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Cell signaling, post-translational protein modifications and NMR spectroscopy

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TLDR
The previously uncharacterized NMR properties of lysine propionylation, butyrylation, succinylation, malonylation and crotonylation are delineated to define an initial reference frame for comprehensive PTM studies by high-resolution NMR spectroscopy.
Abstract
Post-translationally modified proteins make up the majority of the proteome and establish, to a large part, the impressive level of functional diversity in higher, multi-cellular organisms. Most eukaryotic post-translational protein modifications (PTMs) denote reversible, covalent additions of small chemical entities such as phosphate-, acyl-, alkyl- and glycosyl-groups onto selected subsets of modifiable amino acids. In turn, these modifications induce highly specific changes in the chemical environments of individual protein residues, which are readily detected by high-resolution NMR spectroscopy. In the following, we provide a concise compendium of NMR characteristics of the main types of eukaryotic PTMs: serine, threonine, tyrosine and histidine phosphorylation, lysine acetylation, lysine and arginine methylation, and serine, threonine O-glycosylation. We further delineate the previously uncharacterized NMR properties of lysine propionylation, butyrylation, succinylation, malonylation and crotonylation, which, altogether, define an initial reference frame for comprehensive PTM studies by high-resolution NMR spectroscopy.

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Journal ArticleDOI

Folding of an intrinsically disordered protein by phosphorylation as a regulatory switch

TL;DR: Stabilization of a phosphorylation-induced fold is highlighted as the essential mechanism for phospho-regulation of the 4E-BP:eIF4E interaction and exemplify a new mode of biological regulation mediated by intrinsically disordered proteins.
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Modulation of Intrinsically Disordered Protein Function by Post-translational Modifications

TL;DR: Diverse biological processes that are dependent on PTM regulation of IDPs are discussed and recent tools for generating homogenously modified IDPs for studies of PTM-mediated IDP regulatory mechanisms are presented.
Journal ArticleDOI

Physicochemical properties of cells and their effects on intrinsically disordered proteins (IDPs).

TL;DR: This work has learned about the unexpected intracellular stability of disordered proteins, their roles in integrating post-translational protein modifications in cell signaling and about their functions in regulatory processes ranging from transcription to cell fate decisions.
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Mechanistic View of hnRNPA2 Low-Complexity Domain Structure, Interactions, and Phase Separation Altered by Mutation and Arginine Methylation.

TL;DR: A unified structural view of hnRNPA2 self-assembly, aggregation, and interaction and the distinct effects of small chemical changes-disease mutations and arginine methylation-on these assemblies are provided.
Journal ArticleDOI

Sequence Determinants of the Conformational Properties of an Intrinsically Disordered Protein Prior to and upon Multisite Phosphorylation

TL;DR: It is shown that the unphosphorylated Ash1 IDR adopts coil-like conformations that are expanded and well-solvated, and this result contradicts inferences regarding global compaction that are derived from heuristics based on amino acid compositions for IDRs with low proline contents.
References
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Journal ArticleDOI

Chromatin Modifications and Their Function

TL;DR: The surface of nucleosomes is studded with a multiplicity of modifications that can dictate the higher-order chromatin structure in which DNA is packaged and can orchestrate the ordered recruitment of enzyme complexes to manipulate DNA.
Journal ArticleDOI

Translating the Histone Code

TL;DR: It is proposed that this epigenetic marking system represents a fundamental regulatory mechanism that has an impact on most, if not all, chromatin-templated processes, with far-reaching consequences for cell fate decisions and both normal and pathological development.
Journal ArticleDOI

Cell signaling by receptor-tyrosine kinases

TL;DR: Understanding of the complex signaling networks downstream from RTKs and how alterations in these networks are translated into cellular responses provides an important context for therapeutically countering the effects of pathogenic RTK mutations in cancer and other diseases.
Journal ArticleDOI

Regulation of chromatin by histone modifications

TL;DR: The known histone modifications are described, where they are found genomically and discussed and some of their functional consequences are discussed, concentrating mostly on transcription where the majority of characterisation has taken place.
Journal ArticleDOI

Lysine Acetylation Targets Protein Complexes and Co-Regulates Major Cellular Functions

TL;DR: A proteomic-scale analysis of protein acetylation suggests that it is an important biological regulatory mechanism and the regulatory scope of lysine acetylations is broad and comparable with that of other major posttranslational modifications.
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