constant current of 40 mA/gel for 5-6 hours at 100 W. Gel images were scanned at a resolution of 100 μm with on Typhoon FLA9500 scanner using default settings for CyDyes (GE Healthcare) and preprocessed using Image Quant TL software v8.1 (GE Healthcare). Cropped gel images were analyzed using DeCyder2D Differential Analysis Software v7.1 (GE Healthcare) to detect, normalize and quantify the protein features in the images. The P7C3-A20-competed green spots and several background spots were identified and robotically excised by an Ettan Spot Picker (GE Healthcare).
Mass Spectrometry for Protein Identification
Gel pieces were washed using 50 mM TEAB (triethylammonium bicarbonate, pH 8.0) in 50% (v/v) acetonitrile followed by reduction with 20 mM DTT and alkylation with 55 mM iodoacetamide, followed by dehydration using 100% (v/v) acetonitrile, air-dried, and then rehydrated in the presence of 250 ng of sequencing grade trypsin (Sigma) in 50 mM TEAB. Digests were allowed to proceed overnight at 37° C. Mass spectrometry was performed using Q Exactive mass-spectrometers (Thermo Fischer, Bremen), coupled to identical Ultimate 3000 RSLCnano HPLC systems (Dionex, Sunnyvale Calif.). Peptides were loaded onto a 75 μm i.d.×50 cm Thermo Scientific Easy-Spray column packed with 2 μm resin. A 40 minute linear gradient of 1%-28% acetonitrile in 0.1% formic acid followed by a 10 minute ramp to 98% ACN, using a flow rate of at 350 nl/min, was employed to elute peptides from the column. The Easy-Spray column was heated to 55° C. using the integrated heater. HCD analyses were performed on the Q Exactive instrument using a data-dependent top 20 method, with the full-MS scans acquired at 70K resolution (at m/z 200) and MS/MS scans acquired at 17.5K resolution (at m/z 200). The under-fill ratio was set at 0.1%, with a 3 m/z isolation window and fixed first mass of 100 m/z for the MS/MS acquisitions. Charge exclusion was applied to exclude unassigned and charge 1 species, and dynamic exclusion was used with duration of 15 seconds.
Measurement of Intracellular NAD Abundance
By LC-MS:
Cellular metabolites were extracted using 50% methanol by multiple freeze-thaw cycles. The cleared metabolites were dried in a Speed-Vac. The dried materials were dissolved in 0.1% formic acid and subjected to mass spectrometric analysis using a specific method developed for NAD. Relative intracellular NAD levels (NAD ion counts divided by total ion counts) were used for inter-sample comparisons.
By NAD/NADH-Glo Assay Kit:
Assay was performed following the manufacturer's protocol. NAD/NADH-Glo reagent contains the NAD Cycling Enzyme that converts NAD+ to NADH. In the presence of NADH, the enzyme reductase reduces a proluciferin reductase substrate to form luciferin. Cells were grown in 96- or 384-well plates. 50 μl or 15 μl of NAD/NADH-GloTM Detection Reagent were added to each well. The resulting luminescence signals were measured by Tecan plate reader or EnVison multimode plate reader (Perkin Elmer).
Nicotinamide Flux Analysis with 14C-Labeled Nicotinamide
Logarithmically growing cells cultured in 6-well plates were treated with doxorubicin (0.5 μM) for 48 hours. Afterwards, 1 μl of 0.5 μCi/ml 14C nicotinamide (specific activity: 50 mCi/mmol; American Radiolabeled Chemicals, Inc.) was added per well six hours later. Cells were washed with PBS and collected by trypsin digestion. Metabolites were extracted from cells with 50 μl of perchloric acid (0.5 M) by incubating on ice for 20 minutes. The extracts were then neutralized with 13.75 μl of KCl/KOH (0.5 M/2.0 M) and centrifuged at 2500×g for 10 min at 4° C. 10 μl of extracted metabolites were separated and identified using silicon thin-layer chromatography plates with 1M ammonium acetate:ethanol (3:7) as solvent. For autoradiography, chromatograms were exposed to storage Phospho screen for 3 days. Afterwards, the screen was scanned using the Typhoon scanner, and the 14C-labeled compounds were quantified using Image J.
In Vitro NAMPT Enzyme Assay
NAMPT activity was determined by a coupled-enzyme spectrometric assay as described by Khan et al. (Khan et al., 2006) with minor modifications. Briefly, NAMPT first converted nicotinamide to NMN, which was followed by sequential production of NAD via nicotinamide mononucleotide adenylyl-transferase (NMNAT). NAD was then reduced to NADH by alcohol dehydrogenase (Sigma) using alcohol as the substrate. The resulting NADH was monitored by OD340 nm. Human NAMPT and NMNAT were over-expressed in E. coli and purified as described (Wang et al., 2006) and (Zhou et al., 2002), respectively. The reaction mixture contained 50 mM Tris (pH8.0), 0.4 mM phosphoribosylpyrophosphate (PRPP, Sigma) 2.5 mM ATP, 12 mM MgCl2, 1.5% (v/v) ethanol, 10 mM semicarbazide (Sigma), 0.02%(w/v) BSA, 2.4 ug/ml NMNAT, 0.4 unit alcohol dehydrogenase, 1 uM NAMPT, and 150 uM nicotinamide. 10 mM stocks of P7C3 analogs in DMSO were further diluted in ethanol prior to applying to the reaction. To minimize variation, a control reaction was run in each assay prior to compound addition.
Statistics
Correlation data analysis was performed in GraphPad Prism 6. All p values were obtained using Spearman Rank Correlation (v1.0.1) in Free Statistics Software (v1.1.23-r7), Office for Research Development and Education, URL www.wessa.net/rwasp_spearman.wasp/.
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TABLE 1







Neurogenesis
Dox:tox

NAD






# BrdU+ Cells
protection

recovery




compund

(X10E06)/mm3
Δ(Sinf-
Binding
Δ(Sinf-
NAMPT



#

Dentate Gyrus
S0/AC50
competition
S0/AC50
activation
notes






















vehicle
DMSO
7.3
0.0
1.0
0.0
0.98



 


P7C3




15.0
52.3
2.6
30.6




 


S1




10.8
52.2






 


S2




8.1
232.0
3.7
109.3




 


S3




9.2
20.1
2.3
0.0
1.06



 


S4




11.7
0.0
1.4
0.0
1.01



 


S5




12.2
−27.8
1.4





 


S6




8.4
0.0
1.4
0.0




 


S7




15.5
47.7
2.0
29.3




 


S8




7.8
141.0
4.7
37.4




 


S9




11.9
−20.1
2.0





 


S10




19.0
195.8
3.8
265.3
1.37
A20


 


S11




12.8
68.8
2.0
39.4
1.21



 


S12




10.8
55.3
2.4
23.0
1.24



 


S13




11.6
151.5
1.7
54.8
1.21



 


S14




13.5
202.3
4.5
34.3




 


S15




7.6
156.7
5.3
35.6




 


S16




9.2
191.9
3.1





 


S17




14.9
0.0
1.9
0.0




 


S18




10.9
19.9
1.7
0.0




 


S19




10.5
53.8
2.9
32.9




 


S20




12.7
−19.9
1.3





 


S21




8.8
20.4
2.3
31.6




 


S22




6.7
0.0
2.7
31.0




 


S23




7.4
138.5
2.1
30.9




 


S24




8.0
44.8
3.1
51.5




 


S25




7.0
30.5
1.4
30.3




 


S26




7.5
0.0



A35


 


S27




8.1
109.9
2.8
38.4




 


S28




13.6
31.3
2.8





 


S29




9.5
53.8
4.2
60.6




 


S30




14.3
22.2
3.3
26.6




 


S31




10.4
464.0
6.2
145.1




 


S32




13.8
21.4
2.7
0.0




 


S33




11.6
80.2
2.8
28.7
1.12



 


S34




7.6
0.0
1.0
0.0




 


S35




8.6
0.0






 


S36




8.9
71.4
3.1
30.8




 


S38




13.7
240.7
4.2
31.6




 


S39




14.8
129.8
2.6
31.9




 


S40




8.1
32.4
2.8
0.0




 


S41




15.3
35.5
3.4
0.0




 


S42




11.7
50.0
1.7
30.3




 


S43




11.7
98.3
1.7
31.5




 


S45




8.0
−24.3
1.2





 


S46




9.2
−31.8
1.9





 


S47




10.1
56.2
5.5
109.2




 


S48




14.5
40.2
3.4
28.3




 


S49




12.0
171.0






 


S50




16.2
74.9
3.8
26.4




 


S51




13.2
38.5
2.4
0.0




 


S52




10.8
69.9
4.3
28.0




 


S53




17.1
105.1
1.4
25.8
1.05



 


S54




16.7
1612.9
3.8
0.0




 


S55




13.8
92.4






 


S56




8.4
21.4
1.0
0.0
1.06



 


S57




11.9
161.2






 


S58




7.2
454.6
2.5
99.7




 


S59




10.7
57.8
1.2
0.0
1.02



 


S60




12.6

1.4





 


S62




11.8
22.5
1.2
0.0




 


S63




8.3
20.0
1.5
0.0




 


S64




8.6
94.2






 


S65




12.9
42.1
3.3
80.8




 


S66




9.7
140.9
3.5
48.9
1.21



 


S70




7.4
298.9
2.5





 


S71




7.2
122.8
3.1
80.0




 


S72




11.7
0.0
1.4
0.0




 


S73




10.4
22.1
1.2
0.0




 


S75




10.3/6.9
0.0
2.5
0.0




 


S76




14.2
0.0
1.1
0.0




 


S77




12.0
173.0
3.3
40.3




 


S78




14.1
151.5
2.7
25.9




 


S79




13.7
106.7
1.0
42.9




 


S80




13.0
97.4
0.9
35.9




 


S81




12.6
66.8
1.2
28.9
0.96



 


S82




11.8
71.2
2.3
28.6




 


S83




12.5
0.0
1.0
0.0
1.01



 


S84




12.8
0.0
1.2
0.0




 


S85




8.4/13.0
−39.7
0.9


Clomipramine (tricyclic antidepressant, SNRI and SSRI)


 


 


 


 


 


S86




9.7
−27.1
1.3


Amitriptyline (serotonin, norepinephrine reuptake inhibitor)


 


 


 


 


 


S87




14.7
−21.7
1.2


Desipramine


 


S88




7.8
−24.3
1.1


Imipramine


 


S89




8.7
−38.5
1.3


Nortriptyline


 


S90




11.1
−39.2
1.4


Protriptyline


 


 


 


S91




8.2
20.0
3.4
31.2




 


S92




8.4
20.0
2.5





 


 


S93




11.9
0.0
1.4
0.0




 


 


S94




8.5
0.0
3.8





 


S95




8.6
71.2
4.6
30.2




 


 


 


 


 


 


 


S96




8.7
55.6
3.9
22.7




 


 


 


S97




7.6
−31.6
2.0





 


 


 


 


 


 


 


S98




6.9
0.0
1.1
0.0




 


 


 


S99




7.6
0.0
2.5
30.3




 


 


 


 


 


 


 


S101




9.9
20.0
2.4
0.0
1.12



 


 


 


S102




8.9
−35.3






 


 


 


 


 


S103




7.0
24.1
1.9
0.0
0.97



 


S104





0.0






 


S105




10.8
−32.9
1.2





 


S106




10.9
0.0
1.4
0.0




 


S107




7.3
160.8
3.5
30.3




 


S108




7.6
−77.6
1.0





 


S109




9.4
−64.5
1.2





 


S110




10.5
325.4
6.2
35.5




 


S111




12.3

4.1





 


S112






1.2





 


S115




6.6/9.6
17.4
3.7
0.0




 


S116




11.0
0.0
1.2
0.0

Nardi (MAOI)


 


S117




8.1
0.0
1.0
0.0

Selegiline (MAOI)


 


S118




8.3
0.0
1.3
0.0

Parnate (MAOI)


 


S119




8.6
−18.6
1.2


Celexa (SSRI)


 


S120




10.4/8.8
−38.1
1.3


Paxil (SSRI)


 


S121




11.1
−32.9
2.3


CPZ (dopamine antagonist)


 


S122




10.0
−28.0
1.4


Prozac (SSRI)


 


S123




9.4
−63.3
1.5


Zoloft (SSRI)


 


S124




8.9
0.0
1.1
0.0

Effexor (SNRI)


 


S125





0.0
1.1
0.0

Wellbutrin (NDRI)


 


S126




8.8
0.0
1.3
0.0

Remeron (tetracyclic, SNRI and SSRI)


 


S127




6.9
−17.2
1.2


Buspar (dopamine antagonist)


 


S128





−37.4






 


S129





0.0






 


S130





−34.0
2.9





 


S131




7.3
−34.4
3.5





 


S132




11.4
20.0
1.3
29.0




 


S133




10.1
0.0
1.2
0.0




 


S134




9.7
20.0
1.9
30.3




 


S135




7.1
20.0
3.4
0.0




 


S136




6.5
513.7
5.7





 


S137




12.2
358.9
4.5
130.5




 


S138




10.4
209.3
6.5
30.3




 


S140




11.7
−18.6
1.2





 


S141




11.3
−17.8
2.7





 


S143




7.3
0.0
1.3
0.0




 


S144




9.1
−41.0
1.4





 


S145




12.5
−73.4
2.6





 


S146




14.5
78.7
2.8





 


S147




13.3
225.1
3.4
37.4




 


S148




11.3
−17.4
1.3


tricyclic antidepressant (SNRI and SSRI)


 


S149




11.6
−17.9
1.2





 


S150




8.4
45.8
4.1
30.3




 


S152




13.4
−29.7
1.6





 


S153




10.7
0.0
1.4
0.0




 


S156




15.0
0.0
1.2
0.0




 


S157




10.2
−35.9
1.5





 


S158




12.5
0.0
1.3
0.0




 


S160




13.1
20.0
4.3
0.0




 


S161




11.4
24.2
3.1
26.0




 


S162




12.6/10.8
0.0
2.3
0.0




 


S163




12.1/13.4
164.4
2.5
84.7




 


S164




7.6
92.6
1.3
29.2




 


S165




17.9/12.4
0.0
1.3
0.0




 


S168




14.6
79.7
3.5
30.3




 


S169




9.2
39.2
3.0
29.2




 


S170




11.2
0.0
1.5
0.0




 


S171




13.1
22.1
3.2
0.0




 


S172




14.2
−19.4
1.1





 


S173




12.8
−18.7
1.0





 


S174




9.3
224.2
1.8
0.0




 


S176




14.1/6.9
−84.4
4.1





 


S177




13.9
−51.0
4.3





 


S178




13.8
167.1
1.7
36.2




 


S179




17.3
−21.9
0.9





 


S180




13.0/9.4
35.7
3.2
31.0




 


S181




11.3/8.3
−17.5
0.9





 


S182




6.8
−20.1
1.1





 


S183




7.7
64.1
4.0
0.0




 


S184




6.7
0.0
2.5
0.0




 


S185




12.6
0.0
1.5
0.0




 


S186




8.1
232.6
3.4
69.1




 


S187




12.6
258.9
2.9
101.7




 


S188




13.1
173.1
3.1
39.6




 


S189




6.9
60.9
3.6
25.5
1.06



 


S190




8.4
787.6
4.1
1310.0




 


S192




10.5
396.2
4.2
422.6




 


S193




7.8
0.0
1.1
0.0




 


S194




8.1
1948.4
5.1
0.0




 


S195




9.0
20.0
1.1
0.0




 


S198




11.0
474.2
5.1
1054.7




 


S199




13.3
−49.5
1.1





 


S200




11.1
0.0
1.3
0.0

PK11195 (TSPO)


 


S203




10.8
35.1
3.9
30.3
1.00



 


S204




14.2
22.2
2.3
0.0




 


S205




14.6
27.9
2.5
46.7




 


S206




14.8
0.0
1.4
0.0




 


S207




16.2
0.0
1.1
0.0




 


S208




13.5
128.3
1.2
111.0
1.16



 


S209




15.0
20.0
3.7
0.0




 


S210




10.7
0.0
1.1
0.0




 


S211




11.5
0.0
1.2
0.0




 


S212




10.3
20.0
1.0
0.0
1.04



 


S213




6.5
39.7
1.1
27.4
1.00



 


S214




9.9
206.5
1.7
41.1




 


S215




8.3
220.4
3.6
68.7




 


S216




13.0
25.6
4.4
29.9




 


S217




12.3
−22.5
2.6

0.89



 


S218




9.5
469.6
3.2
126.7




 


S219




8.4
−26.9
3.1





 


S220




10.5
22.2
2.9
26.3




 


S221




14.8
82.8
2.9
56.2




 


S222




15.1
0.0
1.3
0.0
1.02



 


S223




7.9
23.8
3.0
28.2




 


S224




10.1
0.0
1.3
0.0




 


S225




15.2
30.9
2.2
30.4




 


S226




12.8
49.2
1.9
33.5
0.96



 


S227




12.9
0.0
0.9
0.0




 


S228




20.2
90.1
2.0
30.3




 


S230




15.3
0.0
1.0
0.0
1.02



 


S231




13.1
−35.0
1.7





 


S232




8.4
0.0
0.9
0.0
1.00



 


S233




7.3
0.0
0.9
0.0
0.88



 


S234




17.8
20.0
1.0
0.0
0.93



 


S235




11.7
24.6
1.8
0.0
0.97



 


S236




12.3
0.0
1.7
0.0




 


S237




11.8
22.6
1.5
0.0




 


S238




9.4
0.0
0.9
0.0




 


S239




11.4
0.0
0.9
0.0




 


S240




14.3
0.0
1.7
0.0




 


S241




15.5
−14.7
1.3





 


S242




10.8
0.0
1.2
0.0




 


S243




17.9/ 19.7
184.7
2.2
184.7
1.26



 


S244




11.6
−17.2
1.1





 


S245




16.2
20.0
1.0
0.0




 


S246




14.5

1.3





 


S247




15.6
92.6
1.6
0.0




 


S248




10.1
0.0
1.3
0.0




 


(−)-S243




18.1
402.1
4.8
369.4
1.33



 


(+)-S243




10.0
80.4
4.2
92.3
1.13



 


S326








1.10


















TABLE 2









Spot number















Length

Indistinguishable
1
2
3
4












Protein
Description
(AA)
mw (Da)
Proteins
% coverage


















P43490
NAMPT_HUMAN Nicotinamide
491
55630.70

11.95
81.73
37.85
61.77



phosphoribosyltransferase


P11413
G6PD_HUMAN Glucose-6-phosphate 1-
515
62590.70
P11413-2; P11413-3;
4.98
1.00
2.99
1.00



dehydrogenase


Q86YZ3
HORN_HUMAN Hornerin
2850
283074.00

4.00


F5GWF6
F5GWF6_HUMAN T-complex protein 1
530
52828.60
F8VQ14; P78371;
4.00
1.00
3.00



subunit beta


P78371-2;


P00390
GSHR_HUMAN Glutathione reductase,
522
47363.30
P00390-2; P00390-3;
1.00
2.00
4.00
3.99



mitochondrial


P00390-4; 00390-5;


C9J8Q5
C9J8Q5_HUMAN Succinate-semialdehyde
507
58778.20
P51649; F51649-2;

1.00
4.00
3.00



dehydrogenase, mitochondrial


Q9Y265
RUVB1_HUMAN RuvB-like 1
456
42208.00
Q9Y265-2;
3.98


K7ENP3
K7ENP3_HUMAN ATP synthase subunit
531
54603.60
P25705; P25705-2;
0.98
0.98
1.97
3.96



alpha


P04083
ANXA1_HUMAN Annexin A1
346
38780.00




3.00


B3KV55
B3KV55_HUMAN Glutamate dehydrogenase
391
61521.30
B4DGN5; CONT_DHE

2.98






3_BOVIN; P00367;


P30837
AL1B1_HUMAN Aldehyde dehydrogenase X,
517
57314.30

2.55


0.55



mitochondrial


P04279
SEMG1_HUMAN Semenogelin-1
462
52225.90

2.52
1.00
1.52
1.52


B4E3LO
B4E3L0_HUMAN WD40 repeat-containing
352
57651.30
Q2TAY7;

2.00
1.00
2.00



protein SMU1


P23246
SFPQ_HUMAN Splicing factor, proline- and
707
76299.70



0.99
1.99



glutamine-rich


P14868
SYDC_HUMAN Aspartate-tRNA ligase,
501
45850.20
Q68CR9;
1.98
0.99



cytoplasmic


E7EUE5
E7EUE5_HUMAN Aldehyde dehydrogenase,
470
56489.70
F8VX15; F8W0A9;
1.00



mitochondrial


P05091;


P60709
ACTB_HUMAN Actin, cytoplasmic 1
375
41873.90
P63261;



0.94


A8MVQ3
A8MVQ3_HUMAN Cysteine--tRNA ligase,
738
94812.00
B4DKY1; P49589;



cytoplasmic


P49589-2; P49589-3;

## Claims

1. A method for identifying a compound having cell-protective activity, comprising:
exposing a population of cells to a test compound and a DNA-damaging agent;
determining survival rate of the population of cells;
wherein an increase in the survival rate compared to a control that is not treated with the test compound is indicative of cell-protective activity of the test compound; and
incubating the test compound with nicotinamide phosphoribosyltransferase (NAMPT) and measuring an activity of the NAMPT, wherein an increase in the activity of the NAMPT additionally confirms the cell-protective activity of the test compound.

2. The method of claim 1, wherein the exposing step comprises incubating the population of cells with the test compound and the DNA-damaging agent.

3. The method of claim 1, wherein the exposing step comprises incubating the population of cells with the test compound first, followed by the DNA-damaging agent.

4. The method of claim 1, wherein the exposing step comprises incubating the population of cells with the DNA-damaging agent first, followed by the test compound.

5. The method of claim 1, wherein the DNA-damaging agent activates poly-ADP-ribose polymerase (PARP).

6. The method of claim 5, wherein the DNA-damaging agent leads to decline in nicotinamide adenine dinucleotide (NAD) level.

7. The method of claim 1, wherein the DNA-damaging agent is an anthracycline.

8. The method of claim 7, wherein the anthracycline is one or more of daunorubicin, doxorubicin, epirubicin, idarubicin, valrubicin and mitoxantrone.

9. The method of claim 8, wherein the anthracycline is doxorubicin.

10. The method of claim 1, wherein the cells are mammalian cells.

11. The method of claim 1, wherein the test compound is provided at about 1-20 uM, or about 2-10 uM or about 5 uM.

12. The method of claim 1, wherein the test compound is a small molecule.

13. The method of claim 1, wherein the DNA-damaging agent is provided at about 0.01-20 uM, or about 0.05-10 uM, or about 0.1-1.5 uM, or about 0.5 uM.

14. The method of claim 1, further comprising determining the test compound having said cell-protective activity protects the cells from toxicity mediated by the DNA-damaging agent.

15. The method of claim 1, further comprising determining the test compound having said cell-protective activity does not protect the cells from toxicity induced by a toxin selected from the group consisting of bortezomib, staurosporine, taxol, brefeldin, cytochalasin D, TNFa and TRAIL.

16. The method of claim 12, further comprising determining the test compound having said cell-protective activity increases nicotinamide adenine dinucleotide (NAD) level.

17. The method of claim 1, further comprising determining the test compound having said cell-protective activity binds and/or activates the NAMPT.

18. The method of claim 1, wherein the cell-protective activity is neuroprotective activity which includes one or more of: promoting survival, health, integrity, growth, development and/or function of neurons, protecting neurons from cell death, apoptosis and/or degeneration, and stimulating neurogenesis.