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Wagner AG, Eskandari R, Schramm VL. An enzyme-coupled microplate assay for activity and inhibition of hmdUMP hydrolysis by DNPH1. Anal Biochem 2023; 672:115171. [PMID: 37142196 PMCID: PMC10334339 DOI: 10.1016/j.ab.2023.115171] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2023] [Revised: 04/19/2023] [Accepted: 04/25/2023] [Indexed: 05/06/2023]
Abstract
2'-Deoxynucleoside 5'-monophosphate N-glycosidase 1 (DNPH1) hydrolyzes the epigenetically modified nucleotide 5-hydroxymethyl 2'-deoxyuridine 5'-monophosphate (hmdUMP) derived from DNA metabolism. Published assays of DNPH1 activity are low throughput, use high concentrations of DNPH1, and have not incorporated or characterized reactivity with the natural substrate. We describe the enzymatic synthesis of hmdUMP from commercially available materials and define its steady-state kinetics with DNPH1 using a sensitive, two-pathway enzyme coupled assay. This continuous absorbance-based assay works in 96-well plate format using nearly 500-fold less DNPH1 than previous methods. With a Z prime value of 0.92, the assay is suitable for high-throughput assays, screening of DNPH1 inhibitors, or characterization of other deoxynucleotide monophosphate hydrolases.
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Affiliation(s)
- Andrew G Wagner
- Department of Biochemistry, Albert Einstein College of Medicine, Bronx, NY, 10461, United States
| | - Roozbeh Eskandari
- Department of Biochemistry, Albert Einstein College of Medicine, Bronx, NY, 10461, United States
| | - Vern L Schramm
- Department of Biochemistry, Albert Einstein College of Medicine, Bronx, NY, 10461, United States.
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Zhang Y, Yang Y, Meng X, Zhou X, Guo B. Efficient Kilogram-Scale Synthesis of a Novel Oxazolidinone Antibacterial Candidate YG-056SP. Org Process Res Dev 2023. [DOI: 10.1021/acs.oprd.2c00350] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
Affiliation(s)
- Yinyong Zhang
- Sichuan Engineering Research Center for Biomimetic Synthesis of Natural Drugs, School of Life Science and Engineering, Southwest Jiaotong University, Chengdu610031, P. R. China
- State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, Shanghai201203, P. R. China
- School of Pharmacy, University of Chinese Academy of Sciences, Beijing100049, P. R. China
| | - Yushe Yang
- State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, Shanghai201203, P. R. China
- School of Pharmacy, University of Chinese Academy of Sciences, Beijing100049, P. R. China
| | - Xin Meng
- State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, Shanghai201203, P. R. China
- School of Pharmacy, University of Chinese Academy of Sciences, Beijing100049, P. R. China
| | - Xianli Zhou
- Sichuan Engineering Research Center for Biomimetic Synthesis of Natural Drugs, School of Life Science and Engineering, Southwest Jiaotong University, Chengdu610031, P. R. China
- Affiliated Hospital, The Third People’s Hospital of Chengdu, Southwest Jiaotong University, Chengdu610000, P. R. China
| | - Bin Guo
- State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, Shanghai201203, P. R. China
- School of Pharmacy, University of Chinese Academy of Sciences, Beijing100049, P. R. China
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Appy L, Peyrottes S, Roy B. Supported Synthesis of Adenosine Nucleotides and Derivatives on a Benzene‐Centered Tripodal Soluble Support. European J Org Chem 2022. [DOI: 10.1002/ejoc.202100544] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Affiliation(s)
- Lucie Appy
- Nucleosides & Phosphorylated Effectors Team Institute for Biomolecules Max Mousseron (IBMM) UMR 5247 CNRS University of Montpellier, ENSCM Campus Triolet cc 1705, Place Eugène Bataillon 34095 Montpellier France
| | - Suzanne Peyrottes
- Nucleosides & Phosphorylated Effectors Team Institute for Biomolecules Max Mousseron (IBMM) UMR 5247 CNRS University of Montpellier, ENSCM Campus Triolet cc 1705, Place Eugène Bataillon 34095 Montpellier France
| | - Béatrice Roy
- Nucleosides & Phosphorylated Effectors Team Institute for Biomolecules Max Mousseron (IBMM) UMR 5247 CNRS University of Montpellier, ENSCM Campus Triolet cc 1705, Place Eugène Bataillon 34095 Montpellier France
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Affiliation(s)
- Romain Morodo
- Center for Integrated Technology and Organic Synthesis MolSys Research Unit University of Liège B‐4000 Liège (Sart Tilman) Belgium
| | - Pauline Bianchi
- Center for Integrated Technology and Organic Synthesis MolSys Research Unit University of Liège B‐4000 Liège (Sart Tilman) Belgium
| | - Jean‐Christophe M. Monbaliu
- Center for Integrated Technology and Organic Synthesis MolSys Research Unit University of Liège B‐4000 Liège (Sart Tilman) Belgium
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Gérardy R, Emmanuel N, Toupy T, Kassin VE, Tshibalonza NN, Schmitz M, Monbaliu JCM. Continuous Flow Organic Chemistry: Successes and Pitfalls at the Interface with Current Societal Challenges. European J Org Chem 2018. [DOI: 10.1002/ejoc.201800149] [Citation(s) in RCA: 144] [Impact Index Per Article: 24.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Affiliation(s)
- Romaric Gérardy
- Center for Integrated Technology and Organic Synthesis; Department of Chemistry; Research Unit MolSys; University of Liège; Quartier Agora, Allée du six Aout, 13 4000 Liège (Sart Tilman) Belgium
| | - Noémie Emmanuel
- Center for Integrated Technology and Organic Synthesis; Department of Chemistry; Research Unit MolSys; University of Liège; Quartier Agora, Allée du six Aout, 13 4000 Liège (Sart Tilman) Belgium
| | - Thomas Toupy
- Center for Integrated Technology and Organic Synthesis; Department of Chemistry; Research Unit MolSys; University of Liège; Quartier Agora, Allée du six Aout, 13 4000 Liège (Sart Tilman) Belgium
| | - Victor-Emmanuel Kassin
- Center for Integrated Technology and Organic Synthesis; Department of Chemistry; Research Unit MolSys; University of Liège; Quartier Agora, Allée du six Aout, 13 4000 Liège (Sart Tilman) Belgium
| | - Nelly Ntumba Tshibalonza
- Center for Integrated Technology and Organic Synthesis; Department of Chemistry; Research Unit MolSys; University of Liège; Quartier Agora, Allée du six Aout, 13 4000 Liège (Sart Tilman) Belgium
| | - Michaël Schmitz
- Center for Integrated Technology and Organic Synthesis; Department of Chemistry; Research Unit MolSys; University of Liège; Quartier Agora, Allée du six Aout, 13 4000 Liège (Sart Tilman) Belgium
| | - Jean-Christophe M. Monbaliu
- Center for Integrated Technology and Organic Synthesis; Department of Chemistry; Research Unit MolSys; University of Liège; Quartier Agora, Allée du six Aout, 13 4000 Liège (Sart Tilman) Belgium
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