Abstract
Protein-protein interactions between the hypoxia inducible transcription factor (HIF) and the transcriptional coactivators p300/CBP are potential cancer targets due to their role in the hypoxic response. A natural product based screen led to the identification of indandione and benzoquinone derivatives that reduce the tight interaction between a HIF-1α fragment and the CH1 domain of p300. The indandione derivatives were shown to fragment to give ninhydrin, which was identified as the active species. Both the naphthoquinones and ninhydrin were observed to induce Zn(II) ejection from p300 and the catalytic domain of the histone demethylase KDM4A. Together with previous reports on the effects of reated compounds on HIF-1α and other systems, the results suggest that care should be taken in interpreting biological results obtained with highly electrophilic/ thiol modifying compounds.
Keywords: Hypoxia, HIF, p300/CBP, Zinc ejection, Electrophile, Quinone
Introduction
In humans and other animals the hypoxia inducible factor (HIF) system plays a central role in the hypoxic response [1–4]. When oxygen becomes limiting, levels of the HIF-1α subunit rise, enabling its dimerization with the HIF-1β subunit. α, β-HIF activates gene expression that works to alleviate the effect of hypoxia in a context dependent manner [5]. HIF target genes, e.g. vascular endothelial growth factor (VEGF), are upregulated in many tumours, hence inhibition of HIF activity is a potential anti-cancer strategy [6–8]. The factors that regulates HIF target gene expression are still emerging, but it is clear that the transcriptional coactivator proteins p300/CREB(cAMP response element-binding protein)-binding protein (CBP) promote transcription of most, possibly all, HIF target genes [9,10]. Hence blocking the HIF-1α/p300(CBP) interactions is of most interest as an anticancer target [11,12].
The HIF-1α/p300 protein-protein interaction (PPI) is tight (KD ≈ 7 nM) [13], involving the C-terminal transactivation domain (C-TAD) of HIF-1α/-2α isoforms binding to the CH1 (Cysteine/Histidine-rich 1) domain of p300/CBP (Figure 1) [14–16]. Large surface interactions, as are observed between the HIF-1α C-TADs and p300/CBP, represent one of the challenges in inhibiting PPIs [17,18]. Interruption of the HIF-1α/p300(CBP) interaction has shown to negatively regulate oncogene expression and tumor growth [19–22]. Thus, the therapeutic significance of the HIF system has stimulated further high-throughput- and natural product-screening approaches for its inhibition [23–31]. The screens have employed both cell-based and isolated protein approaches; the cell-based approaches have yielded compounds that act indirectly on HIF, affecting the stability of HIF system proteins or by binding the hypoxia response elements (HREs) in DNA. Disrupting binding of HIF-1α to HREs has been demonstrated [25,32,33], though selectivity of DNA binders remains a concern.
In pioneering work, Kung et al. used a competition ELISA assay, with a biotinylated HIF-1α C-TAD truncate (785-826) and a GST-tagged CH1-domain, to identify chetomin, one of the epidithiodiketopiperazine (ETP) class of natural products, as a HIF-1α/p300 inhibitor [34]. The core, electrophilic, ETP functionality has been shown to be sufficient for activity, with a number of analogues showing similar activity to the natural products [35–37]. Subsequent work determined that chetomin and other ETPs work, at least in part, by Zn(II) ejection from the CH1 domain of p300, thus disrupting its structure, ablating the interaction with HIF-1α [38]. Modes of action involving cysteine modification and/or zinc ejection are likely inherently unselective, with the ETPs, such as chaetocin, showing inhibition against thioredoxin reductase and a number of histone methyl transferases [39–41].
In a search for inhibitors for the HIF-1α/p300 interaction we conducted an HTS of 10,000 natural product-based structures using a similar ELISA competition assay (Figure 2). The results led to the identification of electrophilic inhibitors of the HIF-1α/p300 PPI.
Results and Discussion
The output of the screen led to the identification of two distinct compound classes that showed promising activity: benzoquinones 1-3, and 2,2-disubstituted indandiones 4-6 (Figure 2). The observation that a structurally diverse set of quinone derivatives displayed similar levels of activity suggested that the core quinone may be the active component. Indeed, we found that simple commercially available quinones were also active (Figure 3). The results showed that the benzoquinone core is sufficient for activity, with potency correlating well with reported oxidative potentials [42,43]. Thus, anthraquinone 7 (half wave potential (E1/2) = -1.26 V) was much less active than naphthoquinone 8 (E1/2 = -1.03 V) or 2,3-dichloro-5,6-dicyano-1,4-benzoquinone (DDQ) 9 (E1/2 = -0.34 V) [44,45].
Dipyridyldisulfide 13, which contains a disulfide, as do the ETP inhibitors, was also weakly active (IC50 ≈ 100 μM). Analogous aromatic compounds, which did not contain quinone functionality, displayed no activity (e.g. 8 compared to 11) although hydroquinones 10 and 12 showed modest activity. Hydroquinones could also be involved in a redox process, generating reactive quinones in situ. Spontaneous oxidation of hydroquinone and catechol by molecular oxygen has been observed to covalently modify DNA, suggesting that such redox cycles may be responsible for activity in our assay [46,47]. A common feature of all the active groups is the presence of electrophilic groups that can react with cysteines/thiols [48,49].
We then investigated the nature of the indandione inhibition. A range of 2-amino-, 2-imino- and 2-amidoindandiones 5, 14-20 were synthesized to investigate SAR (Figure 4a). The amino- and imino-derivatives 18-20 were less active than amido-derivatives 5 and 14-17 (Figure 4b). Notably, ninhydrin 23 the parent compound of the indandione derivatives, displayed similar potency to the amido-derivatives (Figure 4b, Supp. Info – Table S1), suggesting that ninhydrin may be the active component of the inandione compound class. Indeed, mass spectrometric and NMR analysis indicated that an aqueous solution of amido-compound 5 generates ninhydrin 23 (Figure 5a). The decay of 5 to picolinamide and 23 was monitored by 1H NMR at pH 8 (D2O, 10 mM phosphate buffer), indicating that 80% hydrolysis occurs after one hour (Figure 5b). Compounds which were structurally similar, but lacked the reactive C-2 centre; i.e. 2-amido-indoline 21 and indandione 22, were inactive (Figure 4b). We thus propose that all the apparently active indandione derivatives fragment to give ninhydrin 23, which is the active species.
To further investigate the mode of action of these electrophilic compounds we tested whether they caused Zn(II) ion ejection from jumonji domain 2A histone demethylase (KDM4A), for which treatment with other Zn(II) ejectors has been shown to be inhibitory [50–52]. In the catalytic domain of KDM4A a Zn(II) ion is bound to three cysteines and one histidine in an analogous fashion to the coordination observed in the CH1 domain of p300 (Figure 6b and c). Ebselen, a known zinc-ejector for KDM4A was used as a positive control, with the dye FluoZin-3™ (FZ-3) providing a measure of the unbound zinc concentration [50]. Compounds 8, 10, 16 and ninhydrin 23, which were active in the competition binding assay also caused Zn(II) ion loss from KDM4A in a dose and time dependent manner (Figure 7b). Despite being less effective than ninhydrin 23 in the competition-binding assay, quinone 8 and reduced quinone 10 showed comparable KDM4A activity to 23. Analogous studies on p300 yielded similar results, although the high basal levels of Zn(II), added to p300 such that it folds correctly, results in poorer resolution (Figure 7a, Supp. Info – Figure S2). The lack of selectivity observed by the quinones and indandiones identified in our initial screen suggest that they are likely not selective for different zinc binding sites [53,54]
When 8 and 23 were tested in a HeLa cell viability assay, significant dose-dependent cytotoxicity was observed after 48 h (Supp. Info - Figure S3). The inactive compound 21 was not cytotoxic under the tested conditions. Naphthoquinone 8, ninhydrin 23 and related compounds have been shown to form protein adducts resulting in nonspecific toxicity [55,56].
Conclusions
In conclusion, our results have validated the output of an HTS on the HIF-1α/p300 interaction which led to the identification of quinone and indandione inhibitors. Subsequent studies demonstrated that the core quinone and ninhydrin parent rings are sufficient for inhibition, which likely occurs via non-selective loss of zinc ions, leading to disruption of the domain fold. Whilst it is possible that appropriate derivatisation could enable selectivity to be achieved, the available evidence is that this will be non-trivial. Further, we note that related electrophilic and redox sensitive compounds have also been shown to inhibit the hypoxia system (Table 1). ETPs have been shown to have targets other than p300, including histone methyl transferases (HKMTs) and thioredoxin reductase (TrxR), where reaction with thiols is also proposed [34,40,41]. A variety of quinone containing compounds have also been suggested to inhibit HIF-1α either directly [29,31] or indirectly by interacting with HIF-1α stabilizing protiens [30,57–60]. The prevalence of potentially reactive inhibitors against p300, and hypoxia system proteins thioredoxin (Trx) and TrxR, might indicate that proteins involved in this cascade are particularly sensitive to electrophilic molecules.
Table 1.
Whether the repeated identification of redox sensitive compounds in screens on the hypoxia system/ HIF components is more than coincidence is unknown at this stage. However, the development of such compounds into (selective) pharmaceuticals could be problematic, and it may of interest to configure (at least some of) the outputs of future screens to indentify such compounds [61,62].
Experimental
General information
Reactions were carried out under a nitrogen or argon atmosphere in oven-dried glassware at room temperature unless otherwise stated. Standard inert atmosphere techniques were used in handling all air and moisture sensitive reagents.
Anhydrous acetonitrile and dichloromethane (from commercial sources) were obtained by filtration through activated alumina (powder ~ 150 mesh, pore size 58 Å, basic, Sigma-Aldrich) columns, or were dried on an MB-SPS-800 dry solvent system. Other solvents and reagents were used directly as received from commercial suppliers. Petrol refers to distilled light petroleum of fraction (30 °C - 40 °C).
Flash column chromatography was carried out using VWR Kieselgel 60 silica gel (60-63 μm). Thin-layer chromatography was carried out using Merck Kieselgel 60 F254 (230-400 mesh) fluorescent treated silica, visualized under UV light (250 nm) and by staining with aqueous potassium permanganate solution.
1H and 13C NMR spectra were recorded using a Bruker 500, 400 or 300 MHz spectrometer running Topspin™ software and are quoted in ppm for measurement against a residual solvent peak as an internal standard. Chemical shifts (δ) are given in parts per million (ppm), and coupling constants (J) are given in Hertz (Hz). The 1H NMR spectra are reported as follows: δ / ppm (number of protons, multiplicity, coupling constant J / Hz (where appropriate), assignment). Multiplicity is abbreviated as follows: s = singlet, br = broad, d = doublet, dd = doublet of doublets, t = triplet, dt = doublet of triplet, q = quartet, dq = doublet of quartet, qn = quintet, sept = septet, m = multiplet. Compound names are those generated by ChemBioDraw™ (CambridgeSoft) following IUPAC nomenclature. However, the NMR assignment numbering used is arbitrary and does not follow any particular convention. Numbering of compounds is illustrated on the spectra themselves; vide infra. The 13C NMR spectra are reported in δ / ppm. Two-dimensional (COSY, HSQC, HMBC) NMR spectroscopy was used to assist the assignment of signals in the 1H and 13C NMR spectra. IR spectra were recorded on a Bruker Tensor 27 FT-IR spectrometer from a thin film deposited onto a diamond ATR module. Only selected maximum absorbances (νmax) of the most intense peaks are reported (cm−1). High-resolution mass spectra were recorded on a Bruker MicroTof mass spectrometer (ESI) by the internal service at the Department of Organic Chemistry, University of Oxford. Melting points were recorded using a Leica Galen III hot-stage microscope apparatus and are reported uncorrected in Celsius (°C).
N-(2-Hydroxy-1,3-dioxo-2,3-dihydro-1H-inden-2-yl)picolinamide (5)
Ninhydrin (400 mg, 2.25 mmol) and picolinamide (274 mg, 2.25 mmol) were added to a mixture of acetonitrile (15 mL) and anhydrous MgSO4 (150 mg) and the mixture was stirred at room temperature for 2 h. The mixture was filtered and washed with acetonitrile (15 mL). The solvent was removed from the filtrate in vacuo and the resulting residue was dissolved in dichloromethane (50 mL). The resulting solution was partitioned with water (50 mL). The product was crystallized from the aqueous phase as pale green crystals (27 mg, 0.10 mmol, 4 %); m.p 163-164; δH (400 MHz, d6-DMSO): 9.10 (1H, s); 8.73 (1H, d, J 4.7); 8.10-8.03 (5H, m); 8.00 (1H, td, J 1.6, 7.7); 7.84 (1H, d, J 7.8); 7.68 (1H, ddd, J 1.1, 4.8, 7.6); δC (100 MHz, d6-DMSO): 196.0; 163.6; 149.0; 147.6; 138.6; 138.1; 137.0; 127.5; 123.7; 121.9; 79.7; IR νmax: 3291, 3020, 1748, 1710, 1657, 1360, 1096, 960, 736: HRMS (ESI) found 305.0529; C15H10N2NaO4 [M+Na]+ requires 305.0533.
N-(2-Hydroxy-1,3-dioxo-2,3-dihydro-1H-inden-2-yl)benzamide (14)
Ninhydrin (500 mg, 2.81 mmol) and benzamide (340 mg, 2.81 mmol) were added to a mixture of acetonitrile (15 mL) and anhydrous MgSO4 (150 mg) and the mixture was stirred at room temperature for 2 h. The mixture was filtered and washed with acetonitrile (15 mL). The solvent was removed from the filtrate in vacuo and the resulting residue was dissolved in dichloromethane (50 mL). The resulting solution was partitioned with water (50 mL). The aqueous phase was washed with dichloromethane (3 × 50 mL). The solvent was removed from the combined organic phase in vacuo to yield the product as a white solid (264 mg, 0.93 mmol, 34 %); m.p 125 – 126; δH (400 MHz, d6-DMSO): 9.82 (1H, s); 8.07-8.00 (4H, m); 7.96 (1H, s); 7.93-7.85 (2H, m); 7.58-7.42 (3H, m); δC (100 MHz, d6-DMSO): 197.31; 166.9; 139.2; 137.5; 133.0; 132.1; 129.1; 128.7; 124.5; 81.4; IR νmax: 3274, 1719, 1645, 1270, 1195, 1120, 967, 736. HRMS (ESI) found 304.0583; C16H11NNaO4 [M+Na]+ requires 304.0580.
N-(2-Hydroxy-1,3-dioxo-2,3-dihydro-1H-inden-2-yl)propionamide (15)
The title compound (15) was prepared from ninhydrin (500 mg, 2.81 mmol) and propionamide (204 mg, 2.81 mmol) by following a procedure analogous to the one used for the synthesis of 14. The product was isolated as a cream solid (390 mg, 1.67 mmol, 60 %); m.p 153 – 154; δH (400 MHz, d6-DMSO): 9.14 (1H, s); 8.03-7.95 (4H, m); 7.69 (1H, s); 2.13 (2H, q, J 7.6); 0.87 (3H, t, J 7.6); δC (100 MHz, d6-DMSO): 197.7; 174.0; 139.3; 137.4; 124.3; 80.2; 27.4; 10.1; IR νmax: 3375, 3133 (br), 1760, 1723, 1632, 1513, 1116, 965, 737. HRMS (ESI) found 256.0581; C12H11NNaO4 [M+Na]+ requires 256.0580.
N-(2-Hydroxy-1,3-dioxo-2,3-dihydro-1H-inden-2-yl)nicotinamide (16)
Ninhydrin (500 mg, 2.81 mmol) and nicotinamide (342 mg, 2.81 mmol) were added to a mixture of acetonitrile (15 mL) and anhydrous MgSO4 (150 mg) and the mixture was stirred at room temperature for 2 h. The mixture was filtered, washed with acetonitrile, concentrated and the resulting residue was dissolved in dichloromethane (50 mL). The resulting solution was partitioned with water (50 mL). The product was crystallized from the aqueous phase as pale green crystals (43 mg, 0.15 mmol, 5 %); m.p 199; δH (500 MHz, d6-DMSO): 10.10 (1H, s); 9.04 (1H, d, J 1.7); 8.74 (1H, dd, J 1.6, 4.8); 8.24 (1H, dt, J 2.0, 8.0); 8.09-8.00 (5H, m); 7.51 (1H, dd, J 4.7, 7.8); δC (500 MHz, d6-DMSO): 196.2; 164.6; 152.7; 148.9; 138.4; 136.5; 135.5; 126.7; 123.7; 123.4; 80.6; IR νmax: 3344, 3270, 2980, 2696, 1753, 1716, 1191, 1124, 736. HRMS (ESI) found 305.0540; C15H10N2NaO4 [M+Na]+ requires 305.0533.
2-Chloro-N-(2-hydroxy-1,3-dioxo-2,3-dihydro-1H-inden-2-yl)acetamide (17)
Ninhydrin (500 mg, 2.81 mmol) and 2-chloroacetamide (260 mg, 2.81 mmol) were added to a mixture of acetonitrile (15 mL) and anhydrous MgSO4 (150 mg) and the mixture was stirred at room temperature for 2 h. The mixture was filtered, washed with acetonitrile, concentrated and the resulting residue dissolved in dichloromethane (50 mL). The resulting solution was partitioned with water (50 mL). The aqueous phase was washed with dichloromethane (3 × 50 mL). The solvent was removed from the combined organic phase in vacuo, and the residue was washed with ether to yield the product as a pink solid (31 mg, 0.12 mmol, 4 %); m.p 140 – 143; δH (400 MHz, d6-DMSO): 9.61 (1H, s); 8.07-7.98 (4H, m); 7.96 (1H, s); 4.10 (2H, s); δC (100 MHz, d6-DMSO): 196.8; 166.7; 139.3; 137.8; 124.5; 80.4; 41.8; IR νmax: 3364, 3157 (br), 2942, 1760, 1660, 1468, 1353, 1117, 740, 696. HRMS (ESI) found 276.0035; C11H835ClNNaO4 [M+Na]+ requires 276.0034.
2,2-bis((3-Bromophenyl)amino)-1H-indene-1,3(2H)-dione (18)
According to literature procedure [63], 3-bromoaniline (0.28 mL, 2.66 mmol) was added to a solution of ninhydrin (473 mg, 2.66 mmol) in water (5.0 mL). After stirring at room temperature for 1 h, the yellow precipitate was filtered and washed with cold water. The residue was recrystalised from hexane:chloroform (1:5) to give the title compound 18 as a red/brown crystalline solid (150 mg, 0.31 mmol, 12 %),m.p. 142 – 143; δH (400 MHz, d6-DMSO): 8.71 (4H, m); 7.23 (2H, t, J 1.8); 7.13 (2H, s); 6.97 (2H, t, J 8.0); 6.83 (2H, dd, J 1.5, 8.2); 6.79 (2H, dd, J 0.9, 7.8); δC (100 MHz, d6-DMSO): 194.9; 147.2; 139.0; 138.3; 131.1; 125.2; 122.5; 121.5; 118.5; 115.0; 73.8; IR νmax: 3377, 1696, 1589, 1474, 1256, 1138, 961, 767. HRMS (ESI) found 484.9332; C21H1479Br2N2O2 [M+H]+ requires 494.9330.
2.7 2-((4-Morpholinophenyl)imino)-1H-indene-1,3(2H)-dione (19)
A solution of ninhydrin (662 mg, 3.71 mmol) in water (10 mL) was added dropwise to a suspension of 4-morpholinoaniline (662 mg, 3.71 mmol) in water (10 mL). After stirring for 1 h, the brown precipitate was filtered and washed with MeOH (15 mL). The residue was recrystalised from MeOH to give the title compound 19 as dark purple crystals. (215 mg, 0.67 mmol, 18 %); m.p 212 – 214; δH (400 MHz, d6-DMSO): 7.99-7.94 (4H, m); 7.77 (2H, d, J 9.2); 7.03 (2H, d, J 9.2); 3.8 (2H, t, J 5.0); 3.40 (2H, t, J 5.0). δC (100 MHz, d6-DMSO): 188.0; 153.3; 140.9; 138.3; 136.9; 136.8; 130.7; 124.5; 113.8; 66.7; 47.7; IR νmax: 1716, 1675, 1483, 1160, 1114, 979, 827; HRMS (ESI) found 343.1042; C19H16N2NaO2 [M+Na]+ requires 343.1053.
(±)8-Chloro-4b-hydroxybenzo[b]indeno[2,1-e][1,4]oxazin-11(4bH)-one (20)
A solution of ninhydrin (1.48 g, 8.31 mmol) in water (20 mL) was added to a solution of 2-amino-4-chlorophenol (1.19 g, 8.31 mmol) in water (10 mL). A few drops of pyridine were added and the mixture was stirred for 1 h. The precipitate was filtered and concentrated in vacuo affording the crude product as a white solid (2.08 g). A 500 mg sample of the residue was recrystalised from MeOH to give the title compound 20 as yellow/green crystals (40mg, 0.14 mmol, 2 %); m.p 273 – 275; δH (500 MHz, d6-DMSO): 8.70 (1H, s); 8.19 (1H, d, J 7.8); 8.05-8.01 (2H, m); 7.90 (1H, t, J 7.7); 7.68 (1H, d, J 2.6); 7.38 (1H, dd, J 2.5, 8.7); 7.30 (1H, d, J 8.7); δC (125 MHz, d6-DMSO): 191.6; 159.4; 143.8; 141.1; 137.5; 136.1; 134.9; 134.44; 128.4; 126.8; 126.7; 124.9; 123.9; 119.6; 86.0; IR νmax: 2862, 1740, 1675, 1440, 1217, 971, 826, 717. HRMS (ESI) found 285.0215; C15H8(35)ClNO3 [M+H]+ requires 285.0193.
N-(1,3-Dioxoisoindolin-2-yl)benzamide (21)
According to literature procedure [64], phthalic anhydride (500 mg, 3.37 mmol) and benzohydrazine (545 mg, 4.00 mmol) were added to acetic acid (20 mL) and the mixture was heated at 125 °C for 2 h. The reaction was cooled to room temperature and water (35 mL, kept at 0 °C) was added. The white precipitate was filtered, washed with cold water and concentrated in vacuo to give the title compound 21 (517 mg, 1.9 mmol, 57 %); m.p 214 – 215; δH (400 MHz, d6-DMSO): 11.34 (1H, s); 8.04-7.96 (6H, m); 7.68 (1H, t, J 7.7); 7.58 (2H, t, J 7.7); δC (100 MHz, d6-DMSO): 165.37; 165.38; 135.5; 132.8; 130.7; 129.5; 128.8; 127.8; 123.90; IR νmax: 3232 (br), 1799, 1733, 1662, 1282, 1118, 878, 700. HRMS (ESI) found 265.0617; C15H9N2O4 [M-H]− requires 265.0619.
Supplementary Material
Acknowledgments
We thank Cancer Research UK (MKPJ), the Wellcome Trust, and the University of Oxford (ST) for funding. This work was supported in part by the Intramural Research Program of the National Institutes of Health, National Cancer Institute, Bethesda, MD, USA.
Footnotes
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References
- 1.Gillies RJ, Gatenby RA. Hypoxia and adaptive landscapes in the evolution of carcinogenesis. Cancer Metastasis Rev. 2007;26:311–317. doi: 10.1007/s10555-007-9065-z. [DOI] [PubMed] [Google Scholar]
- 2.Iyer NV, Kotch LE, Agani F, Leung SW, Laughner E, Wenger RH, et al. Cellular and developmental control of O2 homeostasis by hypoxia-inducible factor 1α. Genes Dev. 1998;12:149–162. doi: 10.1101/gad.12.2.149. [DOI] [PMC free article] [PubMed] [Google Scholar]
- 3.Rofstad EK, Danielsen T. Hypoxia-induced angiogenesis and vascular endothelial growth factor secretion in human melanoma. Br. J. Cancer. 1998;77:897–902. doi: 10.1038/bjc.1998.148. [DOI] [PMC free article] [PubMed] [Google Scholar]
- 4.Young SD, Marshall RS, Hill RP. Hypoxia induces DNA overreplication and enhances metastatic potential of murine tumor cells. Proc. Natl. Acad. Sci. USA. 1988;85:9533–9537. doi: 10.1073/pnas.85.24.9533. [DOI] [PMC free article] [PubMed] [Google Scholar]
- 5.Wang GL, Jiang BH, Rue EA, Semenza GL. Hypoxia-inducible factor 1 is a basic-helix-loop-helix-PAS heterodimer regulated by cellular O2 tension. Proc. Natl. Acad. Sci. USA. 1995;92:5510–5514. doi: 10.1073/pnas.92.12.5510. [DOI] [PMC free article] [PubMed] [Google Scholar]
- 6.Baba Y, Nosho K, Shima K, Irahara N, Chan AT, Meyerhardt JA, et al. HIF-1α overexpression is associated with poor prognosis in a cohort of 731 colorectal cancers. Am. J. Pathol. 2010;176:2292–2301. doi: 10.2353/ajpath.2010.090972. [DOI] [PMC free article] [PubMed] [Google Scholar]
- 7.Akakura N, Kobayashi M, Horiuchi I, Suzuki A, Wang J, Chen J, et al. Constitutive expression of hypoxia-inducible factor-1α renders pancreatic cancer cells resistant to apoptosis induced by hypoxia and nutrient deprivation. Cancer Res. 2001;61:6548–6554. [PubMed] [Google Scholar]
- 8.Zhong H, Marzo AMD, Laughner E, Lim M, Hilton DA, Zagzag D, et al. Overexpression of Hypoxia-inducible Factor-1α in Common Human Cancers and Their Metastases. Cancer Res. 1999;59:5830–5835. [PubMed] [Google Scholar]
- 9.Arany Z, Huang LE, Eckner R, Bhattacharya S, Jiang C, Goldberg MA, et al. An essential role for p300/CBP in the cellular response to hypoxia. Proc. Natl. Acad. Sci. USA. 1996;93:12969–12973. doi: 10.1073/pnas.93.23.12969. [DOI] [PMC free article] [PubMed] [Google Scholar]
- 10.Jiang BH, Rue E, Wang GL, Roe R, Semenza GL. Dimerization, DNA binding, and transactivation properties of hypoxia-inducible factor 1. J. Biol. Chem. 1996;271:17771–17778. doi: 10.1074/jbc.271.30.17771. [DOI] [PubMed] [Google Scholar]
- 11.Giaccia A, Siim BG, Johnson RS. HIF-1 as a target for drug development. Nat Rev Drug Discov. 2003;2:803–811. doi: 10.1038/nrd1199. [DOI] [PubMed] [Google Scholar]
- 12.Semenza GL. Targeting HIF-1 for cancer therapy. Nat. Rev. Cancer. 2003;3:721–732. doi: 10.1038/nrc1187. [DOI] [PubMed] [Google Scholar]
- 13.Semenza GL. Physiology meets biophysics: Visualizing the interaction of hypoxia-inducible factor-1α with p300 and CBP. Proc. Natl. Acad. Sci. USA. 2002;99:11570–11572. doi: 10.1073/pnas.192442299. [DOI] [PMC free article] [PubMed] [Google Scholar]
- 14.Freedman SJ, Sun Z-YJ, Poy F, Kung AL, Livingston DM, Wagner G, et al. Structural basis for recruitment of CBP/p300 by hypoxia-inducible factor-1α. Proc. Natl. Acad. Sci. USA. 2002;99:5367–5372. doi: 10.1073/pnas.082117899. [DOI] [PMC free article] [PubMed] [Google Scholar]
- 15.Gu J, Milligan J, Huang LE. Molecular mechanism of hypoxia-inducible factor 1alpha -p300 interaction. A leucine-rich interface regulated by a single cysteine. J. Biol. Chem. 2001;276:3550–3554. doi: 10.1074/jbc.M009522200. [DOI] [PubMed] [Google Scholar]
- 16.Kung AL, Wang S, Klco JM, Kaelin WG, Livingston DM. Suppression of tumor growth through disruption of hypoxia-inducible transcription. Nat. Med. 2000;6:1335–1340. doi: 10.1038/82146. [DOI] [PubMed] [Google Scholar]
- 17.Stites WE. Protein−Protein Interactions: Interface Structure, Binding Thermodynamics, and Mutational Analysis. Chem. Rev. 1997;97:1233–1250. doi: 10.1021/cr960387h. [DOI] [PubMed] [Google Scholar]
- 18.Jones S, Thornton JM. Principles of protein-protein interactions. Proc. Natl. Acad. Sci. USA. 1996;93:13–20. doi: 10.1073/pnas.93.1.13. [DOI] [PMC free article] [PubMed] [Google Scholar]
- 19.Henchey LK, Kushal S, Dubey R, Chapman RN, Olenyuk BZ, Arora PS. Inhibition of Hypoxia Inducible Factor 1—Transcription Coactivator Interaction by a Hydrogen Bond Surrogate α-Helix. J. Am. Chem. Soc. 2010;132:941–943. doi: 10.1021/ja9082864. [DOI] [PMC free article] [PubMed] [Google Scholar]
- 20.Kushal S, Lao BB, Henchey LK, Dubey R, Mesallati H, Traaseth NJ, et al. Protein domain mimetics as in vivo modulators of hypoxia-inducible factor signaling. Proc. Natl. Acad. Sci. USA. 2013:15602–15607. doi: 10.1073/pnas.1312473110. [DOI] [PMC free article] [PubMed] [Google Scholar]
- 21.Burslem GM, Kyle HF, Breeze AL, Edwards TA, Nelson A, Warriner SL, et al. Small-Molecule Proteomimetic Inhibitors of the HIF-1α–p300 Protein–Protein Interaction. ChemBioChem. 2014:1083–1087. doi: 10.1002/cbic.201400009. [DOI] [PMC free article] [PubMed] [Google Scholar]
- 22.Lao BB, Grishagin I, Mesallati H, Brewer TF, Olenyuk BZ, Arora PS. In vivo modulation of hypoxia-inducible signaling by topographical helix mimetics. Proc. Natl. Acad. Sci. USA. 2014:7531–7536. doi: 10.1073/pnas.1402393111. [DOI] [PMC free article] [PubMed] [Google Scholar]
- 23.Huang W, Huang R, Attene-Ramos MS, Sakamuru S, Englund EE, Inglese J, et al. Synthesis and evaluation of quinazolin-4-ones as hypoxia-inducible factor-1α inhibitors. Bioorg. Med. Chem. Lett. 2011;21:5239–5243. doi: 10.1016/j.bmcl.2011.07.043. [DOI] [PMC free article] [PubMed] [Google Scholar]
- 24.Moreno-Manzano V, Rodríguez-Jiménez FJ, Aceña-Bonilla JL, Fustero-Lardíes S, Erceg S, Dopazo J, et al. FM19G11, a New Hypoxia-inducible Factor (HIF) Modulator, Affects Stem Cell Differentiation Status. J. Biol. Chem. 2010;285:1333–1342. doi: 10.1074/jbc.M109.008326. [DOI] [PMC free article] [PubMed] [Google Scholar]
- 25.Kong D, Park EJ, Stephen AG, Calvani M, Cardellina JH, Monks A, et al. Echinomycin, a small-molecule inhibitor of hypoxia-inducible factor-1 DNA-binding activity. Cancer Res. 2005;65:9047–9055. doi: 10.1158/0008-5472.CAN-05-1235. [DOI] [PubMed] [Google Scholar]
- 26.Tan C, de Noronha RG, Roecker AJ, Pyrzynska B, Khwaja F, Zhang Z, et al. Identification of a Novel Small-Molecule Inhibitor of the Hypoxia-Inducible Factor 1 Pathway. Cancer Res. 2005;65:605–612. [PubMed] [Google Scholar]
- 27.Lee K, Lee JH, Boovanahalli SK, Jin Y, Lee M, Jin X, et al. (Aryloxyacetylamino)benzoic Acid Analogues: A New Class of Hypoxia-Inducible Factor-1 Inhibitors. J. Med. Chem. 2007;50:1675–1684. doi: 10.1021/jm0610292. [DOI] [PubMed] [Google Scholar]
- 28.Kwon HS, Kim D-R, Yang EG, Park YK, Ahn H-C, Min S-J, et al. Inhibition of VEGF transcription through blockade of the hypoxia inducible factor-1α–p300 interaction by a small molecule. Bioorg. Med. Chem. Lett. 2012;22:5249–5252. doi: 10.1016/j.bmcl.2012.06.054. [DOI] [PubMed] [Google Scholar]
- 29.Na Y-R, Han K-C, Park H, Yang EG. Menadione and ethacrynic acid inhibit the hypoxia-inducible factor (HIF) pathway by disrupting HIF-1α interaction with p300. Biochem. Biophys. Res. Commun. 2013;434:879–884. doi: 10.1016/j.bbrc.2013.04.044. [DOI] [PubMed] [Google Scholar]
- 30.Welsh SJ, Williams RR, Birmingham A, Newman DJ, Kirkpatrick DL, Powis G. The Thioredoxin Redox Inhibitors 1-Methylpropyl 2-Imidazolyl Disulfide and Pleurotin Inhibit Hypoxia-induced Factor 1α and Vascular Endothelial Growth Factor Formation 1. Mol Cancer Ther. 2003;2:235–243. [PubMed] [Google Scholar]
- 31.Yang H, Pinello CE, Luo J, Li D, Wang Y, Zhao LY, et al. Small-Molecule Inhibitors of Acetyltransferase p300 Identified by High-Throughput Screening Are Potent Anticancer Agents. Mol Cancer Ther. 2013;12:610–620. doi: 10.1158/1535-7163.MCT-12-0930. [DOI] [PMC free article] [PubMed] [Google Scholar]
- 32.Olenyuk BZ, Zhang G-J, Klco JM, Nickols NG, Kaelin WG, Dervan PB. Inhibition of vascular endothelial growth factor with a sequence-specific hypoxia response element antagonist. Proc. Natl. Acad. Sci. USA. 2004;101:16768–16773. doi: 10.1073/pnas.0407617101. [DOI] [PMC free article] [PubMed] [Google Scholar]
- 33.Nickols NG, Jacobs CS, Farkas ME, Dervan PB. Modulating Hypoxia-Inducible Transcription by Disrupting the HIF-1–DNA Interface. ACS Chem. Biol. 2007;2:561–571. doi: 10.1021/cb700110z. [DOI] [PMC free article] [PubMed] [Google Scholar]
- 34.Kung AL, Zabludoff SD, France DS, Freedman SJ, Tanner EA, Vieira A, et al. Small molecule blockade of transcriptional coactivation of the hypoxia-inducible factor pathway. Cancer Cell. 2004;6:33–43. doi: 10.1016/j.ccr.2004.06.009. [DOI] [PubMed] [Google Scholar]
- 35.Block KM, Wang H, Szabo LZ, Polaske NW, Henchey LK, Dubey R, et al. Direct Inhibition of Hypoxia-Inducible Transcription Factor Complex with Designed Dimeric Epidithiodiketopiperazine. J. Am. Chem. Soc. 2009;131:18078–18088. doi: 10.1021/ja807601b. [DOI] [PMC free article] [PubMed] [Google Scholar]
- 36.Dubey R, Levin MD, Szabo LZ, Laszlo CF, Kushal S, Singh JB, et al. Suppression of Tumor Growth by Designed Dimeric Epidithiodiketopiperazine Targeting Hypoxia-Inducible Transcription Factor Complex. J. Am. Chem. Soc. 2013;135:4537–4549. doi: 10.1021/ja400805b. [DOI] [PubMed] [Google Scholar]
- 37.Kushal S, Wang H, László CF, Szábo LZ, Olenyuk BZ. Inhibition of hypoxia-inducible transcription factor complex with designed epipolythiodiketopiperazine. Biopolymers. 2011;95:8–16. doi: 10.1002/bip.21550. [DOI] [PubMed] [Google Scholar]
- 38.Cook KM, Hilton ST, Mecinovic J, Motherwell WB, Figg WD, Schofield CJ. Epidithiodiketopiperazines block the interaction between hypoxia-inducible factor-1alpha (HIF-1alpha) and p300 by a zinc ejection mechanism. J. Biol. Chem. 2009;284:26831–26838. doi: 10.1074/jbc.M109.009498. [DOI] [PMC free article] [PubMed] [Google Scholar]
- 39.Cherblanc FL, Chapman KL, Brown R, Fuchter MJ. Chaetocin is a nonspecific inhibitor of histone lysine methyltransferases. Nat. Chem. Biol. 2013;9:136–137. doi: 10.1038/nchembio.1187. [DOI] [PubMed] [Google Scholar]
- 40.Cherblanc FL, Chapman KL, Reid J, Borg AJ, Sundriyal S, Alcazar-Fuoli L, et al. On the Histone Lysine Methyltransferase Activity of Fungal Metabolite Chaetocin. J. Med. Chem. 2013;56:8616–8625. doi: 10.1021/jm401063r. [DOI] [PubMed] [Google Scholar]
- 41.Tibodeau JD, Benson LM, Isham CR, Owen WG, Bible KC. The Anticancer Agent Chaetocin Is a Competitive Substrate and Inhibitor of Thioredoxin Reductase. Antioxid Redox Signal. 2009;11:1097–1106. doi: 10.1089/ars.2008.2318. [DOI] [PMC free article] [PubMed] [Google Scholar]
- 42.Klüpfel L. Redox characteristics of quinones in natural organic matter (NOM) (n.d.) [Google Scholar]
- 43.Beheshti A, Norouzi P, Ganjali MR. A Simple and Robust Model for Predicting the Reduction Potential of Quinones Family; Electrophilicity Index Effect. Int. J. Electrochem. Sci. 2012:4811–4821. [Google Scholar]
- 44.Frontana C, Vázquez-Mayagoitia Á, Garza J, Vargas R, González I. Substituent Effect on a Family of Quinones in Aprotic Solvents: An Experimental and Theoretical Approach. J. Phys. Chem. A. 2006;110:9411–9419. doi: 10.1021/jp060836+. [DOI] [PubMed] [Google Scholar]
- 45.The half-wave potential for DDQ was not found in the study by Frontana. The value quoted is for the 2,3,5,6-tetrachloro-1,4-quinone which is expected to be similar to 2,3-dichloro-5,6-cyano-1,4-quinone. DDQ half wave potential. (n.d.) [Google Scholar]
- 46.Sella E, Shabat D. Hydroquinone–quinone oxidation by molecular oxygen: a simple tool for signal amplification through auto-generation of hydrogen peroxide. Org. Biomol. Chem. 2013;11:5074–5078. doi: 10.1039/c3ob40962g. [DOI] [PubMed] [Google Scholar]
- 47.Hirakawa K, Oikawa S, Hiraku Y, Hirosawa I, Kawanishi S. Catechol and Hydroquinone Have Different Redox Properties Responsible for Their Differential DNA-damaging Ability. Chem. Res. Toxicol. 2002;15:76–82. doi: 10.1021/tx010121s. [DOI] [PubMed] [Google Scholar]
- 48.Ehmke V, Quinsaat JEQ, Rivera-Fuentes P, Heindl C, Freymond C, Rottmann M, et al. Tuning and predicting biological affinity: aryl nitriles as cysteine protease inhibitors. Org. Biomol. Chem. 2012;10:5764–5768. doi: 10.1039/c2ob00034b. [DOI] [PubMed] [Google Scholar]
- 49.Li W-W, Heinze J, Haehnel W. Site-specific binding of quinones to proteins through thiol addition and addition-elimination reactions. J. Am. Chem. Soc. 2005;127:6140–6141. doi: 10.1021/ja050974x. [DOI] [PubMed] [Google Scholar]
- 50.Sekirnik R, Rose NR, Thalhammer A, Seden PT, Mecinović J, Schofield CJ. Inhibition of the histone lysine demethylase JMJD2A by ejection of structural Zn(II) Chem. Commun. 2009:6376. doi: 10.1039/b916357c. [DOI] [PubMed] [Google Scholar]
- 51.Isaac M, Latour J-M, Sénèque O. Nucleophilic reactivity of Zinc-bound thiolates: subtle interplay between coordination set and conformational flexibility. Chem. Sci. 2012;3:3409–3420. [Google Scholar]
- 52.Chen Z, Zang J, Kappler J, Hong X, Crawford F, Wang Q, et al. Structural basis of the recognition of a methylated histone tail by JMJD2A. Proc. Natl. Acad. Sci. USA. 2007;104:10818–10823. doi: 10.1073/pnas.0704525104. [DOI] [PMC free article] [PubMed] [Google Scholar]
- 53.Alberts IL, Nadassy K, Wodak SJ. Analysis of zinc binding sites in protein crystal structures. Protein Science. 1998;7:1700–1716. doi: 10.1002/pro.5560070805. [DOI] [PMC free article] [PubMed] [Google Scholar]
- 54.Vallee BL, Coleman JE, Auld DS. Zinc fingers, zinc clusters, and zinc twists in DNA-binding protein domains. Proc. Natl. Acad. Sci. USA. 1991;88:999–1003. doi: 10.1073/pnas.88.3.999. [DOI] [PMC free article] [PubMed] [Google Scholar]
- 55.Tsuruda LS, Lamé MW, Jones AD. Formation of epoxide and quinone protein adducts in B6C3F1 mice treated with naphthalene, sulfate conjugate of 1,4-dihydroxynaphthalene and 1,4-naphthoquinone. Arch. Toxicol. 1995;69:362–367. doi: 10.1007/s002040050185. [DOI] [PubMed] [Google Scholar]
- 56.Thompson DC, Perera K, London R. Spontaneous hydrolysis of 4-trifluoromethylphenol to a quinone methide and subsequent protein alkylation. Chem.-Biol. Interact. 2000;126:1–14. doi: 10.1016/s0009-2797(99)00162-3. [DOI] [PubMed] [Google Scholar]
- 57.Grugni M, Cassin M, Colella G, De Munari S, Pardi G, Pavesi P. Indole Derivatives With Antitumor Activity, 20090036441. n.d. [Google Scholar]
- 58.Mabjeesh NJ, Post DE, Willard MT, Kaur B, Van Meir EG, Simons JW, et al. Geldanamycin induces degradation of hypoxia-inducible factor 1alpha protein via the proteosome pathway in prostate cancer cells. Cancer Res. 2002;62:2478–2482. [PubMed] [Google Scholar]
- 59.Stebbins CE, Russo AA, Schneider C, Rosen N, Hartl FU, Pavletich NP. Crystal Structure of an Hsp90–Geldanamycin Complex: Targeting of a Protein Chaperone by an Antitumor Agent. Cell. 1997;89:239–250. doi: 10.1016/s0092-8674(00)80203-2. [DOI] [PubMed] [Google Scholar]
- 60.Mooring SR, Wang B. HIF-1 inhibitors as anti-cancer therapy. Sci. China Chem. 2011;54:24–30. [Google Scholar]
- 61.Stepan AF, Walker DP, Bauman J, Price DA, Baillie TA, Kalgutkar AS, et al. Structural alert/reactive metabolite concept as applied in medicinal chemistry to mitigate the risk of idiosyncratic drug toxicity: a perspective based on the critical examination of trends in the top 200 drugs marketed in the United States. Chem. Res. Toxicol. 2011;24:1345–1410. doi: 10.1021/tx200168d. [DOI] [PubMed] [Google Scholar]
- 62.Baell JB, Holloway GA. New Substructure Filters for Removal of Pan Assay Interference Compounds (PAINS) from Screening Libraries and for Their Exclusion in Bioassays. J. Med. Chem. 2010;53:2719–2740. doi: 10.1021/jm901137j. [DOI] [PubMed] [Google Scholar]
- 63.Friedman M. Mechanism of the ninhydrin reaction. II. Preparation and spectral properties of reaction products from primary aromatic amines and ninhydrin hydrate. Can. J. Chem. 2011;45:2271–2275. [Google Scholar]
- 64.Santos JL, Yamasaki PR, Chin CM, Takashi CH, Pavan FR, Leite CQF. Synthesis and in vitro anti Mycobacterium tuberculosis activity of a series of phthalimide derivatives. Bioorg. Med. Chem. 2009;17:3795–3799. doi: 10.1016/j.bmc.2009.04.042. [DOI] [PubMed] [Google Scholar]
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