Mechanism-based traps enable protease and hydrolase substrate discovery

S Tang, AT Beattie, L Kafkova, G Petris… - Nature, 2022 - nature.com
Hydrolase enzymes, including proteases, are encoded by 2–3% of the genes in the human
genome and 14% of these enzymes are active drug targets. However, the activities and …

AirID, a novel proximity biotinylation enzyme, for analysis of protein–protein interactions

K Kido, S Yamanaka, S Nakano, K Motani, S Shinohara… - Elife, 2020 - elifesciences.org
Proximity biotinylation based on Escherichia coli BirA enzymes such as BioID (BirA*) and
TurboID is a key technology for identifying proteins that interact with a target protein in a cell …

Capturing covalent catalytic intermediates by enzyme mutants: recent advances in methodologies and applications

Y Wang, S Tang - ChemBioChem, 2023 - Wiley Online Library
Covalent catalytic intermediates provide valuable information for revealing the catalytic
mechanism, probing the enzyme activity and identifying substrate specificity. However …

RHBDL4-triggered downregulation of COPII adaptor protein TMED7 suppresses TLR4-mediated inflammatory signaling

JD Knopf, SS Steigleder, F Korn, N Kühnle… - Nature …, 2024 - nature.com
The toll-like receptor 4 (TLR4) is a central regulator of innate immunity that primarily
recognizes bacterial lipopolysaccharide cell wall constituents to trigger cytokine secretion …

Intramembrane protease RHBDL4 cleaves oligosaccharyltransferase subunits to target them for ER-associated degradation

JD Knopf, N Landscheidt, CL Pegg… - Journal of cell …, 2020 - journals.biologists.com
The endoplasmic reticulum (ER)-resident intramembrane rhomboid protease RHBDL4
generates metastable protein fragments and together with the ER-associated degradation …

Eta-secretase-like processing of the amyloid precursor protein (APP) by the rhomboid protease RHBDL4

YCM Penalva, S Paschkowsky, SJ Recinto… - Journal of Biological …, 2024 - jbc.org
The amyloid precursor protein (APP) is a key protein in Alzheimer's disease synthesized in
the endoplasmic reticulum (ER) and translocated to the plasma membrane where it …

FuncPhos-STR: An integrated deep neural network for functional phosphosite prediction based on AlphaFold protein structure and dynamics

G Zhang, C Zhang, M Cai, C Luo, F Zhu… - International Journal of …, 2024 - Elsevier
Phosphorylation modifications play important regulatory roles in most biological processes.
However, the functional assignment for the vast majority of the identified phosphosites …

Putative Protein Interactome of the Rhomboid Protease RHBDL4

JM Hsiao, YCM Penalva, HYL Wu, B Xiao… - Biochemistry, 2023 - ACS Publications
The physiological functions of the rhomboid-related protein 4 (RHBDL4) are emerging, but
their molecular details remain unclear. Because increased expression of RHBDL4 has been …

The cation exchanger Letm1, circadian rhythms, and NAD (H) levels interconnect in diurnal zebrafish

P Dao, S Hajny, R Mekis, L Orel… - Life Science …, 2022 - life-science-alliance.org
Mitochondria are fundamental for life and require balanced ion exchange to maintain proper
functioning. The mitochondrial cation exchanger LETM1 sparks interest because of its …

The mammalian rhomboid protein RHBDL4 protects against endoplasmic reticulum stress by regulating the morphology and distribution of ER sheets

VL Lastun, C Levet, M Freeman - Journal of Biological Chemistry, 2022 - ASBMB
In metazoans, the architecture of the endoplasmic reticulum (ER) differs between cell types
and undergoes major changes throughout the cell cycle and according to physiological …