Literature DB >> 22659831

Ionization state of the catalytic dyad Asp25/25' in the HIV-1 protease: NMR studies of site-specifically 13C labelled HIV-1 protease prepared by total chemical synthesis.

Vladimir Yu Torbeev1, Stephen B H Kent.   

Abstract

Total chemical synthesis was used to site-specifically (13)C-label active site Asp25 and Asp25' residues in HIV-1 protease and in several chemically synthesized analogues of the enzyme molecule. (13)C NMR measurements were consistent with a monoprotonated state for the catalytic dyad formed by the interacting Asp25, Asp25' side chain carboxyls.

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Year:  2012        PMID： 22659831      PMCID： PMC3437676          DOI： 10.1039/c2ob25569c

Source DB:  PubMed          Journal:  Org Biomol Chem        ISSN： 1477-0520            Impact factor:   3.876


  11 in total

Review 1.  Synthesis of native proteins by chemical ligation.

Authors:  P E Dawson; S B Kent
Journal:  Annu Rev Biochem       Date:  2000       Impact factor: 23.643

2.  Protein conformational dynamics in the mechanism of HIV-1 protease catalysis.

Authors:  Vladimir Yu Torbeev; H Raghuraman; Donald Hamelberg; Marco Tonelli; William M Westler; Eduardo Perozo; Stephen B H Kent
Journal:  Proc Natl Acad Sci U S A       Date:  2011-12-08       Impact factor: 11.205

3.  Ionization states of the catalytic residues in HIV-1 protease.

Authors:  R Smith; I M Brereton; R Y Chai; S B Kent
Journal:  Nat Struct Biol       Date:  1996-11

Review 4.  Inhibitors of HIV-1 protease: a major success of structure-assisted drug design.

Authors:  A Wlodawer; J Vondrasek
Journal:  Annu Rev Biophys Biomol Struct       Date:  1998

5.  Conformational flexibility of the catalytic Asp dyad in HIV-1 protease: An ab initio study on the free enzyme.

Authors:  S Piana; P Carloni
Journal:  Proteins       Date:  2000-04-01

6.  Solution NMR evidence that the HIV-1 protease catalytic aspartyl groups have different ionization states in the complex formed with the asymmetric drug KNI-272.

Authors:  Y X Wang; D I Freedberg; T Yamazaki; P T Wingfield; S J Stahl; J D Kaufman; Y Kiso; D A Torchia
Journal:  Biochemistry       Date:  1996-08-06       Impact factor: 3.162

7.  Direct evidence for the protonation of aspartate-75, proposed to be at a quinol binding site, upon reduction of cytochrome bo3 from Escherichia coli.

Authors:  P Hellwig; B Barquera; R B Gennis
Journal:  Biochemistry       Date:  2001-01-30       Impact factor: 3.162

8.  Structure of HIV-1 protease in complex with potent inhibitor KNI-272 determined by high-resolution X-ray and neutron crystallography.

Authors:  Motoyasu Adachi; Takashi Ohhara; Kazuo Kurihara; Taro Tamada; Eijiro Honjo; Nobuo Okazaki; Shigeki Arai; Yoshinari Shoyama; Kaname Kimura; Hiroyoshi Matsumura; Shigeru Sugiyama; Hiroaki Adachi; Kazufumi Takano; Yusuke Mori; Koushi Hidaka; Tooru Kimura; Yoshio Hayashi; Yoshiaki Kiso; Ryota Kuroki
Journal:  Proc Natl Acad Sci U S A       Date:  2009-03-09       Impact factor: 11.205

9.  Crystal structure of chemically synthesized HIV-1 protease and a ketomethylene isostere inhibitor based on the p2/NC cleavage site.

Authors:  Vladimir Yu Torbeev; Kalyaneswar Mandal; Valentina A Terechko; Stephen B H Kent
Journal:  Bioorg Med Chem Lett       Date:  2008-07-15       Impact factor: 2.823

10.  Regulation of autoproteolysis of the HIV-1 and HIV-2 proteases with engineered amino acid substitutions.

Authors:  J R Rosé; R Salto; C S Craik
Journal:  J Biol Chem       Date:  1993-06-05       Impact factor: 5.157
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  7 in total

1.  Room Temperature Neutron Crystallography of Drug Resistant HIV-1 Protease Uncovers Limitations of X-ray Structural Analysis at 100 K.

Authors:  Oksana Gerlits; David A Keen; Matthew P Blakeley; John M Louis; Irene T Weber; Andrey Kovalevsky
Journal:  J Med Chem       Date:  2017-02-28       Impact factor: 7.446

Review 2.  Novel protein science enabled by total chemical synthesis.

Authors:  Stephen B H Kent
Journal:  Protein Sci       Date:  2018-12-18       Impact factor: 6.725

Review 3.  Expanding the chemical toolbox for the synthesis of large and uniquely modified proteins.

Authors:  Somasekhar Bondalapati; Muhammad Jbara; Ashraf Brik
Journal:  Nat Chem       Date:  2016-04-22       Impact factor: 24.427

4.  Strawberry Mottle Virus (Family Secoviridae, Order Picornavirales) Encodes a Novel Glutamic Protease To Process the RNA2 Polyprotein at Two Cleavage Sites.

Authors:  Krin S Mann; Joan Chisholm; Hélène Sanfaçon
Journal:  J Virol       Date:  2019-02-19       Impact factor: 5.103

5.  Long-Range Electrostatics-Induced Two-Proton Transfer Captured by Neutron Crystallography in an Enzyme Catalytic Site.

Authors:  Oksana Gerlits; Troy Wymore; Amit Das; Chen-Hsiang Shen; Jerry M Parks; Jeremy C Smith; Kevin L Weiss; David A Keen; Matthew P Blakeley; John M Louis; Paul Langan; Irene T Weber; Andrey Kovalevsky
Journal:  Angew Chem Int Ed Engl       Date:  2016-03-09       Impact factor: 15.336

6.  Visualizing Tetrahedral Oxyanion Bound in HIV-1 Protease Using Neutrons: Implications for the Catalytic Mechanism and Drug Design.

Authors:  Mukesh Kumar; Kalyaneswar Mandal; Matthew P Blakeley; Troy Wymore; Stephen B H Kent; John M Louis; Amit Das; Andrey Kovalevsky
Journal:  ACS Omega       Date:  2020-05-14

7.  Combining Molecular Dynamic Information and an Aspherical-Atom Data Bank in the Evaluation of the Electrostatic Interaction Energy in Multimeric Protein-Ligand Complex: A Case Study for HIV-1 Protease.

Authors:  Prashant Kumar; Paulina Maria Dominiak
Journal:  Molecules       Date:  2021-06-24       Impact factor: 4.411
  7 in total

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