Identification of a Novel Prostaglandin F2 Synthase in Trypanosoma Brucei
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Comparative Modeling and Functional Characterization of Two Enzymes of the Cyclooxygenase Pathway in Drosophila Melanogaster
City University of New York (CUNY) CUNY Academic Works All Dissertations, Theses, and Capstone Projects Dissertations, Theses, and Capstone Projects 2-2014 Comparative Modeling and Functional Characterization of Two Enzymes of the Cyclooxygenase Pathway in Drosophila melanogaster Yan Qi Graduate Center, City University of New York How does access to this work benefit ou?y Let us know! More information about this work at: https://academicworks.cuny.edu/gc_etds/94 Discover additional works at: https://academicworks.cuny.edu This work is made publicly available by the City University of New York (CUNY). Contact: [email protected] Comparative Modeling and Functional Characterization of Two Enzymes of the Cyclooxygenase Pathway in Drosophila melanogaster by Yan Qi A dissertation submitted to the Graduate Faculty in Biology in partial fulfillment of the requirements for the degree of Doctor of Philosophy, The City University of New York 2014 i © 2014 Yan Qi All Rights Reserved ii This manuscript has been read and accepted for the Graduate Faculty in Biology in satisfaction of the dissertation requirement for the degree of Doctor of Philosophy. _______ ______________________ Date Chair of Examining Committee Dr. Shaneen Singh, Brooklyn College _______ ______________________ Date Executive Officer Dr. Laurel A. Eckhardt ______________________ Dr. Peter Lipke, Brooklyn College ______________________ Dr. Shubha Govind, City College ______________________ Dr. Richard Magliozzo, Brooklyn College ______________________ Dr. Evros Vassiliou, Kean University Supervising Committee The City University of New York iii Abstract Comparative Modeling and Functional Characterization of Two Enzymes of the Cyclooxygenase Pathway in Drosophila melanogaster by Yan Qi Mentor: Shaneen Singh Eicosanoids are biologically active molecules oxygenated from twenty carbon polyunsaturated fatty acids. -
Supplementary Materials
Supplementary Materials Figure S1. Bioinformatics evaluation of dystrophin isoform Dp427 and its central position in the molecular pathogenesis of X-linked muscular dystrophy. In order to generate a protein interaction map with known and predicted protein associations that include direct physical and indirect functional protein linkages, the bioinformatics STRING database [1,2] was used to analyse mass spectrometrically-identified proteins with a changed abundance in mdx-4cv skeletal muscles (Tables 1 and 2). S2 Figure S2. Focus of the bioinformatics evaluation of dystrophin isoform Dp427 and its central position in the molecular pathogenesis of X-linked muscular dystrophy. Shown is the middle part of the interaction map of altered muscle-associated proteins from mdx-4cv hind limb muscles, focusing on the central position of the dystrophin protein Dp427 (marked in yellow). In order to generate a protein interaction map with known and predicted protein associations that include direct physical and indirect functional protein linkages, the bioinformatics STRING database [1,2] was used to analyse mass spectrometrically-identified proteins with a changed abundance in mdx-4cv skeletal muscles (Tables 1 and 2). S3 Table S1. List of identified proteins that exhibit a significantly altered concentration in crude mdx-4cv hind limb muscle preparations as revealed by label-free LC-MS/MS analysis. This table contains the statistical q-values of the proteins listed in Tables 1 and 2. Accession Peptide Max Fold Highest Mean Description q Value Number -
Development of Potent and Selective Inhibitors of Aldo−Keto Reductase
Article pubs.acs.org/jmc Development of Potent and Selective Inhibitors of Aldo−Keto Reductase 1C3 (Type 5 17β-Hydroxysteroid Dehydrogenase) Based on N-Phenyl-Aminobenzoates and Their Structure−Activity Relationships † § ‡ § † † † ‡ Adegoke O. Adeniji, , Barry M. Twenter, , Michael C. Byrns, Yi Jin, Mo Chen, Jeffrey D. Winkler,*, † and Trevor M. Penning*, † Department of Pharmacology and Center of Excellence in Environmental Toxicology, Perelman School of Medicine, University of Pennsylvania, 130C John Morgan Building, 3620 Hamilton Walk, Philadelphia, Pennsylvania 19104-6084, United States ‡ Department of Chemistry, University of Pennsylvania, 231 South 34th Street, Philadelphia, Pennsylvania 19104, United States *S Supporting Information ABSTRACT: Aldo−keto reductase 1C3 (AKR1C3; type 5 17β-hydroxy- steroid dehydrogenase) is overexpressed in castration resistant prostate cancer (CRPC) and is implicated in the intratumoral biosynthesis of testosterone and 5α-dihydrotestosterone. Selective AKR1C3 inhibitors are required because compounds should not inhibit the highly related AKR1C1 and AKR1C2 isoforms which are involved in the inactivation of 5α-dihydrotestosterone. NSAIDs, N-phenylanthranilates in particular, are potent but nonselective AKR1C3 inhibitors. Using flufenamic acid, 2-{[3-(trifluoromethyl)phenyl]amino}- benzoic acid, as lead compound, five classes of structural analogues were synthesized and evaluated for AKR1C3 inhibitory potency and selectivity. Structure−activity relationship (SAR) studies revealed that a meta-carboxylic acid group relative to the amine conferred pronounced AKR1C3 selectivity without loss of potency, while electron withdrawing groups on the phenylamino B-ring were optimal for AKR1C3 inhibition. Lead compounds did not inhibit COX-1 or COX-2 but blocked the AKR1C3 mediated production of testosterone in LNCaP-AKR1C3 cells. These compounds offer promising leads toward new therapeutics for CRPC. -
And Anti-Inflammatory Metabolites and Its Potential Role in Rheumatoid
cells Review Circulating Pro- and Anti-Inflammatory Metabolites and Its Potential Role in Rheumatoid Arthritis Pathogenesis Roxana Coras 1,2, Jessica D. Murillo-Saich 1 and Monica Guma 1,2,* 1 Department of Medicine, School of Medicine, University of California, San Diego, 9500 Gilman Drive, San Diego, CA 92093, USA; [email protected] (R.C.); [email protected] (J.D.M.-S.) 2 Department of Medicine, Autonomous University of Barcelona, Plaça Cívica, 08193 Bellaterra, Barcelona, Spain * Correspondence: [email protected] Received: 22 January 2020; Accepted: 18 March 2020; Published: 30 March 2020 Abstract: Rheumatoid arthritis (RA) is a chronic systemic autoimmune disease that affects synovial joints, leading to inflammation, joint destruction, loss of function, and disability. Although recent pharmaceutical advances have improved the treatment of RA, patients often inquire about dietary interventions to improve RA symptoms, as they perceive pain and/or swelling after the consumption or avoidance of certain foods. There is evidence that some foods have pro- or anti-inflammatory effects mediated by diet-related metabolites. In addition, recent literature has shown a link between diet-related metabolites and microbiome changes, since the gut microbiome is involved in the metabolism of some dietary ingredients. But diet and the gut microbiome are not the only factors linked to circulating pro- and anti-inflammatory metabolites. Other factors including smoking, associated comorbidities, and therapeutic drugs might also modify the circulating metabolomic profile and play a role in RA pathogenesis. This article summarizes what is known about circulating pro- and anti-inflammatory metabolites in RA. It also emphasizes factors that might be involved in their circulating concentrations and diet-related metabolites with a beneficial effect in RA. -
Protein T1 C1 Accession No. Description
Protein T1 C1 Accession No. Description SW:143B_HUMAN + + P31946 14-3-3 protein beta/alpha (protein kinase c inhibitor protein-1) (kcip-1) (protein 1054). 14-3-3 protein epsilon (mitochondrial import stimulation factor l subunit) (protein SW:143E_HUMAN + + P42655 P29360 Q63631 kinase c inhibitor protein-1) (kcip-1) (14-3-3e). SW:143S_HUMAN + - P31947 14-3-3 protein sigma (stratifin) (epithelial cell marker protein 1). SW:143T_HUMAN + - P27348 14-3-3 protein tau (14-3-3 protein theta) (14-3-3 protein t-cell) (hs1 protein). 14-3-3 protein zeta/delta (protein kinase c inhibitor protein-1) (kcip-1) (factor SW:143Z_HUMAN + + P29312 P29213 activating exoenzyme s) (fas). P01889 Q29638 Q29681 Q29854 Q29861 Q31613 hla class i histocompatibility antigen, b-7 alpha chain precursor (mhc class i antigen SW:1B07_HUMAN + - Q9GIX1 Q9TP95 b*7). hla class i histocompatibility antigen, b-14 alpha chain precursor (mhc class i antigen SW:1B14_HUMAN + - P30462 O02862 P30463 b*14). P30479 O19595 Q29848 hla class i histocompatibility antigen, b-41 alpha chain precursor (mhc class i antigen SW:1B41_HUMAN + - Q9MY79 Q9MY94 b*41) (bw-41). hla class i histocompatibility antigen, b-42 alpha chain precursor (mhc class i antigen SW:1B42_HUMAN + - P30480 P79555 b*42). P30488 O19615 O19624 O19641 O19783 O46702 hla class i histocompatibility antigen, b-50 alpha chain precursor (mhc class i antigen SW:1B50_HUMAN + - O78172 Q9TQG1 b*50) (bw-50) (b-21). hla class i histocompatibility antigen, b-54 alpha chain precursor (mhc class i antigen SW:1B54_HUMAN + - P30492 Q9TPQ9 b*54) (bw-54) (bw-22). P30495 O19758 P30496 hla class i histocompatibility antigen, b-56 alpha chain precursor (mhc class i antigen SW:1B56_HUMAN - + P79490 Q9GIM3 Q9GJ17 b*56) (bw-56) (bw-22). -
Proteomic Identification of Aldo-Keto Reductase AKR1B10 Induction After Treatment of Colorectal Cancer Cells with the Proteasome Inhibitor Bortezomib
Published OnlineFirst June 30, 2009; DOI: 10.1158/1535-7163.MCT-08-0987 1995 Proteomic identification of aldo-keto reductase AKR1B10 induction after treatment of colorectal cancer cells with the proteasome inhibitor bortezomib Judith Loeffler-Ragg,1 Doris Mueller,2 study shows for the first time a bortezomib-induced up- Gabriele Gamerith,1 Thomas Auer,1 regulation of AKR1B10. Small interfering RNA–mediated Sergej Skvortsov,1 Bettina Sarg,3 Ira Skvortsova,4 inhibition of this enzyme with known intracellular detoxi- Klaus J. Schmitz,6 Hans-Jörg Martin,7 fication function sensitized HRT-18 cells to therapy with Jens Krugmann,5 Hakan Alakus,8 Edmund Maser,7 the proteasome inhibitor. To further characterize the rele- vance of AKR1B10 for colorectal tumors,immunohisto- Jürgen Menzel,2 Wolfgang Hilbe,1 Herbert Lindner,3 6 1 chemical expression was shown in 23.2% of 125 tumor Kurt W. Schmid, and Heinz Zwierzina specimens. These findings indicate that AKR1B10 might Departments of 1Internal Medicine, 2Medical Genetics, be a target for combination therapy with bortezomib. Molecular and Clinical Pharmacology, 3Clinical Biochemistry, [Mol Cancer Ther 2009;8(7):1995–2006] 4Radiotherapy-Radiooncology,and 5Pathology,Innsbruck Medical University,Innsbruck,Austria; 6Department of Pathology and Neuropathology,Essen University Hospital,Duisburg-Essen Introduction 7 University,Essen,Germany; Institute of Toxicology and Colorectal cancer is a leading cause of cancer death through- Pharmacology for Natural Scientists,University Medical School Schleswig-Holstein,Kiel,Germany; and 8Department of Visceral out the world (1). Although chemotherapy has improved and Vascular Surgery,Cologne University,Cologne,Germany the outcome of patients with metastatic disease, new thera- pies with novel mechanisms of action are warranted. -
The Genome and Transcriptome of the Zoonotic Hookworm Ancylostoma
LETTERS OPEN The genome and transcriptome of the zoonotic hookworm Ancylostoma ceylanicum identify infection-specific gene families Erich M Schwarz1, Yan Hu2,3, Igor Antoshechkin4, Melanie M Miller3, Paul W Sternberg4,5 & Raffi V Aroian2,3 Hookworms infect over 400 million people, stunting and closely related to the free-living Caenorhabditis elegans than is the impoverishing them1–3. Sequencing hookworm genomes and free-living Pristionchus pacificus (Fig. 2)12–15. Treatments effective finding which genes they express during infection should against A. ceylanicum might thus also prove useful against other help in devising new drugs or vaccines against hookworms4,5. strongylids, such as Haemonchus contortus, that infect farm ani- Unlike other hookworms, Ancylostoma ceylanicum infects mals and depress agricultural productivity16. Characterizing the both humans and other mammals, providing a laboratory genome and transcriptome of A. ceylanicum is a key step toward such model for hookworm disease6,7. We determined an comparative analysis. A. ceylanicum genome sequence of 313 Mb, with We assembled an initial A. ceylanicum genome sequence of 313 Mb transcriptomic data throughout infection showing expression and a scaffold N50 of 668 kb, estimated to cover ~95% of the genome, of 30,738 genes. Approximately 900 genes were upregulated with Illumina sequencing and RNA scaffolding17,18 (Supplementary during early infection in vivo, including ASPRs, a cryptic Tables 1–3). The genome size was comparable to those of Ancylostoma subfamily of activation-associated secreted proteins (ASPs)8. caninum (347 Mb)19 and H. contortus (320–370 Mb)20,21 but larger Genes downregulated during early infection included than those of N. -
AKR1C3 Inhibitor KV-37 Exhibits Antineoplastic Effects And
Published OnlineFirst June 11, 2018; DOI: 10.1158/1535-7163.MCT-17-1023 Small Molecule Therapeutics Molecular Cancer Therapeutics AKR1C3 Inhibitor KV-37 Exhibits Antineoplastic Effects and Potentiates Enzalutamide in Combination Therapy in Prostate Adenocarcinoma Cells Kshitij Verma1, Nehal Gupta1, Tianzhu Zang2, Phumvadee Wangtrakluldee2, Sanjay K. Srivastava1,3, Trevor M. Penning2, and Paul C. Trippier1,4 Abstract Aldo-keto reductase 1C3 (AKR1C3), also known as type 5 sensitizes CRPC cell lines (22Rv1 and LNCaP1C3) toward the 17 b-hydroxysteroid dehydrogenase, is responsible for intra- antitumor effects of enzalutamide. Crucially, KV-37 does not tumoral androgen biosynthesis, contributing to the develop- induce toxicity in nonmalignant WPMY-1 prostate cells ment of castration-resistant prostate cancer (CRPC) and even- nor does it induce weight loss in mouse xenografts. Moreover, tual chemotherapeutic failure. Significant upregulation of KV-37 reduces androgen receptor (AR) transactivation and AKR1C3 is observed in CRPC patient samples and derived prostate-specific antigen expression levels in CRPC cell lines CRPC cell lines. As AKR1C3 is a downstream steroidogenic indicative of a therapeutic effect in prostate cancer. Combina- enzyme synthesizing intratumoral testosterone (T) and 5a- tion studies of KV-37 with enzalutamide reveal a very high dihydrotestosterone (DHT), the enzyme represents a promis- degree of synergistic drug interaction that induces significant ing therapeutic target to manage CRPC and combat the emer- reduction in prostate -
The Role of AKR1B10 in Physiology and Pathophysiology
H OH metabolites OH Review The Role of AKR1B10 in Physiology and Pathophysiology Satoshi Endo 1,* , Toshiyuki Matsunaga 2 and Toru Nishinaka 3 1 Laboratory of Biochemistry, Gifu Pharmaceutical University, Gifu 501-1196, Japan 2 Education Center of Green Pharmaceutical Sciences, Gifu Pharmaceutical University, Gifu 502-8585, Japan; [email protected] 3 Laboratory of Biochemistry, Faculty of Pharmacy, Osaka Ohtani University, Tondabayashi 584-8540, Osaka, Japan; [email protected] * Correspondence: [email protected] Abstract: AKR1B10 is a human nicotinamide adenine dinucleotide phosphate (NADPH)-dependent reductase belonging to the aldo-keto reductase (AKR) 1B subfamily. It catalyzes the reduction of aldehydes, some ketones and quinones, and interacts with acetyl-CoA carboxylase and heat shock protein 90α. The enzyme is highly expressed in epithelial cells of the stomach and intestine, but down-regulated in gastrointestinal cancers and inflammatory bowel diseases. In contrast, AKR1B10 expression is low in other tissues, where the enzyme is upregulated in cancers, as well as in non- alcoholic fatty liver disease and several skin diseases. In addition, the enzyme’s expression is elevated in cancer cells resistant to clinical anti-cancer drugs. Thus, growing evidence supports AKR1B10 as a potential target for diagnosing and treating these diseases. Herein, we reviewed the literature on the roles of AKR1B10 in a healthy gastrointestinal tract, the development and progression of cancers and acquired chemoresistance, in addition to its gene regulation, functions, and inhibitors. Keywords: aldo-keto reductases; AKR1B10; biomarkers Citation: Endo, S.; Matsunaga, T.; Nishinaka, T. The Role of AKR1B10 in 1. Introduction Physiology and Pathophysiology. -
All Enzymes in BRENDA™ the Comprehensive Enzyme Information System
All enzymes in BRENDA™ The Comprehensive Enzyme Information System http://www.brenda-enzymes.org/index.php4?page=information/all_enzymes.php4 1.1.1.1 alcohol dehydrogenase 1.1.1.B1 D-arabitol-phosphate dehydrogenase 1.1.1.2 alcohol dehydrogenase (NADP+) 1.1.1.B3 (S)-specific secondary alcohol dehydrogenase 1.1.1.3 homoserine dehydrogenase 1.1.1.B4 (R)-specific secondary alcohol dehydrogenase 1.1.1.4 (R,R)-butanediol dehydrogenase 1.1.1.5 acetoin dehydrogenase 1.1.1.B5 NADP-retinol dehydrogenase 1.1.1.6 glycerol dehydrogenase 1.1.1.7 propanediol-phosphate dehydrogenase 1.1.1.8 glycerol-3-phosphate dehydrogenase (NAD+) 1.1.1.9 D-xylulose reductase 1.1.1.10 L-xylulose reductase 1.1.1.11 D-arabinitol 4-dehydrogenase 1.1.1.12 L-arabinitol 4-dehydrogenase 1.1.1.13 L-arabinitol 2-dehydrogenase 1.1.1.14 L-iditol 2-dehydrogenase 1.1.1.15 D-iditol 2-dehydrogenase 1.1.1.16 galactitol 2-dehydrogenase 1.1.1.17 mannitol-1-phosphate 5-dehydrogenase 1.1.1.18 inositol 2-dehydrogenase 1.1.1.19 glucuronate reductase 1.1.1.20 glucuronolactone reductase 1.1.1.21 aldehyde reductase 1.1.1.22 UDP-glucose 6-dehydrogenase 1.1.1.23 histidinol dehydrogenase 1.1.1.24 quinate dehydrogenase 1.1.1.25 shikimate dehydrogenase 1.1.1.26 glyoxylate reductase 1.1.1.27 L-lactate dehydrogenase 1.1.1.28 D-lactate dehydrogenase 1.1.1.29 glycerate dehydrogenase 1.1.1.30 3-hydroxybutyrate dehydrogenase 1.1.1.31 3-hydroxyisobutyrate dehydrogenase 1.1.1.32 mevaldate reductase 1.1.1.33 mevaldate reductase (NADPH) 1.1.1.34 hydroxymethylglutaryl-CoA reductase (NADPH) 1.1.1.35 3-hydroxyacyl-CoA -
Selective AKR1C3 Inhibitors Do Not Recapitulate the Anti-Leukaemic Activities of the Pan-AKR1C Inhibitor Medroxyprogesterone Acetate
FULL PAPER British Journal of Cancer (2014) 110, 1506–1516 | doi: 10.1038/bjc.2014.83 Keywords: aldo-keto reductase 1C3; inhibitors; leukaemia Selective AKR1C3 inhibitors do not recapitulate the anti-leukaemic activities of the pan-AKR1C inhibitor medroxyprogesterone acetate F Khanim1,8, N Davies2,8, P Velic¸a3, R Hayden1, J Ride1, C Pararasa4, M G Chong2, U Gunther2, N Veerapen1, P Winn5, R Farmer5, E Trivier6, L Rigoreau6, M Drayson7 and C Bunce*,1 1School of Biosciences, University of Birmingham, Birmingham B15 2TT, UK; 2School of Cancer Sciences, University of Birmingham, Birmingham B15 2TT, UK; 3Haematology Department, UCL Cancer Institute, London WC1E 6DD, UK; 4School of Life and Health Sciences, Aston University, Birmingham B4 7ET, UK; 5Centre for Systems Biology, University of Birmingham, Birmingham B15 2TT, UK; 6CRT Discovery Laboratories, Babraham, Cambridge CB22 3AT, UK and 7Immunity and Infection, University of Birmingham, Birmingham B15 2TT, UK Background: We and others have identified the aldo-keto reductase AKR1C3 as a potential drug target in prostate cancer, breast cancer and leukaemia. As a consequence, significant effort is being invested in the development of AKR1C3-selective inhibitors. Methods: We report the screening of an in-house drug library to identify known drugs that selectively inhibit AKR1C3 over the closely related isoforms AKR1C1, 1C2 and 1C4. This screen initially identified tetracycline as a potential AKR1C3-selective inhibitor. However, mass spectrometry and nuclear magnetic resonance studies identified that the active agent was a novel breakdown product (4-methyl(de-dimethylamine)-tetracycline (4-MDDT)). Results: We demonstrate that, although 4-MDDT enters AML cells and inhibits their AKR1C3 activity, it does not recapitulate the anti-leukaemic actions of the pan-AKR1C inhibitor medroxyprogesterone acetate (MPA). -
In the List of Top 100 Proteins Often Identified in Evs Are Highlighted in Bold (See Supplementary Table 3)
Supplementary Table 1. List of significantly altered proteins identified in exosomes. Common proteins (11) in the list of Top 100 proteins often identified in EVs are highlighted in bold (see Supplementary Table 3). Protein names Gene names -log10(p-value) Alix PDCD6IP 4,836 Glycogen phosphorylase, muscle form PYGM 4,300 Proteasome subunit beta type-1 PSMB1 4,098 Glycogen phosphorylase, liver form PYGL 4,097 Proteasome subunit alpha type-7 PSMA7 3,984 Proteasome subunit beta type-7 PSMB7 3,752 Asporin ASPN 3,734 Proteasome subunit alpha type-6 PSMA6 3,695 Proteasome subunit beta type-5 PSMB5 3,652 Homogentisate 1,2-dioxygenase HGD 3,611 Receptor-type tyrosine-protein phosphatase PTPRM 3,610 Vacuolar protein sorting-associated protein 28 homolog VPS28 3,525 Proteasome subunit alpha type-2 PSMA2 3,511 Proteasome subunit alpha type-4 PSMA4 3,460 Proteasome subunit beta type-4 PSMB4 3,443 Cation-independent mannose-6-phosphate receptor IGF2R 3,377 Eukaryotic initiation factor 4A-II EIF4A2 3,345 Protein kinase C-binding protein NELL2 NELL2 3,340 3-mercaptopyruvate sulfurtransferase MPST 3,327 Mannose-1-phosphate guanyltransferase beta GMPPB 3,264 Cytosolic 10-formyltetrahydrofolate dehydrogenase ALDH1L1 3,226 Cytoplasmic aconitate hydratase ACO1 3,172 S-adenosylmethionine synthase isoform type-1 MAT1A 3,097 Delta-aminolevulinic acid dehydratase ALAD 3,039 Tubulin alpha-4A chain TUBA4A 3,033 Vacuolar protein sorting-associated protein 37B VPS37B 3,012 Adenosylhomocysteinase AHCY 2,989 Regucalcin RGN 2,989 Fructose-bisphosphate aldolase B ALDOB