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Analysis of residue–residue interactions in the structures of ASIC1a suggests possible gating mechanisms
The gating mechanism of acid-sensitive ion channels (ASICs) remains unclear, despite the availability of atomic-scale structures in various...
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Spatial covariance analysis reveals the residue-by-residue thermodynamic contribution of variation to the CFTR fold
Although the impact of genome variation on the thermodynamic properties of function on the protein fold has been studied in vitro, it remains a...
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DeepBSRPred: deep learning-based binding site residue prediction for proteins
MotivationProteins–protein interactions (PPIs) are important to govern several cellular activities. Amino acid residues, which are located at the...
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Prioritization of Trypanosoma brucei editosome protein interactions interfaces at residue resolution through proteome-scale network analysis
BackgroundTrypanosoma brucei is the causative agent for trypanosomiasis in humans and livestock, which presents a growing challenge due to drug...
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Rhizosphere-induced shift in the composition of bacterial community favors mineralization of crop residue nitrogen
AimsIn agricultural systems, residue amendment is an important practice for nutrient management, but the role of microbes in mineralization of crop...
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Molecular resha** of phage-displayed Interleukin-2 at beta chain receptor interface to obtain potent super-agonists with improved developability profiles
Interleukin-2 (IL-2) engineered versions, with biased immunological functions, have emerged from yeast display and rational design. Here we reshaped...
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Ethanol Production from Corncob Assisted by Polyethylene Glycol and Conversion of Lignin-Rich Residue into Lignosulfonate and Phenolic Acids
The economic competitiveness of 2G-bioethanol technology should improve through the improvement of the sugar release and the valorization of...
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Modeling surface residue decomposition and N release using the Cover Crop Nitrogen Calculator (CC-NCALC)
Optimal utilization of cover crop (CC) residues in conservation tillage systems require fast-running crop-soil simulation models that can accurately...
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Development of IoT-Based Platform for Biomass Utilization Toward Low-Carbon Economic Society: Case of Oil Palm Residue
The global effort to mitigate the climate change effect leads to the transformation of society toward a low-carbon economy. Biomass residue has been...
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A novel interface between the N-terminal and coiled-coil domain of STAT1 functions in an auto-inhibitory manner
BackgroundSTAT1 is an intracellular signaling molecule that is crucially involved in the regulation of the innate immune system by activation of...
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Different contributing processes in bacterial vs. fungal necromass affect soil carbon fractions during plant residue transformation
AimsRecent research has suggested that microbial necromass has a disproportionate influence on soil organic C accumulation. But few field studies...
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A unique hyperdynamic dimer interface permits small molecule perturbation of the melanoma oncoprotein MITF for melanoma therapy
Mi crophthalmiat ranscriptionf actor (MITF) regulates melanocyte development and is the “lineage-specific survival” oncogene of melanoma. MITF is...
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Rinmaker: a fast, versatile and reliable tool to determine residue interaction networks in proteins
BackgroundResidue Interaction Networks (RINs) map the crystallographic description of a protein into a graph, where amino acids are represented as...
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Integrated structure-based protein interface prediction
BackgroundIdentifying protein interfaces can inform how proteins interact with their binding partners, uncover the regulatory mechanisms that control...
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D3PM: a comprehensive database for protein motions ranging from residue to domain
BackgroundKnowledge of protein motions is significant to understand its functions. While currently available databases for protein motions are mostly...
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The structure of a tetrameric septin complex reveals a hydrophobic element essential for NC-interface integrity
The septins of the yeast Saccharomyces cerevisiae assemble into hetero-octameric rods by alternating interactions between neighboring G-domains or N-...
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Effect of calcium ions on the interaction of alkaline minerals with dissolved organic matter: Implications for organic carbon sequestration in bauxite residue
PurposeThe interaction of minerals and organic matter significantly affects the stability of organic carbon, which is key to the rehabilitation of...
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A Novel Index of Contact Frequency from Noise Protein–Protein Interaction Data Help for Accurate Interface Residue Pair Prediction
Protein–protein interactions are important for most biological processes and have been studied for decades. However, the detailed formation mechanism...
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Ratio of Hydrophobic–Hydrophilic and Positive–Negative Residues at Lipid–Water-Interface Influences Surface Expression and Channel Gating of TRPV1
During evolution, TRPV1 has lost, retained or selected certain residues at Lipid–Water-Interface (LWI) and formed specific patterns there. The ratio...
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Wheat Growth-Induced Changes in Phosphorus Pools in the Crop Residue Detritusphere Are Influenced by Residue C/P Ratio
This experiment was carried out to elucidate the effect of residue C/nutrient ratio on P pools and N availability in wheat rhizosphere. The...
