Biophysical Approaches for the Characterization of Protein-Metabolite Interactions

Thalhammer, Anja; Bröker, Nina K

doi:10.1007/978-1-0716-2624-5_13

Cited by 2 publications

(2 citation statements)

References 226 publications

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“…The methods mentioned earlier allow the detection of PMIs in panoramic mode but do not provide information about these interactions’ kinetics, degree of affinity, and specificity. For these purposes, various biophysical methods (such as surface plasmon resonance (SPR), isothermal titration calorimetry (ITC), and nuclear magnetic resonance (NMR) spectroscopy) are used that specialize in the rigorous determination of interaction properties [ 72 ].…”

Section: Strategies For Pmi Studiesmentioning

confidence: 99%

“…A shortcoming of the base method is its limited capacity for working with large (≥50 KDa) proteins, but this limitation can be circumvented by the use of several modifications of the method, such as the Nuclear Overhauser Effect (NOE) or Saturation-Transfer Difference (STD) [ 83 ]. In addition to the methods described above, there are several techniques based on fluorescence spectroscopy, Fourier Transform Infrared (FTIR) and Raman spectroscopy, analytical ultracentrifugation (AUC), and many other approaches [ 72 , 87 , 88 ], which allow the measurement of the influence of conditions (pH, ion concentrations, temperature) on the interaction of a particular protein–metabolite pair while also allowing the detection of conformational changes in protein molecules upon binding with the metabolite.…”

Section: Strategies For Pmi Studiesmentioning

confidence: 99%

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The Knowns and Unknowns in Protein–Metabolite Interactions

Kurbatov

Dolgalev

Arzumanian

et al. 2023

IJMS

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Increasing attention has been focused on the study of protein–metabolite interactions (PMI), which play a key role in regulating protein functions and directing an orchestra of cellular processes. The investigation of PMIs is complicated by the fact that many such interactions are extremely short-lived, which requires very high resolution in order to detect them. As in the case of protein–protein interactions, protein–metabolite interactions are still not clearly defined. Existing assays for detecting protein–metabolite interactions have an additional limitation in the form of a limited capacity to identify interacting metabolites. Thus, although recent advances in mass spectrometry allow the routine identification and quantification of thousands of proteins and metabolites today, they still need to be improved to provide a complete inventory of biological molecules, as well as all interactions between them. Multiomic studies aimed at deciphering the implementation of genetic information often end with the analysis of changes in metabolic pathways, as they constitute one of the most informative phenotypic layers. In this approach, the quantity and quality of knowledge about PMIs become vital to establishing the full scope of crosstalk between the proteome and the metabolome in a biological object of interest. In this review, we analyze the current state of investigation into the detection and annotation of protein–metabolite interactions, describe the recent progress in developing associated research methods, and attempt to deconstruct the very term “interaction” to advance the field of interactomics further.

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Section: Strategies For Pmi Studiesmentioning

confidence: 99%

Section: Strategies For Pmi Studiesmentioning

confidence: 99%

The Knowns and Unknowns in Protein–Metabolite Interactions

Kurbatov

Dolgalev

Arzumanian

et al. 2023

IJMS

View full text Add to dashboard Cite

show abstract

Using protein–metabolite interactions to identify novel plant metabolite receptors

Fischer,

Fernie,

Skirycz

2024

Phytochem Rev

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An increasing interest in plant protein–metabolite interactions has occurred in the past decade due to advancements in technology and methodology. Metabolite receptors especially are of great importance in plant research due to their role in cell signaling for the regulation of growth and development and environmental sensing. Energy, carbon, and nitrogen signaling through AMPK/SNF1/SnRK1, TOR, and PII receptors are core components conserved across Kingdoms of Life and what is known in plants often came first from study in non-plant systems. In contrast, known phytohormone receptors are relatively distinct to plants and identified within a plant system. Therefore, this review will give an update on known plant receptors for energy, carbon, and nitrogen signaling as well as phytohormones, focusing on the detection methods used to provide our current understanding of their function in the plant. Finally, it will address emerging strategies for identifying protein–metabolite interactions to discover novel plant receptors.

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Biophysical Approaches for the Characterization of Protein-Metabolite Interactions

Cited by 2 publications

References 226 publications

The Knowns and Unknowns in Protein–Metabolite Interactions

The Knowns and Unknowns in Protein–Metabolite Interactions

Using protein–metabolite interactions to identify novel plant metabolite receptors

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