Quantitative proteomics using isobaric labeling: a practical guide

X Chen, Y Sun, T Zhang, L Shu… - Genomics …, 2021 - academic.oup.com
In the past decade, relative proteomic quantification using isobaric labeling technology has
developed into a key tool for comparing the expression of proteins in biological samples …

The characterization of protein interactions–what, how and how much?

LJ Walport, JKK Low, JM Matthews… - Chemical Society …, 2021 - pubs.rsc.org
Protein interactions underlie most molecular events in biology. Many methods have been
developed to identify protein partners, to measure the affinity with which these biomolecules …

ABP1–TMK auxin perception for global phosphorylation and auxin canalization

J Friml, M Gallei, Z Gelová, A Johnson, E Mazur… - Nature, 2022 - nature.com
The phytohormone auxin triggers transcriptional reprogramming through a well-
characterized perception machinery in the nucleus. By contrast, mechanisms that underlie …

Fast and flexible protein design using deep graph neural networks

A Strokach, D Becerra, C Corbi-Verge, A Perez-Riba… - Cell systems, 2020 - cell.com
Protein structure and function is determined by the arrangement of the linear sequence of
amino acids in 3D space. We show that a deep graph neural network, ProteinSolver, can …

BeStSel: webserver for secondary structure and fold prediction for protein CD spectroscopy

A Micsonai, E Moussong, F Wien, E Boros… - Nucleic Acids …, 2022 - academic.oup.com
Circular dichroism (CD) spectroscopy is widely used to characterize the secondary structure
composition of proteins. To derive accurate and detailed structural information from the CD …

Cancer mutations of the tumor suppressor SPOP disrupt the formation of active, phase-separated compartments

JJ Bouchard, JH Otero, DC Scott, E Szulc, EW Martin… - Molecular cell, 2018 - cell.com
Mutations in the tumor suppressor SPOP (speckle-type POZ protein) cause prostate, breast,
and other solid tumors. SPOP is a substrate adaptor of the cullin3-RING ubiquitin ligase and …

The cytotoxic Staphylococcus aureus PSMα3 reveals a cross-α amyloid-like fibril

E Tayeb-Fligelman, O Tabachnikov, A Moshe… - Science, 2017 - science.org
Amyloids are ordered protein aggregates, found in all kingdoms of life, and are involved in
aggregation diseases as well as in physiological activities. In microbes, functional amyloids …

BeStSel: from secondary structure analysis to protein fold prediction by circular dichroism spectroscopy

A Micsonai, É Bulyáki, J Kardos - Structural genomics: general applications, 2021 - Springer
Far-UV circular dichroism (CD) spectroscopy is a classical method for the study of the
secondary structure of polypeptides in solution. It has been the general view that the α-helix …

Structural mechanism for tyrosine hydroxylase inhibition by dopamine and reactivation by Ser40 phosphorylation

MT Bueno-Carrasco, J Cuéllar, MI Flydal… - Nature …, 2022 - nature.com
Tyrosine hydroxylase (TH) catalyzes the rate-limiting step in the biosynthesis of dopamine
(DA) and other catecholamines, and its dysfunction leads to DA deficiency and …

DichroIDP: a method for analyses of intrinsically disordered proteins using circular dichroism spectroscopy

AJ Miles, ED Drew, BA Wallace - Communications Biology, 2023 - nature.com
Intrinsically disordered proteins (IDPs) are comprised of significant numbers of residues that
form neither helix, sheet, nor any other canonical type of secondary structure. They play …