Decoding nature: multi-target anti-inflammatory mechanisms of natural products in the TLR4/NF-κB pathway by Yue Zhao, Yue Zhao, Jiacai Wu, Xiaolan Liu, Xiaolan Liu, Xu Chen, Xu Chen, Juan Wang, Juan Wang

“…In light of these considerations, this review comprehensively synthesizes recent research findings concerning the TLR4/NF-κB signaling pathway, including the translocation of TLR4 activation to lysosomes within the cytoplasm, the assembly of protein complexes mediated by ubiquitin chains K63 and K48, and the deacetylation modification of p65. …”
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Design and experimental validation of the action of small molecule-based inhibitors of the FADD protein by N. V. Ivanisenko, L. Hillert, V. A. Ivanisenko, I. N. Lavrik

“…For this purpose, the molecular modeling of the protein complexes and virtual screening of the potential inhibitors of FA DD has been performed. …”
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Chromatin remodeling (SWI/SNF) complexes, cancer, and response to immunotherapy by Razelle Kurzrock, Shumei Kato, Nithya Krishnamurthy, Scott Lippman

“…Chromatin regulation involves four subfamilies composed of ATP-dependent multifunctional protein complexes that remodel the way DNA is packaged. …”
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Repurposing antiviral drugs targeting the PARP-1 and HER2 pathways with multifaceted impacts through integrated network analysis and molecular mechanics by Uma Maheshwari Mugundan, Praveen Sekar, Rajanandh Muhasaparur Ganesan

“…Subsequent molecular dynamics simulations, conducted over 200 ns, assessed the stability of these drug-protein complexes. Binding free energy was calculated using Molecular Mechanics/Generalized Born Surface Area (MM-GBSA) methods, reinforcing the stability and efficacy of the selected compounds followed by entropy calculation using Normal mode analysis done for Efavirenz complexes. …”
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Site-selective photo-crosslinking for the characterisation of transient ubiquitin-like protein-protein interactions. by Zac Sandy, Zijuan Wang, Deepak Behera, Benjamin M Foster, Finlay A Martin, Kira Brüninghoff, Kathleen M Cain, Wolfgang Dörner, Maria Jose Cabello-Lobato, Josep V Forment, Matthew J Cliff, Igor Larrosa, Perdita Barran, Duncan L Smith, Henning D Mootz, Christine K Schmidt

“…Using genetic code expansion and incorporation of commercially available unnatural amino acids, we have developed a highly accessible method whereby interactions between biotinylated ubiquitin-like protein (UBL) probes and their binding partners can be stabilised using ultraviolet (UV) light-induced crosslinks. The stabilised protein complexes can be purified using affinity purification and identified by mass spectrometry. …”
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Deciphering the potential of plant metabolites as insecticides against melon fly (Zeugodacus cucurbitae): Exposing control alternatives to assure food security by Zinat Jahan Chowdhury, Anik Banik, Tanjin Barketullah Robin, Mohammed Rashed Chowdhury

“…Stability of the top compound-protein complexes was further confirmed through a 100 ns molecular dynamics simulation. …”
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Generation and analysis of mouse embryonic stem cells with knockout of the <i>Mcph1</i> (microcephalin) gene by A. M. Yunusova, A. V. Smirnov, T. A. Shnaider, I. E. Pristyazhnuk, S. Y. Korableva, N. R. Battulin

“…Сohesin and condensins are conserved multi-subunit protein complexes that participate in mammalian genome organization by extruding chromatin loops. …”
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Computer simulation of the spatial structure of MUC 1 peptides capable of inhibiting apoptosis by N. V. Ivanisenko, I. N. Lavrik, V. A. Ivanisenko

“…Initiation of apoptosis occurs via the formationof macromolecular protein complexes. In these complexes, activation of key enzymes in apoptosis, caspases, takes place. …”
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The regulatory role of cystatin C in autophagy and neurodegeneration by T. A. Korolenko, A. B. Shintyapina, A. B. Pupyshev, A. A. Akopyan, G. S. Russkikh, M. A. Dikovskaya, V. A. Vavilin, E. L Zavjalov, M. A. Tikhonova, T. G. Amstislavskaya

“…Autophagy is a dynamic cellular process involved in the turnover of proteins, protein complexes, and organelles through lysosomal degradation. …”
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Modulatory effects of selenium nanoparticles on gut microbiota and metabolites of juvenile Nile tilapia (Oreochromis niloticus) by microbiome-metabolomic analysis by Jing Ni, Lirong Ren, Ying Liang, Ying Ma, Hejian Xiong

“…This study evaluated the in vitro effects of our previous synthesized SeNPs, coated with abalone visceral polysaccharide-protein complexes (PSP-SeNPs), on the proliferation of probiotics and common aquatic pathogens, and the in vivo effects on the gut microbiome and metabolome of tilapia. …”
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Identification of potential corticosteroid binding sites on the SARS CoV-2 main protease Mpro — in silico docking study by Н. В. Хміль, А. В. Шестопалова, В. Г. Колесніков, А. О. Боєчко-Немовча

“…It was shown that hydrogen bonds and hydrophobic interactions were involved in the formation of ligand-protein complexes mainly through residues such as Arg131, Lys137, Thr199, Asp289, Leu272, Leu286, Leu287, Tyr239, and Gly275, which formed the catalytic and distal sites for ligand binding. …”
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