Steven, Stacy (2012) the Pharmacology of the 5-HT2A Receptor and the Difficulty Surrounding Single Taret Models
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Characterisation of the Α1b-Adrenoceptor by Modeling, Dynamics and Virtual Screening Kapil Jain B.Pharm, M.S.(Pharm.)
Characterisation of the α1B-Adrenoceptor by Modeling, Dynamics and Virtual Screening Kapil Jain B.Pharm, M.S.(Pharm.) A Thesis submitted for the degree of Master of Philosophy at The University of Queensland in 2018 Institute for Molecular Bioscience 0 Abstract G protein-coupled receptors (GPCRs) are the largest druggable class of proteins yet relatively little is known about the mechanism by which agonist binding induces the conformational changes necessary for G protein activation and intracellular signaling. Recently, the Kobilka group has shown that agonists, neutral antagonists and inverse agonists stabilise distinct extracellular surface (ECS) conformations of the β2-adrenergic receptor (AR) opening up new possibilities for allosteric drug targeting at GPCRs. The goal of this project is to extend these studies to define how the ECS conformation of the α1B-AR changes during agonist binding and develop an understanding of ligand entry and exit mechanisms that may help in the design of specific ligands with higher selectivity, efficacy and longer duration of action. Two parallel approaches were initiated to identify likely functional residues. The role of residues lining the primary binding site were predicted by online web server (Q-Site Finder) while secondary binding sites residues were predicted from molecular dynamics (MD) simulations. Predicted functionally significant residues were mutated and their function was established using FLIPR, radioligand and saturation binding assays. Despite the α1B-AR being pursued as a drug target for over last few decades, few specific agonists and antagonists are known to date. In an attempt to address this gap, we pursued ligand-based approach to find potential new leads. -
Computational Methods for Prediction and Classification of G Protein-Coupled Receptors Khodeza Begum University of Texas at El Paso, [email protected]
University of Texas at El Paso DigitalCommons@UTEP Open Access Theses & Dissertations 2017-01-01 Computational methods for prediction and classification of G protein-coupled receptors Khodeza Begum University of Texas at El Paso, [email protected] Follow this and additional works at: https://digitalcommons.utep.edu/open_etd Part of the Bioinformatics Commons, Computer Sciences Commons, and the Mathematics Commons Recommended Citation Begum, Khodeza, "Computational methods for prediction and classification of G protein-coupled receptors" (2017). Open Access Theses & Dissertations. 408. https://digitalcommons.utep.edu/open_etd/408 This is brought to you for free and open access by DigitalCommons@UTEP. It has been accepted for inclusion in Open Access Theses & Dissertations by an authorized administrator of DigitalCommons@UTEP. For more information, please contact [email protected]. COMPUTATIONAL METHODS FOR PREDICTION AND CLASSIFICATION OF G PROTEIN-COUPLED RECEPTORS KHODEZA BEGUM Master’s Program in Computational Science APPROVED: Ming-Ying Leung, Ph.D., Chair Rachid Skouta, Ph.D. Xiaogang Su, Ph.D. Charlotte M. Vines, Ph.D. Charles Ambler, Ph.D. Dean of the Graduate School Copyright © by Khodeza Begum 2017 COMPUTATIONAL METHODS FOR PREDICTION AND CLASSIFICATION OF G PROTEIN-COUPLED RECEPTORS by KHODEZA BEGUM, B.S. THESIS Presented to the Faculty of the Graduate School of The University of Texas at El Paso in Partial Fulfillment of the Requirements for the Degree of MASTER OF SCIENCE COMPUTATIONAL SCIENCE PROGRAM THE UNIVERSITY OF TEXAS AT EL PASO December 2017 Acknowledgements I would first like to thank my advisor Dr. Ming-Ying Leung for the continuous support and encouragement in my study and thesis. -
Molecular Dissection of G-Protein Coupled Receptor Signaling and Oligomerization
MOLECULAR DISSECTION OF G-PROTEIN COUPLED RECEPTOR SIGNALING AND OLIGOMERIZATION BY MICHAEL RIZZO A Dissertation Submitted to the Graduate Faculty of WAKE FOREST UNIVERSITY GRADUATE SCHOOL OF ARTS AND SCIENCES in Partial Fulfillment of the Requirements for the Degree of DOCTOR OF PHILOSOPHY Biology December, 2019 Winston-Salem, North Carolina Approved By: Erik C. Johnson, Ph.D. Advisor Wayne E. Pratt, Ph.D. Chair Pat C. Lord, Ph.D. Gloria K. Muday, Ph.D. Ke Zhang, Ph.D. ACKNOWLEDGEMENTS I would first like to thank my advisor, Dr. Erik Johnson, for his support, expertise, and leadership during my time in his lab. Without him, the work herein would not be possible. I would also like to thank the members of my committee, Dr. Gloria Muday, Dr. Ke Zhang, Dr. Wayne Pratt, and Dr. Pat Lord, for their guidance and advice that helped improve the quality of the research presented here. I would also like to thank members of the Johnson lab, both past and present, for being valuable colleagues and friends. I would especially like to thank Dr. Jason Braco, Dr. Jon Fisher, Dr. Jake Saunders, and Becky Perry, all of whom spent a great deal of time offering me advice, proofreading grants and manuscripts, and overall supporting me through the ups and downs of the research process. Finally, I would like to thank my family, both for instilling in me a passion for knowledge and education, and for their continued support. In particular, I would like to thank my wife Emerald – I am forever indebted to you for your support throughout this process, and I will never forget the sacrifices you made to help me get to where I am today. -
Selective Labeling of Serotonin Receptors Byd-[3H]Lysergic Acid
Proc. Nati. Acad. Sci. USA Vol. 75, No. 12, pp. 5783-5787, December 1978 Biochemistry Selective labeling of serotonin receptors by d-[3H]lysergic acid diethylamide in calf caudate (ergots/hallucinogens/tryptamines/norepinephrine/dopamine) PATRICIA M. WHITAKER AND PHILIP SEEMAN* Department of Pharmacology, University of Toronto, Toronto, Canada M5S 1A8 Communicated by Philip Siekevltz, August 18,1978 ABSTRACT Since it was known that d-lysergic acid di- The objective in this present study was to improve the se- ethylamide (LSD) affected catecholaminergic as well as sero- lectivity of [3H]LSD for serotonin receptors, concomitantly toninergic neurons, the objective in this study was to enhance using other drugs to block a-adrenergic and dopamine receptors the selectivity of [3HJISD binding to serotonin receptors in vitro by using crude homogenates of calf caudate. In the presence of (cf. refs. 36-38). We then compared the potencies of various a combination of 50 nM each of phentolamine (adde to pre- drugs on this selective [3H]LSD binding and compared these clude the binding of [3HJLSD to a-adrenoceptors), apmo ie, data to those for the high-affinity binding of [3H]serotonin and spiperone (added to preclude the binding of [3H[LSD to (39). dopamine receptors), it was found by Scatchard analysis that the total number of 3H sites went down to 300 fmol/mg, compared to 1100 fmol/mg in the absence of the catechol- METHODS amine-blocking drugs. The IC50 values (concentrations to inhibit Preparation of Membranes. Calf brains were obtained fresh binding by 50%) for various drugs were tested on the binding of [3HLSD in the presence of 50 nM each of apomorphine (A), from the Canada Packers Hunisett plant (Toronto). -
Antipsychotics (Part-4) FLUOROBUTYROPHENONES
Antipsychotics (Part-4) FLUOROBUTYROPHENONES The fluorobutyrophenones belong to a much-studied class of compounds, with many compounds possessing high antipsychotic activity. They were obtained by structure variation of the analgesic drug meperidine by substitution of the N-methyl by butyrophenone moiety to produce the butyrophenone analogue which has similar activity as chlorpromazine. COOC2H5 N H3C Meperidine COOC2H5 N O Butyrophenone analog The structural requirements for antipsychotic activity in the group are well worked out. General features are expressed in the following structure. F AR Y O N • Optimal activity is seen when with an aromatic with p-fluoro substituent • When CO is attached with p-fluoroaryl gives optimal activity is seen, although other groups, C(H)OH and aryl, also give good activity. • When 3 carbons distance separates the CO from cyclic N gives optimal activity. • The aliphatic amino nitrogen is required, and highest activity is seen when it is incorporated into a cyclic form. • AR is an aromatic ring and is needed. It should be attached directly to the 4-position or occasionally separated from it by one intervening atom. • The Y group can vary and assist activity. An example is the hydroxyl group of haloperidol. The empirical SARs suggest that the 4-aryl piperidino moiety is superimposable on the 2-- phenylethylamino moiety of dopamine and, accordingly, could promote affinity for D2 receptors. The long N-alkyl substituent could help promote affinity and produce antagonistic activity. Some members of the class are extremely potent antipsychotic agents and D2 receptor antagonists. The EPS are extremely marked in some members of this class, which may, in part, be due to a potent DA block in the striatum and almost no compensatory striatal anticholinergic block. -
Insights Into Nuclear G-Protein-Coupled Receptors As Therapeutic Targets in Non-Communicable Diseases
pharmaceuticals Review Insights into Nuclear G-Protein-Coupled Receptors as Therapeutic Targets in Non-Communicable Diseases Salomé Gonçalves-Monteiro 1,2, Rita Ribeiro-Oliveira 1,2, Maria Sofia Vieira-Rocha 1,2, Martin Vojtek 1,2 , Joana B. Sousa 1,2,* and Carmen Diniz 1,2,* 1 Laboratory of Pharmacology, Department of Drug Sciences, Faculty of Pharmacy, University of Porto, 4050-313 Porto, Portugal; [email protected] (S.G.-M.); [email protected] (R.R.-O.); [email protected] (M.S.V.-R.); [email protected] (M.V.) 2 LAQV/REQUIMTE, Faculty of Pharmacy, University of Porto, 4050-313 Porto, Portugal * Correspondence: [email protected] (J.B.S.); [email protected] (C.D.) Abstract: G-protein-coupled receptors (GPCRs) comprise a large protein superfamily divided into six classes, rhodopsin-like (A), secretin receptor family (B), metabotropic glutamate (C), fungal mating pheromone receptors (D), cyclic AMP receptors (E) and frizzled (F). Until recently, GPCRs signaling was thought to emanate exclusively from the plasma membrane as a response to extracellular stimuli but several studies have challenged this view demonstrating that GPCRs can be present in intracellular localizations, including in the nuclei. A renewed interest in GPCR receptors’ superfamily emerged and intensive research occurred over recent decades, particularly regarding class A GPCRs, but some class B and C have also been explored. Nuclear GPCRs proved to be functional and capable of triggering identical and/or distinct signaling pathways associated with their counterparts on the cell surface bringing new insights into the relevance of nuclear GPCRs and highlighting the Citation: Gonçalves-Monteiro, S.; nucleus as an autonomous signaling organelle (triggered by GPCRs). -
A REVOLUTION in the PHYSIOLOGY of the LIVING CELL FUTURE ANNUAL MEETINGS of by Gilbert N
A REVOLUTION IN THE PHYSIOLOGY OF THE LIVING CELL FUTURE ANNUAL MEETINGS OF by Gilbert N. Ling Orig. Ed. 1992 404 pp. $64.50 THE AMERICAN SOCIETY FOR ISBN 0-89464-398-3 CELL BIOLOGY The essence of a major revolution in cell physiology -the first since the cell was recognized as the basic unit of life a century and a half ago - is presented and altemative theories are discussed in this text. Although the conventional mem- brane-pump theory is still being taught, a new theory of the living cell, called the association-induction hypothesis has been proposed. It has successfullywfthstood 1995 twenty-five years of worldwide testing and has already generated an enhancing DC diagnostic tool ofgreat power, magnetic resonance imaging (MRI).This volume is Washington, intended forteachers, students and researchers ofbiology and medicine. December 9-13 i't...a correct basic theory of cell physiology, besides its great intrinsic value in mankind's search forknowledge aboutourselves and the world we live in, willalso play a crucial role in the ultimate conquest of cancer, AIDS, and other incurable 1996 diseases.'-from the Introduction. ASCB Annual Meeting/ on Cell Biology t When ordering please add t".Ling turns cellphysiology upside down. He Sixth International Congress $5.00 first bookl$1.50 each ad- practicallyredefines the cell. He provides com- San Francisco, California ditional book to cover shipping pellingevidencefor headequacyofhis theoryn December 7-11 charges. Foreign shipping costs evidence that cannot fail to impress even the available upon request. most extreme skeptics....'- Gerald H. Pollock, _ Ph.D., Univ. ofWashington. -
Biased Signaling of G Protein Coupled Receptors (Gpcrs): Molecular Determinants of GPCR/Transducer Selectivity and Therapeutic Potential
Pharmacology & Therapeutics 200 (2019) 148–178 Contents lists available at ScienceDirect Pharmacology & Therapeutics journal homepage: www.elsevier.com/locate/pharmthera Biased signaling of G protein coupled receptors (GPCRs): Molecular determinants of GPCR/transducer selectivity and therapeutic potential Mohammad Seyedabadi a,b, Mohammad Hossein Ghahremani c, Paul R. Albert d,⁎ a Department of Pharmacology, School of Medicine, Bushehr University of Medical Sciences, Iran b Education Development Center, Bushehr University of Medical Sciences, Iran c Department of Toxicology–Pharmacology, School of Pharmacy, Tehran University of Medical Sciences, Iran d Ottawa Hospital Research Institute, Neuroscience, University of Ottawa, Canada article info abstract Available online 8 May 2019 G protein coupled receptors (GPCRs) convey signals across membranes via interaction with G proteins. Origi- nally, an individual GPCR was thought to signal through one G protein family, comprising cognate G proteins Keywords: that mediate canonical receptor signaling. However, several deviations from canonical signaling pathways for GPCR GPCRs have been described. It is now clear that GPCRs can engage with multiple G proteins and the line between Gprotein cognate and non-cognate signaling is increasingly blurred. Furthermore, GPCRs couple to non-G protein trans- β-arrestin ducers, including β-arrestins or other scaffold proteins, to initiate additional signaling cascades. Selectivity Biased Signaling Receptor/transducer selectivity is dictated by agonist-induced receptor conformations as well as by collateral fac- Therapeutic Potential tors. In particular, ligands stabilize distinct receptor conformations to preferentially activate certain pathways, designated ‘biased signaling’. In this regard, receptor sequence alignment and mutagenesis have helped to iden- tify key receptor domains for receptor/transducer specificity. -
2. G-Protein-Coupled Receptors (Gpcrs) 6
DIPLOMARBEIT / DIPLOMA THESIS Titel der Diplomarbeit / Title of the Diploma Thesis „Odorant receptors“ verfasst von / submitted by Girgis Noser angestrebter akademischer Grad / in partial fulfilment of the requirements for the degree of Magister der Pharmazie (Mag.pharm.) Wien, 2016 / Vienna, 2016 Studienkennzahl lt. Studienblatt / A 996 449 degree programme code as it appears on the student record sheet: Studienrichtung lt. Studienblatt / Gleichwertigkeit Pharmazie degree programme as it appears on the student record sheet: Betreut von / Supervisor: Univ. Prof. Mag. Dr. G. Buchbauer Contents Acknowledgement III Zusammenfassung IV Abstract V General Introduction in German 1 General Introduction in English 2 1.1 Anatomy of olfactory system 3 1.2 Olfactory Epithelium 4 1.3 The olfactory bulb (OB) 4 1.4 Olfactory sensory neuron cell structure 5 2. G-protein-coupled receptors (GPCRs) 6 2.1 G-Protein-coupled receptors, classification 7 2.2 GPCRs structure. 10 2.3 Bovine Rhodopsin model 11 2.4 GPCRs activation and signaling. 15 2.4.1 Mechanism of signaling formation. 15 2.4.2 G-protein-dependent and independent signaling pathways 18 2.4.3 Terminating the signal 18 2.4.4 Types of ligand according to biological response 18 3. Olfactory receptors (ORs) 19 3.1 ORs genes as the largest gene known superfamily in GPCRs. 19 3.2 ORs genes classification and nomenclature 21 I 3.3 ORs genes distribution 24 3.4 ORs genes expression. 24 3.5 ORs 3D structure. 25 3.6 ORs-odorant interaction. 28 3.7 Signal transduction of olfaction. 30 3.8 Combinatorial coding and olfactory pattern. -
7Tmrmine: a Web Server for Hierarchical Mining of 7TMR Proteins Guoqing Lu University of Nebraska at Omaha
University of Nebraska at Omaha DigitalCommons@UNO Biology Faculty Publications Department of Biology 2009 7TMRmine: a Web server for hierarchical mining of 7TMR proteins Guoqing Lu University of Nebraska at Omaha Zhifang Wang University of Nebraska-Lincoln Alan M. Jones University of North Carolina at Chapel Hill Etsuko N. Moriyama University of Nebraska-Lincoln Follow this and additional works at: https://digitalcommons.unomaha.edu/biofacpub Part of the Biology Commons, and the Plant Sciences Commons Recommended Citation Lu, Guoqing; Wang, Zhifang; Jones, Alan M.; and Moriyama, Etsuko N., "7TMRmine: a Web server for hierarchical mining of 7TMR proteins" (2009). Biology Faculty Publications. 11. https://digitalcommons.unomaha.edu/biofacpub/11 This Article is brought to you for free and open access by the Department of Biology at DigitalCommons@UNO. It has been accepted for inclusion in Biology Faculty Publications by an authorized administrator of DigitalCommons@UNO. For more information, please contact [email protected]. BMC Genomics BioMed Central Database Open Access 7TMRmine: a Web server for hierarchical mining of 7TMR proteins Guoqing Lu1,2, Zhifang Wang3, Alan M Jones4,5 and Etsuko N Moriyama*6,7 Address: 1Department of Computer Science, University of Nebraska at Omaha, Omaha, NE 68182, USA, 2Department of Biology, University of Nebraska at Omaha, Omaha, NE 68182, USA, 3Department of Computer Science and Engineering, University of Nebraska-Lincoln, Lincoln, NE 68588-0660, USA, 4Departments of Biology, University of -
Production of an Isotopically Labelled G-Protein Coupled Receptor In
Investigations into the production of integral membrane proteins for solid-state NMR spectroscopy By Rachel Munro A Thesis presented to The University of Guelph In partial fulfillment of requirements for the degree of Master of Science in Biophysics Guelph, Ontario, Canada © Rachel Munro, January, 2016 ABSTRACT Investigations into the production of integral membrane proteins for solid-state NMR spectroscopy Rachel Munro Advisor: Professor L. Brown University of Guelph, 2015 This study seeks to probe the challenges associated with heterologous expression and isotopic labeling of microbial rhodopsins and the GPCR adenosine receptor (2A) (A2aR) through biophysical methods including SSNMR, FTIR and Raman spectroscopy. A2aR was transformed into Pichia pastoris, which has previously been shown to be able to cost-effectively produce isotopically-labelled eukaryotic membrane proteins for SSNMR studies; however poor expression resulted in contamination as detected by both FTIR and SSNMR. Next, for Anabaena sensory rhodopsin (ASR) produced in E. coli, we investigated the effect of a full-length construct on both expression and purification. Finally, we showed that the novel biosynthetic production of an isotopically labelled retinal ligand concurrently with its apoprotein proteorhodopsin in E. coli presents a cost effective alternative to de novo synthesis. By using alternately labeled carbon sources (glycerol) we were able to verify the biosynthetic pathway for retinal and assign several new carbon resonances for proteorhodopsin-bound retinal. Acknowledgements Firstly, I would like to thank my advisor, Dr. Leonid Brown, for his guidance, patience and unwavering support over the last four years. Additional thanks belong to Dr. Vladimir Ladizhansky, for being on my advisory committee and for all his help with NMR. -
Pharmacology Review(S)
CENTER FOR DRUG EVALUATION AND RESEARCH APPLICATION NUMBER: 200603 PHARMACOLOGY REVIEW(S) Tertiary Pharmacology/Toxicology Review From: Paul C. Brown, Ph.D., ODE Associate Director for Pharmacology and Toxicology, OND IO NDA: 200603 Agency receipt date: 12/30/2009 Drug: Lurasidone hydrochloride Applicant: Sunovion Pharmaceuticals (Originally submitted by Dainippon Sumimoto Pharma America, Inc.) Indication: schizophrenia Reviewing Division: Division of Psychiatry Products Background: The pharm/tox reviewer and team leader concluded that the nonclinical data support approval of lurasidone for the indication listed above. Reproductive and Developmental Toxicity: Reproductive and developmental toxicity studies in rats and rabbits revealed no evidence of teratogenicity or embryofetal toxicity. The high doses in the rat and rabbit embryofetal toxicity studies were 3 and 12 times, respectively, the maximum recommended human dose (80 mg) based on a body surface area comparison. Carcinogenicity: Lurasidone was tested in 2 year rat and mouse carcinogenicity studies. These studies were reviewed by the division and the executive carcinogenicity assessment committee. The committee concluded that the studies were adequate and that there was a drug-related increase in mammary carcinomas in female rats at doses of 12 mg/kg and higher and a drug-related increase in mammary carcinomas and adenoacanthomas and pituitary pars distalis adenomas in female mice. The applicant also provided data from various studies showing that lurasidone significantly increases prolactin in several different species including rats and mice. Conclusions: I agree with the division pharm/tox conclusion that this application can be approved from a pharm/tox perspective. The division recommends that lurasidone be labeled with pregnancy category B.