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1.
J Chem Theory Comput ; 17(8): 5301-5311, 2021 Aug 10.
Article En | MEDLINE | ID: mdl-34270241

Though crucial for understanding the function of large biomolecular systems, locating the minimum free energy paths (MFEPs) between their key conformational states is far from trivial due to their high-dimensional nature. Most existing path-searching methods require a static collective variable space as input, encoding intuition or prior knowledge of the transition mechanism. Such information is, however, hardly available a priori and expensive to validate. To alleviate this issue, we have previously introduced a Traveling-salesman based Automated Path Searching method (TAPS) and demonstrated its efficiency on simple peptide systems. Having implemented a parallel version of this method, here we assess the performance of TAPS on three realistic systems (tens to hundreds of residues) in explicit solvents. We show that TAPS successfully located the MFEP for the ground/excited state transition of the T4 lysozyme L99A variant, consistent with previous findings. TAPS also helped identifying the important role of the two polar contacts in directing the loop-in/loop-out transition of the mitogen-activated protein kinase kinase (MEK1), which explained previous mutant experiments. Remarkably, at a minimal cost of 126 ns sampling, TAPS revealed that the Ltn40/Ltn10 transition of lymphotactin needs no complete unfolding/refolding of its ß-sheets and that five polar contacts are sufficient to stabilize the various partially unfolded intermediates along the MFEP. These results present TAPS as a general and promising tool for studying the functional dynamics of complex biomolecular systems.


MAP Kinase Kinase 1/chemistry , Muramidase/chemistry , Lymphokines/chemistry , Lymphokines/metabolism , MAP Kinase Kinase 1/metabolism , Molecular Dynamics Simulation , Muramidase/genetics , Muramidase/metabolism , Mutagenesis, Site-Directed , Protein Conformation, beta-Strand , Protein Unfolding , Sialoglycoproteins/chemistry , Sialoglycoproteins/metabolism
2.
Molecules ; 26(14)2021 Jul 12.
Article En | MEDLINE | ID: mdl-34299514

Aspergillus is one of the most diverse genera, and it is chemically profound and known to produce many biologically active secondary metabolites. In the present study, a new aspochalasin H1 (1), together with nine known compounds (2-10), were isolated from a Hawaiian plant-associated endophytic fungus Aspergillus sp. FT1307. The structures were elucidated using nuclear magnetic resonance (NMR) (1H, 1H-1H COSY, HSQC, HMBC, ROESY and 1D NOE), high-resolution electrospray ionization mass spectroscopy (HRESIMS), and comparisons with the reported literature. The absolute configuration of the new compound was established by electronic circular dichroism (ECD) in combination with NMR calculations. The new compound contains an epoxide moiety and an adjacent trans-diol, which has not been reported before in the aspochalasin family. The antibacterial screening of the isolated compounds was carried out against pathogenic bacteria (Staphylococcus aureus, Methicillin-resistant S. aureus and Bacillus subtilis). The antiproliferative activity of compounds 1-10 was evaluated against human breast cancer cell lines (MCF-7 and T46D) and ovarian cancer cell lines (A2780).


Aspergillus/metabolism , Boraginaceae/microbiology , Cytochalasins/pharmacology , Anti-Bacterial Agents/pharmacology , Antineoplastic Agents/pharmacology , Breast Neoplasms/drug therapy , Cell Line, Tumor , Cell Proliferation/drug effects , Circular Dichroism , Female , Hawaii , Humans , MCF-7 Cells , Magnetic Resonance Spectroscopy/methods , Ovarian Neoplasms/drug therapy
3.
Eur J Pharmacol ; 897: 173944, 2021 Apr 15.
Article En | MEDLINE | ID: mdl-33581133

As the critical driving force for chronic myeloid leukemia (CML), BCR gene fused ABL kinase has been extensively explored as a validated target of drug discovery. Although imatinib has achieved tremendous success as the first-line treatment for CML, the long-term application ultimately leads to resistance, primarily via various acquired mutations occurring in the BCR-ABL kinase. Although dasatinib and nilotinib have been approved as second-line therapies that could overcome some of these mutants, the most prevalent gatekeeper T315I mutant remains unconquered. Here, we report a novel type II kinase inhibitor, CHMFL-48, that potently inhibits the wild-type BCR-ABL (wt) kinase as well as a panel of imatinib-resistant mutants, including T315I, F317L, E255K, Y253F, and M351T. CHMFL-48 displayed great inhibitory activity against ABL wt (IC50: 1 nM, 70-fold better than imatinib) and the ABL T315I mutant (IC50: 0.8 nM, over 10,000-fold better than imatinib) in a biochemical assay and potently blocked the autophosphorylation of BCR-ABL wt and BCR-ABL mutants in a cellular context, which further affected downstream signalling mediators, including signal transducer and activator of transcription 5 (STAT5) and CRK like proto-oncogene (CRKL), and led to the cell cycle progression blockage as well as apoptosis induction. CHMFL-48 also exhibited great anti-leukemic efficacies in vivo in K562 cells and p210-T315I-transformed BaF3 cell-inoculated murine models. This discovery extended the pharmacological diversity of BCR-ABL kinase inhibitors and provided more potential options for anti-CML therapies.


Antineoplastic Agents/pharmacology , Drug Resistance, Neoplasm/drug effects , Fusion Proteins, bcr-abl/antagonists & inhibitors , Imatinib Mesylate/pharmacology , Leukemia, Myelogenous, Chronic, BCR-ABL Positive/drug therapy , Protein Kinase Inhibitors/pharmacology , Animals , Apoptosis/drug effects , Cell Proliferation/drug effects , Female , Fusion Proteins, bcr-abl/genetics , Fusion Proteins, bcr-abl/metabolism , Gene Fusion , Humans , K562 Cells , Leukemia, Myelogenous, Chronic, BCR-ABL Positive/enzymology , Leukemia, Myelogenous, Chronic, BCR-ABL Positive/genetics , Leukemia, Myelogenous, Chronic, BCR-ABL Positive/pathology , Mice , Mice, Nude , Mutation , Proto-Oncogene Mas , Tumor Cells, Cultured , Xenograft Model Antitumor Assays
4.
Cell ; 184(4): 943-956.e18, 2021 02 18.
Article En | MEDLINE | ID: mdl-33571432

Dopamine receptors, including D1- and D2-like receptors, are important therapeutic targets in a variety of neurological syndromes, as well as cardiovascular and kidney diseases. Here, we present five cryoelectron microscopy (cryo-EM) structures of the dopamine D1 receptor (DRD1) coupled to Gs heterotrimer in complex with three catechol-based agonists, a non-catechol agonist, and a positive allosteric modulator for endogenous dopamine. These structures revealed that a polar interaction network is essential for catecholamine-like agonist recognition, whereas specific motifs in the extended binding pocket were responsible for discriminating D1- from D2-like receptors. Moreover, allosteric binding at a distinct inner surface pocket improved the activity of DRD1 by stabilizing endogenous dopamine interaction at the orthosteric site. DRD1-Gs interface revealed key features that serve as determinants for G protein coupling. Together, our study provides a structural understanding of the ligand recognition, allosteric regulation, and G protein coupling mechanisms of DRD1.


GTP-Binding Protein alpha Subunits, Gs/metabolism , Receptors, Dopamine D1/metabolism , Signal Transduction , Allosteric Regulation , Allosteric Site , Amino Acid Motifs , Amino Acid Sequence , Binding Sites , Catechols/metabolism , Cryoelectron Microscopy , Fenoldopam/chemistry , Fenoldopam/pharmacology , GTP-Binding Protein alpha Subunits, Gs/chemistry , GTP-Binding Protein alpha Subunits, Gs/ultrastructure , HEK293 Cells , Humans , Ligands , Models, Molecular , Protein Multimerization , Receptors, Dopamine D1/chemistry , Receptors, Dopamine D1/ultrastructure , Receptors, Dopamine D2/metabolism , Structural Homology, Protein
5.
J Nat Prod ; 84(2): 466-473, 2021 02 26.
Article En | MEDLINE | ID: mdl-33491454

Five new tyrosine derivatives (1-5), one new phenylacetic acid derivative (6), two new quinazolinone analogues (7 and 8), one new naphthalenedicarboxylic acid (9), and one new 3,4-dihydroisocoumarin derivative (10), together with seven known compounds, were isolated from the fungus Xylaria sp. FM1005, which was isolated from Sinularia densa (leather coral) collected in the offshore region of the Big Island, Hawaii. The structures of compounds 1-10 were elucidated by extensive analysis of NMR spectroscopy, HRESIMS, and ECD data. Due to their structure similarity to the antiplatelet drug tirofiban, compounds 1-5 together with 6 were investigated for their antithrombotic activities. Compounds 1 and 2 strongly inhibited the binding of fibrinogen to purified integrin IIIb/IIa in a dose-dependent manner with the IC50 values of 0.89 and 0.61 µM, respectively, and compounds 1 and 2 did not show any cytotoxicity against A2780 and HEK 293 at 40 µM.


Anthozoa/microbiology , Fibrinolytic Agents/pharmacology , Platelet Glycoprotein GPIIb-IIIa Complex/antagonists & inhibitors , Xylariales/chemistry , Animals , Cell Line, Tumor , Fibrinolytic Agents/isolation & purification , HEK293 Cells , Hawaii , Humans , Male , Molecular Structure , Phenylacetates/isolation & purification , Phenylacetates/pharmacology , Quinazolinones/isolation & purification , Quinazolinones/pharmacology , Rats, Sprague-Dawley , Secondary Metabolism , Tyrosine/isolation & purification , Tyrosine/pharmacology
6.
Chembiochem ; 22(2): 416-422, 2021 01 15.
Article En | MEDLINE | ID: mdl-32816319

Some fungal epithiodiketopiperazine alkaloids display α,ß-polysulfide bridges alongside diverse structural variations. However, the logic of their chemical diversity has rarely been explored. Here, we report the identification of three new (2, 3, 8) and five known (1, 4-7) epithiodiketopiperazines of this subtype from a marine-derived Penicillium sp. The structure elucidation was supported by multiple spectroscopic analyses. Importantly, we observed multiple nonenzymatic interconversions of these analogues in aqueous solutions and organic solvents. Furthermore, the same biosynthetic origin of these compounds was supported by one mined gene cluster. The dominant analogue (1) demonstrated selective cytotoxicity to androgen-sensitive prostate cancer cells and HIF-depleted colorectal cells and mild antiaging activities, linking the bioactivity to oxidative stress. These results provide crucial insight into the formation of fungal epithiodiketopiperazines through chemical interconversions.


Diketopiperazines/chemistry , Penicillium/chemistry , Sulfides/chemistry , Molecular Structure
7.
Acta Pharmacol Sin ; 42(4): 633-640, 2021 Apr.
Article En | MEDLINE | ID: mdl-32737469

Inhibition of glycolysis process has been an attractive approach for cancer treatment due to the evidence that tumor cells are more dependent on glycolysis rather than oxidative phosphorylation pathway. Preliminary evidence shows that inhibition of phosphoglycerate kinase 1 (PGK1) kinase activity would reverse the Warburg effect and make tumor cells lose the metabolic advantage for fueling the proliferation through restoration of the pyruvate dehydrogenase (PDH) activity and subsequently promotion of pyruvic acid to enter the Krebs cycle in glioma. However, due to the lack of small molecule inhibitors of PGK1 kinase activity to treat glioma, whether PGK1 could be a therapeutic target of glioma has not been pharmacologically verified yet. In this study we developed a high-throughput screening and discovered that NG52, previously known as a yeast cell cycle-regulating kinase inhibitor, could inhibit the kinase activity of PGK1 (the IC50 = 2.5 ± 0.2 µM). We showed that NG52 dose-dependently inhibited the proliferation of glioma U87 and U251 cell lines with IC50 values of 7.8 ± 1.1 and 5.2 ± 0.2 µM, respectively, meanwhile it potently inhibited the proliferation of primary glioma cells. We further revealed that NG52 (12.5-50 µM) effectively inhibited the phosphorylation of PDHK1 at Thr338 site and the phosphorylation of PDH at Ser293 site in U87 and U251 cells, resulting in more pyruvic acid entering the Krebs cycle with increased production of ATP and ROS. Therefore, NG52 could reverse the Warburg effect by inhibiting PGK1 kinase activity, and switched cellular glucose metabolism from anaerobic mode to aerobic mode. In nude mice bearing patient-derived glioma xenograft, oral administration of NG52 (50, 100, 150 mg· kg-1·d-1, for 13 days) dose-dependently suppressed the growth of glioma xenograft. Together, our results demonstrate that targeting PGK1 kinase activity might be a potential strategy for glioma treatment.


Adenine/analogs & derivatives , Adenine/therapeutic use , Glioma/drug therapy , Phosphoglycerate Kinase/antagonists & inhibitors , Protein Kinase Inhibitors/therapeutic use , Adenine/pharmacology , Animals , Apoptosis/drug effects , Cell Line, Tumor , Cell Proliferation/drug effects , Drug Screening Assays, Antitumor , Epithelial-Mesenchymal Transition/drug effects , Female , Glioma/enzymology , Humans , Mice, Nude , Protein Kinase Inhibitors/pharmacology , Warburg Effect, Oncologic/drug effects , Xenograft Model Antitumor Assays
8.
Phytochemistry ; 181: 112545, 2021 Jan.
Article En | MEDLINE | ID: mdl-33217722

Alarming rate of resistance to the existing antibiotics exhibits the importance of developing new antibiotic molecules from relatively under explored sources as well as implementing alternative approaches like antibiotic adjuvants. Six previously undescribed fungal polyketides, kaneoheoic acids A-F (1-6) were isolated from a fungal strain Fusarium sp. FM701 which was collected from a muddy sample of Hawaiian beach. The structures of these six compounds were elucidated by spectroscopic interpretation, including HRESIMS and NMR, and electronic circular dichroism (ECD) analysis. All six compounds that were inactive when tested alone showed significant antibacterial activity against Staphylococcus aureus and Bacillus subtilis, in the range of 10-80 µg/mL when assayed in combination with either chloramphenicol (half of the MIC, 1 µg/mL), an FDA approved antibiotic or disulfiram (6 µg/mL), an established antibiotic adjuvant that augmented the activity of antibiotics.


Fusarium , Polyketides , Anti-Bacterial Agents/pharmacology , Fungi , Hawaii , Microbial Sensitivity Tests , Polyketides/pharmacology
9.
Tetrahedron Lett ; 61(14)2020 Apr 02.
Article En | MEDLINE | ID: mdl-33281236

Two new compounds tryptoquivalines W (1) and X (2) were isolated from a Hawaiian soil fungal strain Aspergillus terreus FS107. The soil sample was collected on the top of Mauna Kea, the tallest mountain in Hawaii. The structures of compounds 1 and 2 were determined on the basis of MS spectroscopic and NMR analysis, and NMR calculation. The absolute configuration (AC) was determined by ECD calculations. Compounds 4 and 5 showed inhibition against NF-κB with IC50 values of 3.45 and 6.76 µM, respectively.

10.
J Med Chem ; 63(22): 13973-13993, 2020 11 25.
Article En | MEDLINE | ID: mdl-33180507

Accumulated pieces of evidence have shown that PI3Kδ plays a critical role in chronic obstructive pulmonary disease (COPD). Using a fragment-hybrid approach, we discovered a potent and selective PI3Kδ inhibitor (S)-18. In the biochemical assay, (S)-18 inhibits PI3Kδ (IC50 = 14 nM) with high selectivity over other class I PI3Ks (56∼83 fold). (S)-18 also achieves good selectivity over other protein kinases in the kinome (S-score (35) = 0.015). In the cell, (S)-18 selectively and potently inhibits the PI3Kδ-mediated phosphorylation of AKT T308 but not other class I PI3K-mediated signaling. Additionally, (S)-18 exhibits no apparent inhibitory effect on CYP isoforms except for a moderate effect on CYP2C9. Furthermore, it shows no apparent inhibitory activity against hERG (IC50 > 10 µM). In vivo, (S)-18 displays favorable PK properties for inhaled delivery and improves lung function in a rodent model of pulmonary inflammation. These results suggest that (S)-18 might be a new potential therapeutic candidate for COPD.


Cell Proliferation/drug effects , Class I Phosphatidylinositol 3-Kinases/antagonists & inhibitors , Drug Discovery , Phosphoinositide-3 Kinase Inhibitors/chemistry , Phosphoinositide-3 Kinase Inhibitors/pharmacology , Pulmonary Disease, Chronic Obstructive/drug therapy , Animals , Male , Molecular Docking Simulation , Rats , Rats, Sprague-Dawley , Structure-Activity Relationship
11.
Eur J Med Chem ; 207: 112744, 2020 Dec 01.
Article En | MEDLINE | ID: mdl-32949955

Due to the critical tumorigenic role of fused NTRK genes in multiple cancers, TRK kinases have attracted extensive attention as a drug discovery target. Starting from an indazole based scaffold, through the type II kinase inhibitor fragments hybrid design approach with a ring closure strategy, we discovered a novel potent type II TRK kinase inhibitor compound 34 (IHMT-TRK-284), which exhibited IC50 values of 10.5 nM, 0.7 nM and 2.6 nM to TRKA, B, and C respectively. In addition, it displayed great selectivity profile in the kinome when tested among 468 kinases and mutants (S score (1) = 0.02 at 1 µM). Importantly, 34 could overcome drug resistant mutants including V573M and F589L in the ATP binding pocket as well as G667C/S in the DFG region. In vivo, 34 exhibited good PK profiles in different species including mice, rats, and dogs. It also displayed good in vivo antitumor efficacies in the TRKA/B/C, TRKA mutants, and KM-12-LUC cells mediated mouse models. The potent activity against clinically important TRK mutants combined with the good in vivo PK and efficacy properties of 34 indicated that it might be a new potential therapeutic candidate for TRK kinase fusion or mutants driven cancers.


Drug Design , Drug Resistance, Neoplasm/drug effects , Mutation , Receptor, trkA/antagonists & inhibitors , Thiazoles/chemistry , Thiazoles/pharmacology , Administration, Oral , Animals , Antineoplastic Agents/administration & dosage , Antineoplastic Agents/chemistry , Antineoplastic Agents/pharmacokinetics , Antineoplastic Agents/pharmacology , Apoptosis/drug effects , Biological Availability , Cell Line, Tumor , Cell Proliferation/drug effects , Dogs , Drug Resistance, Neoplasm/genetics , Humans , Male , Mice , Protein Kinase Inhibitors/administration & dosage , Protein Kinase Inhibitors/chemistry , Protein Kinase Inhibitors/pharmacokinetics , Protein Kinase Inhibitors/pharmacology , Rats , Receptor, trkA/genetics , Thiazoles/administration & dosage , Thiazoles/pharmacokinetics , Xenograft Model Antitumor Assays
12.
J Nat Prod ; 83(3): 730-737, 2020 03 27.
Article En | MEDLINE | ID: mdl-32163285

Two new helvolic acid analogues (1 and 2) and one new fumagillin derivative containing an octahydroisobenzofuran moiety (3), together with four known compounds (4-7), were isolated from an Aspergillus terreus, isolated from soil collected from Mauna Kea, the highest mountain in Hawaii. Compound 4 was recorded in SciFinder with a CAS Registry Number of 1379525-35-5, but it was not documented in the cited reference (ACS Chem. Biol. 2012, 7, 137). The structures of compounds 1-4 were elucidated by NMR spectroscopy and HRMS and ECD analysis. Compounds 5 and 6 showed significant inhibitory activity against NF-κB with IC50 values of 2.7 ± 2.6 and 6.5 ± 0.8 µM, respectively. Compounds 1 and 2 were active against S. aureus with MICs of 6.25 and 6.25 µg/mL, respectively, while compound 5 inhibited E. coli with an MIC of 3.12 µg/mL.


Anti-Bacterial Agents/pharmacology , Aspergillus/chemistry , Cyclohexanes/pharmacology , Fatty Acids, Unsaturated/pharmacology , Fusidic Acid/analogs & derivatives , NF-kappa B/antagonists & inhibitors , Anti-Bacterial Agents/isolation & purification , Biological Products/isolation & purification , Biological Products/pharmacology , Cyclohexanes/isolation & purification , Escherichia coli/drug effects , Fatty Acids, Unsaturated/isolation & purification , Fusidic Acid/isolation & purification , Fusidic Acid/pharmacology , HEK293 Cells , Hawaii , Humans , Microbial Sensitivity Tests , Molecular Structure , Sesquiterpenes/isolation & purification , Sesquiterpenes/pharmacology , Staphylococcus aureus/drug effects
13.
Eur J Med Chem ; 188: 112012, 2020 Feb 15.
Article En | MEDLINE | ID: mdl-31911293

Starting from a bipyridine-sulfonamide scaffold, medicinal chemistry optimization leads to the discovery of a novel Plasmodium falciparum PI4K kinase (PfPI4K) inhibitor compound 15g (CHMFL-PI4K-127, IC50: 0.9 nM), which exhibits potent activity against 3D7 Plasmodium falciparum (P. falciparum) (EC50: 25.1 nM). CHMFL-PI4K-127 displays high selectivity against PfPI4K over human lipid and protein kinase. In addition, it exhibits EC50 values of 23-47 nM against a panel of the drug-resistant strains of P. falciparum. In vivo, the inhibitor demonstrates the favorable pharmacokinetic properties in both rats and mice. Furthermore, oral administration of CHMFL-PI4K-127 exhibits the antimalaria efficacy in both blood stage (80 mg/kg) and liver stage (1 mg/kg) of Plasmodium in infected rodent model. The results suggest that CHMFL-PI4K-127 might be a new potential drug candidate for malaria.


1-Phosphatidylinositol 4-Kinase/antagonists & inhibitors , Antimalarials/pharmacology , Drug Discovery , Enzyme Inhibitors/pharmacology , Liver/drug effects , Plasmodium falciparum/drug effects , Pyridines/pharmacology , 1-Phosphatidylinositol 4-Kinase/metabolism , Animals , Antimalarials/blood , Antimalarials/chemistry , Dose-Response Relationship, Drug , Enzyme Inhibitors/blood , Enzyme Inhibitors/chemistry , Liver/metabolism , Mice , Mice, Inbred BALB C , Molecular Structure , Parasitic Sensitivity Tests , Plasmodium falciparum/metabolism , Pyridines/blood , Pyridines/chemistry , Structure-Activity Relationship
14.
Ther Adv Med Oncol ; 11: 1758835919849757, 2019.
Article En | MEDLINE | ID: mdl-31205508

BACKGROUND: cKIT kinase overexpression and gain-of-function mutations are the critical pathogenesis of gastrointestinal stromal tumors (GISTs). Although the multiple kinase inhibitors such as imatinib, sunitinib, and regorafenib have been approved for GISTs, the acquisition of polyclonal secondary resistance mutations in KIT is still a limitation for GIST treatment. Here we explored the KIT inhibitory activity of axitinib in preclinical models and describe initial characterization of its activity in GIST patient-derived primary cells. METHODS: The activities of axitinib against mutant KIT were evaluated using protein-based assay and a panel of engineered and GIST-derived cell lines. The binding modes of axitinib-KIT/KIT mutants were analyzed. Four primary cells derived from GIST patients were also used to assess the drug response of axitinib. RESULTS: Axitinib exhibited potent activities against a variety of cKIT associated primary and secondary mutations. It displayed better activity against cKIT wild-type, cKIT V559D/A/G, and L576P primary gain-of-function mutations than imatinib, sunitinib, and regorafenib. In addition, it could inhibit imatinib resistant cKIT T670I and V654A mutants in vitro and in vivo GIST preclinical models. CONCLUSION: Our results provide the basis for extending the application of axitinib to GISTs patients who are unresponsive or intolerant to the current therapies.

15.
J Med Chem ; 62(13): 6083-6101, 2019 07 11.
Article En | MEDLINE | ID: mdl-31250638

Starting from our previously developed c-KIT kinase inhibitor CHMFL-KIT-8140, through a type II kinase inhibitor binding element hybrid design approach, we discovered a novel c-KIT kinase inhibitor compound 18 (CHMFL-KIT-64), which is potent against c-KIT wt and a broad spectrum of drug-resistant mutants with improved bioavailability. 18 exhibits single-digit nM potency against c-KIT kinase and c-KIT T670I mutants in the biochemical assay and displays great potencies against most of the gain-of-function mutations in the juxtamembrane domain, drug-resistant mutations in the ATP binding pocket (except V654A), and activation loops (except D816V). In addition, 18 exhibits a good in vivo pharmacokinetic (PK) profile in different species including mice, rats, and dogs. It also displays good in vivo antitumor efficacy in the c-KIT T670I, D820G, and Y823D mutant-mediated mice models as well as in the c-KIT wt patient primary cells which are known to be imatinib-resistant. The potent activity against a broad spectrum of clinically important c-KIT mutants combining the good in vivo PK/pharmacodynamic properties of 18 indicates that it might be a new potential therapeutic candidate for gastrointestinal stromal tumors.


Antineoplastic Agents/therapeutic use , Benzeneacetamides/therapeutic use , Gastrointestinal Stromal Tumors/drug therapy , Protein Kinase Inhibitors/therapeutic use , Proto-Oncogene Proteins c-kit/antagonists & inhibitors , Quinolines/therapeutic use , Animals , Antineoplastic Agents/chemical synthesis , Antineoplastic Agents/metabolism , Antineoplastic Agents/pharmacokinetics , Benzeneacetamides/chemical synthesis , Benzeneacetamides/metabolism , Benzeneacetamides/pharmacokinetics , Cell Proliferation/drug effects , Dogs , Drug Discovery , Female , Gastrointestinal Neoplasms/drug therapy , Humans , Male , Mice, Inbred BALB C , Models, Molecular , Molecular Structure , Mutation , Protein Binding , Protein Kinase Inhibitors/chemical synthesis , Protein Kinase Inhibitors/metabolism , Protein Kinase Inhibitors/pharmacokinetics , Proto-Oncogene Proteins c-kit/genetics , Proto-Oncogene Proteins c-kit/metabolism , Quinolines/chemical synthesis , Quinolines/metabolism , Quinolines/pharmacokinetics , Rats, Sprague-Dawley , Structure-Activity Relationship , Xenograft Model Antitumor Assays
16.
J Med Chem ; 62(10): 5006-5024, 2019 05 23.
Article En | MEDLINE | ID: mdl-31046271

Gain-of-function mutations of c-KIT kinase play crucial pathological roles for the gastrointestinal stromal tumors (GISTs). Despite the success of imatinib as the first-line treatment of GISTs, dozens of drug-acquired resistant mutations emerge, and c-KIT T670I is one of the most common mutants among them. Although several kinase inhibitors are capable of overcoming the T670I mutant, none of them can achieve the selectivity over the c-KIT wild-type (wt), which also plays important roles in a variety of physiological functions such as hematopoiesis. Starting from axitinib, through fragment hybrid type II kinase inhibitor design approach, we have discovered a novel inhibitor 24, which not only exhibits potent activity to c-KIT T670I mutant but also achieves 12-fold selectivity over c-KIT wt. Compound 24 displays good antiproliferative effects against c-KIT T670I mutant-driven GIST cell lines (GIST-T1/T670I and GIST-5R) and also exhibits suitable in vivo pharmacokinetic profiles as well as dose-dependent antitumor efficacy. This study provides a proof of concept for developing a c-KIT mutant selective inhibitor that theoretically can render a better therapeutic window.


Antineoplastic Agents/chemical synthesis , Antineoplastic Agents/pharmacology , Gastrointestinal Neoplasms/drug therapy , Gastrointestinal Stromal Tumors/drug therapy , Indazoles/pharmacology , Protein Kinase Inhibitors/chemical synthesis , Protein Kinase Inhibitors/pharmacology , Proto-Oncogene Proteins c-kit/genetics , Animals , Antineoplastic Agents/pharmacokinetics , Apoptosis/drug effects , Cell Line, Tumor , Cell Proliferation/drug effects , Drug Design , Drug Resistance, Neoplasm , Female , Humans , Indazoles/chemical synthesis , Indazoles/pharmacokinetics , Mice , Models, Molecular , Molecular Docking Simulation , Mutation , Protein Kinase Inhibitors/pharmacokinetics , Rats , Rats, Sprague-Dawley , Structure-Activity Relationship
17.
J Nat Prod ; 82(5): 1331-1337, 2019 05 24.
Article En | MEDLINE | ID: mdl-30994348

Six new nardosinane-type sesquiterpenoids, clavukoellians A-F (1-6), together with one new neolemnane-type sesquiterpene, 4- O-deacetylparalemnolin D (7), were isolated from the marine soft coral Clavularia koellikeri. The structures of compounds 1-7 were elucidated by NMR spectroscopy, ECD analysis, and quantum chemical calculation methods. Compounds 1 and 7 demonstrated significant antiangiogenic activities in wound healing assays on HUVECs.


Angiogenesis Inhibitors/chemistry , Angiogenesis Inhibitors/pharmacology , Anthozoa/chemistry , Sesquiterpenes/chemistry , Sesquiterpenes/pharmacology , Animals , Cell Line, Tumor , Cell Proliferation , Drug Screening Assays, Antitumor , Human Umbilical Vein Endothelial Cells/drug effects , Humans , Molecular Structure , Neovascularization, Pathologic/prevention & control , Nuclear Magnetic Resonance, Biomolecular , Wound Healing/drug effects
18.
Cancer Biol Ther ; 20(6): 877-885, 2019.
Article En | MEDLINE | ID: mdl-30894066

BCR fused ABL kinase is the critical driving oncogene for chronic myeloid leukemia (CML) and has been extensively studied as the drug discovery target in the past decade. The successful introduction of tyrosine kinase inhibitors (TKI) such as Imatinib, Dasatinib and Bosutinib has greatly improved the CML patient survival rate. However, upon the chronic treatment, a variety of TKI resistant mutants, such as the V299L mutant which has been found in more and more patients with the high-throughput sequencing technology, are observed, although the incidence is still considered rare compared to the more prevalent gatekeeper T315I mutant. However, with the progress of the precision medicine concept, the rare mutation (or the orphan drug target) has attracted more and more attention. Here we report a novel type II BCR-ABL kinase inhibitor, CHMFL-ABL-039, which not only displayed great potency (IC50: 7.9 nM) and selectivity (S score (1) = 0.02) against native ABL kinase among other kinases in the kinome, but also exhibited great potency (IC50: 27.9 nM) and selectivity against Imatinib-resistant V299L mutant among other frequently observed ABL kinase mutants. CHMFL-ABL-039 has demonstrated greater efficacies than Imatinib regarding to the anti-proliferation, inhibition of the signaling pathway, arrest of cell cycle progression, induction of apoptosis in vitro and suppression of the tumor progression in vivo in the native and V299L mutated BCR-ABL kinase-driven cells/xenograft models. It would be a useful pharmacological tool to study the TKI resistant ABL V299L mutant-mediated pathology and provide a potential precise treatment approach for this orphan CML subtype in the precision medicine era.


Amino Acid Substitution , Drug Resistance, Neoplasm/genetics , Fusion Proteins, bcr-abl/genetics , Leukemia, Myelogenous, Chronic, BCR-ABL Positive/genetics , Mutation , Protein Kinase Inhibitors/pharmacology , Alleles , Animals , Apoptosis/drug effects , Apoptosis/genetics , Cell Line, Tumor , Cell Proliferation/drug effects , Disease Models, Animal , Humans , Leukemia, Myelogenous, Chronic, BCR-ABL Positive/drug therapy , Mice , Protein Kinase Inhibitors/chemistry , Protein Kinase Inhibitors/therapeutic use , Signal Transduction/drug effects , Xenograft Model Antitumor Assays
19.
Cancer Lett ; 447: 105-114, 2019 04 10.
Article En | MEDLINE | ID: mdl-30684595

Despite of the great success of imatinib as the first-line treatment for GISTs, the majority of patients will develop drug-acquired resistance due to secondary mutations in the cKIT kinase. Sunitinib and regorafenib have been approved as the second and third line therapies to overcome some of these drug-resistance mutations; however, their limited clinical response, toxicity and resistance of the activation loop mutants still makes new therapies bearing different cKIT mutants activity spectrum profile highly demanded. Through a drug repositioning approach, we found that cabozantinib exhibited higher potency than imatinib against primary gain-of-function mutations of cKIT. Moreover, cabozantinib was able to overcome cKIT gatekeeper T670I mutation and the activation loop mutations that are resistant to imatinib or sunitinib. Cabozantinib demonstrated good efficacy in vitro and in vivo in the cKIT mutant-driven preclinical models of GISTs while displaying a long-lasting effect after treatment withdrawal. Furthermore, it also exhibited dose-dependent anti-proliferative efficacy in the GIST patient derived primary cells. Considering clinical safety and PK profile of cabozantinib, this report provides the basis for the future clinical applications of cabozantinib as an alternative anti-GISTs therapy in precision medicine.


Anilides/pharmacology , Antineoplastic Agents/pharmacology , Drug Resistance, Neoplasm/drug effects , Gastrointestinal Stromal Tumors/drug therapy , Imatinib Mesylate/pharmacology , Mutation/drug effects , Proto-Oncogene Proteins c-kit/genetics , Pyridines/pharmacology , Cell Line, Tumor , Drug Repositioning/methods , Drug Resistance, Neoplasm/genetics , Gastrointestinal Stromal Tumors/genetics , Humans , Mutation/genetics
20.
J Med Chem ; 62(2): 875-892, 2019 01 24.
Article En | MEDLINE | ID: mdl-30565931

Most of the current FMS-like tyrosine kinase 3 (FLT3) inhibitors lack selectivity between FLT3 kinase and cKIT kinase as well as the FLT3 wt and internal tandem duplication (ITD) mutants. We report a new compound 27, which displays GI50 values of 30-80 nM against different ITD mutants and achieves selectivity over both FLT3 wt (8-fold) and cKIT kinase in the transformed BaF3 cells (>300-fold). 27 potently inhibits the proliferation of the FLT3-ITD-positive acute myeloid leukemia cancer lines through suppression of the phosphorylation of FLT3 kinase and downstream signaling pathways, induction of apoptosis, and arresting the cell cycle into the G0/G1 phase. 27 also displays potent antiproliferative effect against FLT3-ITD-positive patient primary cells, whereas it does not apparently affect FLT3 wt primary cells. In addition, it also exhibits a good therapeutic window to PBMC compared to PKC412. In the in vivo studies, 27 demonstrates favorable PK profiles and suppresses the tumor growth in the MV4-11 cell inoculated mouse xenograft model.


Acetamides/chemistry , Protein Kinase Inhibitors/chemistry , fms-Like Tyrosine Kinase 3/antagonists & inhibitors , Acetamides/pharmacology , Acetamides/therapeutic use , Animals , Apoptosis/drug effects , Binding Sites , Cell Line, Tumor , Cell Proliferation/drug effects , Drug Evaluation, Preclinical , Female , G1 Phase Cell Cycle Checkpoints/drug effects , Humans , Leukemia, Myeloid, Acute/drug therapy , Leukemia, Myeloid, Acute/pathology , Mice , Mice, Nude , Molecular Dynamics Simulation , Mutagenesis , Protein Kinase Inhibitors/pharmacology , Protein Kinase Inhibitors/therapeutic use , Protein Structure, Tertiary , Signal Transduction/drug effects , Structure-Activity Relationship , fms-Like Tyrosine Kinase 3/genetics , fms-Like Tyrosine Kinase 3/metabolism
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