Main description:

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.

Contents:

1. Protein-Metabolite Interactions Shape Cellular Metabolism and Physiology

Prathibha Muralidhara and Jennifer C. Ewald

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

Nicolas E. Figueroa, Itzell E. Hernandez-Sanchez, Israel Maruri-Lopez, and Monika Chodasiewicz

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

Qing Lu and Eugenia Russinova

4. Solvent-Induced Protein Precipitation for Drug Target Discovery

Xiaolei Zhang, Lianghai Hu, and Mingliang Ye

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

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

6. Limited Proteolysis-Mass Spectrometry to Identify Metabolite-Protein Interactions

Ales Holfeld, Jan-Philipp Quast, Roland Bruderer, Lukas Reiter, Natalie de Souza, and Paola Picotti

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

Massimiliano Gaetani and Roman A. Zubarev

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

Marcin Luzarowski and Aleksandra Skirycz

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

Ruslan Nedielkov and Heiko M. Moeller

10. PROMIS: Co-Fractionation Mass Spectrometry for Analysis of Protein-Metabolite Interactions

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

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

Sofia Moco and Joerg M. Buescher

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

Dirk Walther

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

Anja Thalhammer and Nina K. Broeker

14. Databases and Tools to Investigate Protein-Metabolite Interactions

Leonardo Perez de Souza and Alisdair R. Fernie