Cell-Wide Identification of Metabolite-Protein Interactions

1. Front Matter

   Pages i-x

   PDF

2. Protein–Metabolite Interactions Shape Cellular Metabolism and Physiology

   • Prathibha Muralidhara, Jennifer C. Ewald

   Pages 1-10

3. Affinity Purification Protocol Starting with a Small Molecule as Bait

   • Nicolás E. Figueroa, Itzell E. Hernandez-Sanchez, Israel Maruri-Lopez, Monika Chodasiewicz

   Pages 11-19

4. Cellular Thermal Shift Assay for the Detection of Small Molecule–Target Interactions in Arabidopsis Cells

   • Qing Lu, Eugenia Russinova

   Pages 21-34

5. Solvent-Induced Protein Precipitation for Drug Target Discovery

   • Xiaolei Zhang, Lianghai Hu, Mingliang Ye

   Pages 35-45

6. Identification of Plant Protein–Metabolite Interactions by Limited Proteolysis-Coupled Mass Spectrometry (LiP-MS)

   • Jhon Venegas-Molina, Petra Van Damme, Alain Goossens

   Pages 47-67

7. Limited Proteolysis–Mass Spectrometry to Identify Metabolite–Protein Interactions

   • Aleš Holfeld, Jan-Philipp Quast, Roland Bruderer, Lukas Reiter, Natalie de Souza, Paola Picotti

   Pages 69-89

8. Proteome Integral Solubility Alteration (PISA) for High-Throughput Ligand Target Deconvolution with Increased Statistical Significance and Reduced Sample Amount

   • Massimiliano Gaetani, Roman A. Zubarev

   Pages 91-106

9. Parallel Analysis of Protein–Protein and Protein–Metabolite Complexes Using a Single-Step Affinity Purification

   • Marcin Luzarowski, Aleksandra Skirycz

   Pages 107-122

10. Detecting and Characterizing Interactions of Metabolites with Proteins by Saturation Transfer Difference Nuclear Magnetic Resonance (STD NMR) Spectroscopy

    • Ruslan Nedielkov, Heiko M. Möller

    Pages 123-139

11. PROMIS: Co-fractionation Mass Spectrometry for Analysis of Protein–Metabolite Interactions

    • Marcin Luzarowski, Ewelina M. Sokolowska, Dennis Schlossarek, Aleksandra Skirycz

    Pages 141-153

12. Metabolomics: Going Deeper, Going Broader, Going Further

    • Sofia Moco, Joerg M. Buescher

    Pages 155-178

13. Specifics of Metabolite-Protein Interactions and Their Computational Analysis and Prediction

    • Dirk Walther

    Pages 179-197

14. Biophysical Approaches for the Characterization of Protein-Metabolite Interactions

    • Anja Thalhammer, Nina K. Bröker

    Pages 199-229

15. Databases and Tools to Investigate Protein-Metabolite Interactions

    • Leonardo Perez de Souza, Alisdair R. Fernie

    Pages 231-249

16. Back Matter

    Pages 251-260

    PDF

This thorough volume explores protocols of proteome- and metabolome-wide strategies for the identification of protein-small molecule complexes in different organisms, in order to shed light on these important regulatory interactions. Experimental and computational strategies to characterize protein-metabolite interactions are discussed, and recent advances in enabling technologies are featured as well. Written for the highly successful Methods in Molecular Biology series, chapters include the kind of detail and expert implementation advice to ensure success in future research. 

Authoritative and practical, Cell-Wide Identification of Metabolite-Protein Interactions will aid researchers seeking a better understanding of the mechanisms of signal transduction occurring in the cell and assessing the effect of complex formation on cell physiology.

• Cellular processes
• Metabolomics
• Proteomics
• Protein-small molecule complexes
• Computational techniques

• Max-Planck-Institut für Molekulare Pflanzenphysiologie, Potsdam, Germany

  Aleksandra Skirycz

• Zentrum für Molekulare Biologie der Universität Heidelberg, Heidelberg, Germany

  Marcin Luzarowski

• Interfaculty Institute of Cell Biology, University of Tübingen, Tübingen, Germany

  Jennifer C. Ewald

Policies and ethics