Literature DB >> 30335982

Enzymatic Transition States and Drug Design.

Vern L Schramm1.   

Abstract

Transition state theory teaches that chemically stable mimics of enzymatic transition states will bind tightly to their cognate enzymes. Kinetic isotope effects combined with computational quantum chemistry provides enzymatic transition state information with sufficient fidelity to design transition state analogues. Examples are selected from various stages of drug development to demonstrate the application of transition state theory, inhibitor design, physicochemical characterization of transition state analogues, and their progress in drug development.

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Year:  2018        PMID: 30335982      PMCID: PMC6615489          DOI: 10.1021/acs.chemrev.8b00369

Source DB:  PubMed          Journal:  Chem Rev        ISSN: 0009-2665            Impact factor:   60.622


  427 in total

1.  Structural identification of a bacterial quorum-sensing signal containing boron.

Authors:  Xin Chen; Stephan Schauder; Noelle Potier; Alain Van Dorsselaer; István Pelczer; Bonnie L Bassler; Frederick M Hughson
Journal:  Nature       Date:  2002-01-31       Impact factor: 49.962

Review 2.  Thermodynamic and extrathermodynamic requirements of enzyme catalysis.

Authors:  Richard Wolfenden
Journal:  Biophys Chem       Date:  2003-09       Impact factor: 2.352

Review 3.  Enzymatic transition states and transition state analog design.

Authors:  V L Schramm
Journal:  Annu Rev Biochem       Date:  1998       Impact factor: 23.643

Review 4.  Mechanisms for enzymatic cleavage of the N-glycosidic bond in DNA.

Authors:  Alexander C Drohat; Atanu Maiti
Journal:  Org Biomol Chem       Date:  2014-11-14       Impact factor: 3.876

5.  Kinetic properties of allosteric adenosine monophosphate nucleosidase from Azotobacter vinelandii.

Authors:  V L Schramm
Journal:  J Biol Chem       Date:  1974-03-25       Impact factor: 5.157

Review 6.  Ribosome-inactivating proteins up to date.

Authors:  F Stirpe; L Barbieri
Journal:  FEBS Lett       Date:  1986-01-20       Impact factor: 4.124

7.  The three-dimensional structure of ricin at 2.8 A.

Authors:  W Montfort; J E Villafranca; A F Monzingo; S R Ernst; B Katzin; E Rutenber; N H Xuong; R Hamlin; J D Robertus
Journal:  J Biol Chem       Date:  1987-04-15       Impact factor: 5.157

8.  Next-Generation Reduction Sensitive Lipid Conjugates of Tenofovir: Antiviral Activity and Mechanism of Release.

Authors:  Kyle E Giesler; Dennis C Liotta
Journal:  J Med Chem       Date:  2016-11-02       Impact factor: 7.446

9.  Detecting ricin: sensitive luminescent assay for ricin A-chain ribosome depurination kinetics.

Authors:  Matthew B Sturm; Vern L Schramm
Journal:  Anal Chem       Date:  2009-04-15       Impact factor: 6.986

10.  Surface-attached molecules control Staphylococcus aureus quorum sensing and biofilm development.

Authors:  Minyoung Kevin Kim; Aishan Zhao; Ashley Wang; Zachary Z Brown; Tom W Muir; Howard A Stone; Bonnie L Bassler
Journal:  Nat Microbiol       Date:  2017-05-22       Impact factor: 17.745

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  13 in total

1.  Transition-State Analogues of Phenylethanolamine N-Methyltransferase.

Authors:  Niusha Mahmoodi; Rajesh K Harijan; Vern L Schramm
Journal:  J Am Chem Soc       Date:  2020-08-07       Impact factor: 15.419

2.  Transition Path Sampling Based Calculations of Free Energies for Enzymatic Reactions: The Case of Human Methionine Adenosyl Transferase and Plasmodium vivax Adenosine Deaminase.

Authors:  Sree Ganesh Balasubramani; Steven D Schwartz
Journal:  J Phys Chem B       Date:  2022-07-13       Impact factor: 3.466

3.  Combined QM/MM, Machine Learning Path Integral Approach to Compute Free Energy Profiles and Kinetic Isotope Effects in RNA Cleavage Reactions.

Authors:  Timothy J Giese; Jinzhe Zeng; Şölen Ekesan; Darrin M York
Journal:  J Chem Theory Comput       Date:  2022-06-16       Impact factor: 6.578

4.  Substrate-Differentiated Transition States of SET7/9-Catalyzed Lysine Methylation.

Authors:  Shi Chen; Kanishk Kapilashrami; Chamara Senevirathne; Zhen Wang; Junyi Wang; Joshua A Linscott; Minkui Luo
Journal:  J Am Chem Soc       Date:  2019-05-14       Impact factor: 15.419

5.  Design, synthesis, and evaluation of transition-state analogs as inhibitors of the bacterial quorum sensing autoinducer synthase CepI.

Authors:  Erin L Higgins; Julian S Kellner-Rogers; Alexandra M Estanislau; Alec C Esposito; Nora R Vail; Sterling R Payne; Julia G Stockwell; Scott M Ulrich
Journal:  Bioorg Med Chem Lett       Date:  2021-02-23       Impact factor: 2.823

Review 6.  Metallo-β-Lactamase Inhibitors Inspired on Snapshots from the Catalytic Mechanism.

Authors:  Antonella R Palacios; María-Agustina Rossi; Graciela S Mahler; Alejandro J Vila
Journal:  Biomolecules       Date:  2020-06-03

7.  Matching Glycosyl Donor Reactivity to Sulfonate Leaving Group Ability Permits SN2 Glycosylations.

Authors:  Ming-Hua Zhuo; David J Wilbur; Eugene E Kwan; Clay S Bennett
Journal:  J Am Chem Soc       Date:  2019-10-09       Impact factor: 15.419

Review 8.  Linear Free Energy Relationships for Enzymatic Reactions: Fresh Insight from a Venerable Probe.

Authors:  John P Richard; Judith R Cristobal; Tina L Amyes
Journal:  Acc Chem Res       Date:  2021-05-03       Impact factor: 22.384

9.  Neutron structures of Leishmania mexicana triosephosphate isomerase in complex with reaction-intermediate mimics shed light on the proton-shuttling steps.

Authors:  Vinardas Kelpšas; Octav Caldararu; Matthew P Blakeley; Nicolas Coquelle; Rikkert K Wierenga; Ulf Ryde; Claes von Wachenfeldt; Esko Oksanen
Journal:  IUCrJ       Date:  2021-06-03       Impact factor: 4.769

10.  Antiviral and Antimicrobial Nucleoside Derivatives: Structural Features and Mechanisms of Action.

Authors:  A A Zenchenko; M S Drenichev; I A Il'icheva; S N Mikhailov
Journal:  Mol Biol       Date:  2021-12-17       Impact factor: 1.374

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