Proteome‐Wide Survey of Cysteine Oxidation by Using a Norbornene Probe
Sign Up to like & getrecommendations! Published in 2019 at "ChemBioChem"
DOI: 10.1002/cbic.201900729
Abstract: Rapid detection of cysteine oxidation in living cells is critical in advancing our understanding of responses to reactive oxygen species (ROS) and oxidative stress. Accordingly, there is a need to develop chemical probes that facilitate… read more here.
Keywords: oxidation; cysteine; norbornene probe; cysteine oxidation ... See more keywords
Proteome-Wide Modeling of Transmembrane Alpha-Helical Homodimers by TMDOCK
Sign Up to like & getrecommendations! Published in 2017 at "Biophysical Journal"
DOI: 10.1016/j.bpj.2016.11.1941
Abstract: A novel energy-based method, TMDOCK, has been developed for ab initio modeling of 3D structures of parallel homodimers in membranes. Instead of exploring the entire conformational space, the method employs a fast template-driven global energy… read more here.
Keywords: energy; dimerization; method; proteome wide ... See more keywords
R-DeeP: Proteome-wide and Quantitative Identification of RNA-Dependent Proteins by Density Gradient Ultracentrifugation.
Sign Up to like & getrecommendations! Published in 2019 at "Molecular cell"
DOI: 10.1016/j.molcel.2019.04.018
Abstract: The comprehensive but specific identification of RNA-binding proteins as well as the discovery of RNA-associated protein functions remain major challenges in RNA biology. Here we adapt the concept of RNA dependence, defining a protein as… read more here.
Keywords: identification rna; rna dependent; rna; dependent proteins ... See more keywords
Proteome-Wide Characterizations of N6-Methyl-Adenosine Triphosphate- and N6-Furfuryl-Adenosine Triphosphate-Binding Capabilities of Kinases.
Sign Up to like & getrecommendations! Published in 2021 at "Analytical chemistry"
DOI: 10.1021/acs.analchem.1c02565
Abstract: Kinases catalyze the transfer of the γ-phosphate group from adenosine triphosphate (ATP) to their protein and small-molecule substrates, and this phosphorylation is a crucial element of multiple cell signaling pathways. Herein, we employed isotope-coded ATP… read more here.
Keywords: atp; adenosine triphosphate; endogenous kinases; proteome wide ... See more keywords
Exploring an Alternative Cysteine-Reactive Chemistry to Enable Proteome-Wide PPI Analysis by Cross-Linking Mass Spectrometry.
Sign Up to like & getrecommendations! Published in 2023 at "Analytical chemistry"
DOI: 10.1021/acs.analchem.2c04986
Abstract: The development of MS-cleavable cross-linking mass spectrometry (XL-MS) has enabled the effective capture and identification of endogenous protein-protein interactions (PPIs) and their residue contacts at the global scale without cell engineering. So far, only lysine-reactive… read more here.
Keywords: linking mass; chemistry; cross linking; ppi ... See more keywords
A Bifunctional Noncanonical Amino Acid: Synthesis, Expression, and Residue-Specific Proteome-wide Incorporation.
Sign Up to like & getrecommendations! Published in 2018 at "Biochemistry"
DOI: 10.1021/acs.biochem.8b00397
Abstract: Mapping of weak and hence transient interactions between low-abundance interacting molecules is still a major challenge in systems biology and protein biochemistry. Therefore, additional system-wide acting tools are needed to determine protein interactomics. Most important… read more here.
Keywords: biochemistry; noncanonical amino; amino acid; proteome wide ... See more keywords
Proteome-Wide Structural Biology: An Emerging Field for the Structural Analysis of Proteins on the Proteomic Scale.
Sign Up to like & getrecommendations! Published in 2018 at "Journal of proteome research"
DOI: 10.1021/acs.jproteome.8b00341
Abstract: Over the past decade, a suite of new mass-spectrometry-based proteomics methods has been developed that now enables the conformational properties of proteins and protein-ligand complexes to be studied in complex biological mixtures, from cell lysates… read more here.
Keywords: structural biology; analysis; wide structural; proteome wide ... See more keywords
'Differential visual proteomics': Enabling the proteome-wide comparison of protein structures of single-cells.
Sign Up to like & getrecommendations! Published in 2019 at "Journal of proteome research"
DOI: 10.1021/acs.jproteome.9b00447
Abstract: Proteins are involved in all tasks of life, and their characterization is essential to understand the underlying mechanisms of biological processes. We present a method called 'differential visual proteomics' geared to study proteome-wide structural changes… read more here.
Keywords: visual proteomics; protein; differential visual; proteomics enabling ... See more keywords
Proteome-wide solubility and thermal stability profiling reveals distinct regulatory roles for ATP
Sign Up to like & getrecommendations! Published in 2019 at "Nature Communications"
DOI: 10.1038/s41467-019-09107-y
Abstract: Adenosine triphosphate (ATP) plays fundamental roles in cellular biochemistry and was recently discovered to function as a biological hydrotrope. Here, we use mass spectrometry to interrogate ATP-mediated regulation of protein thermal stability and protein solubility… read more here.
Keywords: atp; profiling reveals; proteome wide; solubility ... See more keywords
Proteome-wide identification and functional analysis of ubiquitinated proteins in peach leaves
Sign Up to like & getrecommendations! Published in 2020 at "Scientific Reports"
DOI: 10.1038/s41598-020-59342-3
Abstract: Ubiquitination is a critical post-translational modification machinery that governs a wide range of cellular functions by regulating protein homeostasis. Identification of ubiquitinated proteins and lysine residues can help researchers better understand the physiological roles of… read more here.
Keywords: wide identification; ubiquitinated proteins; analysis; proteome wide ... See more keywords
Proteome-wide profiling and mapping of post translational modifications in human hearts
Sign Up to like & getrecommendations! Published in 2021 at "Scientific Reports"
DOI: 10.1038/s41598-021-81986-y
Abstract: Post translational modifications (PTMs) are covalent modifications of proteins that can range from small chemical modifications to addition of entire proteins. PTMs contribute to regulation of protein function and thereby greatly increase the functional diversity… read more here.
Keywords: human hearts; modifications human; post translational; proteome wide ... See more keywords