Transcription factors: Bridge between cell signaling and gene regulation

P Weidemüller, M Kholmatov, E Petsalaki… - …, 2021 - Wiley Online Library
Transcription factors (TFs) are key regulators of intrinsic cellular processes, such as
differentiation and development, and of the cellular response to external perturbation …

Proteome-wide structural changes measured with limited proteolysis-mass spectrometry: an advanced protocol for high-throughput applications

L Malinovska, V Cappelletti, D Kohler, I Piazza… - Nature protocols, 2023 - nature.com
Proteins regulate biological processes by changing their structure or abundance to
accomplish a specific function. In response to a perturbation, protein structure may be …

A central chaperone-like role for 14-3-3 proteins in human cells

D Segal, S Maier, GJ Mastromarco, WW Qian… - Molecular cell, 2023 - cell.com
3-3 proteins are highly conserved regulatory proteins that interact with hundreds of
structurally diverse clients and act as central hubs of signaling networks. However, how 14-3 …

Integrating knowledge and omics to decipher mechanisms via large‐scale models of signaling networks

M Garrido‐Rodriguez, K Zirngibl, O Ivanova… - Molecular systems …, 2022 - embopress.org
Signal transduction governs cellular behavior, and its dysregulation often leads to human
disease. To understand this process, we can use network models based on prior …

[HTML][HTML] Proteomes are of proteoforms: embracing the complexity

K Carbonara, M Andonovski, JR Coorssen - Proteomes, 2021 - mdpi.com
Proteomes are complex—much more so than genomes or transcriptomes. Thus, simplifying
their analysis does not simplify the issue. Proteomes are of proteoforms, not canonical …

Global, in situ analysis of the structural proteome in individuals with Parkinson's disease to identify a new class of biomarker

MT Mackmull, L Nagel, F Sesterhenn… - Nature structural & …, 2022 - nature.com
Parkinson's disease (PD) is a prevalent neurodegenerative disease for which robust
biomarkers are needed. Because protein structure reflects function, we tested whether …

Drug target identification in tissues by thermal proteome profiling

A Mateus, N Kurzawa, J Perrin… - Annual Review of …, 2022 - annualreviews.org
Drug target deconvolution can accelerate the drug discovery process by identifying a drug's
targets (facilitating medicinal chemistry efforts) and off-targets (anticipating toxicity effects or …

Spatially structured exchange of metabolites enhances bacterial survival and resilience in biofilms

Y Zhang, Y Cai, B Zhang, YHPJ Zhang - Nature Communications, 2024 - nature.com
Biofilm formation enhances bacterial survival and antibiotic tolerance, but the underlying
mechanisms are incompletely understood. Here, we show that biofilm growth is …

Impact of cellular crowding on protein structural dynamics investigated by EPR spectroscopy

A Pierro, A Bonucci, A Magalon, V Belle… - Chemical …, 2024 - ACS Publications
The study of how the intracellular medium influences protein structural dynamics and protein–
protein interactions is a captivating area of research for scientists aiming to comprehend …

DrugMap: A quantitative pan-cancer analysis of cysteine ligandability

M Takahashi, HB Chong, S Zhang, TY Yang… - Cell, 2024 - cell.com
Cysteine-focused chemical proteomic platforms have accelerated the clinical development
of covalent inhibitors for a wide range of targets in cancer. However, how different oncogenic …