0513 Effect of γ radiation on physicochemical properties, protein-protein interaction, and microstructure of whey proteins

2016 ◽  
Vol 94 (suppl_5) ◽  
pp. 246-246
Author(s):  
M. Guo ◽  
X. Wang ◽  
F. Lee ◽  
J. Lv ◽  
D. Zhang
Keyword(s):  
Physicochemical Properties ◽  
Protein Interaction ◽  
Whey Proteins ◽  
Γ Radiation ◽  
Protein Protein Interaction

scholarly journals Quantitative Estimate of Protein-Protein Interaction Targeting Drug-likeness

2021 ◽  
Author(s):  
Takatsugu Kosugi ◽  
Masahito Ohue
Keyword(s):  
Physicochemical Properties ◽  
Protein Interaction ◽  
Quantitative Estimate ◽  
Early Stage ◽  
Assessment Method ◽  
Early Screening ◽  
Protein Protein Interaction ◽  
Approved Drugs ◽  
Fda Approved Drugs ◽  
Discriminatory Performance

The quantification of drug-likeness is very useful for screening drug candidates. The quantitative estimate of drug-likeness (QED) is the most commonly used quantitative drug efficacy assessment method proposed by Bickerton <i>et al</i>. However, QED is not considered suitable for screening compounds that target protein-protein interactions (PPI), which have garnered significant interest in recent years. Therefore, we developed a method called the quantitative estimate of protein-protein interaction targeting drug-likeness (QEPPI), specifically for early-stage screening of PPI-targeting compounds. QEPPI is an extension of the QED method for PPI-targeting drugs and developed using the QED concept, involving modeling physicochemical properties based on the information available on the drug. QEPPI models the physicochemical properties of compounds that have been reported in the literature to act on PPIs. Compounds in iPPI-DB, which comprises PPI inhibitors and stabilizers, and FDA-approved drugs were evaluated using QEPPI. The results showed that QEPPI is more suitable for the early screening of PPI-targeting compounds than QED. QEPPI was also considered an extended concept of "Rules of Four" (RO4), a PPI inhibitor index proposed by Morelli <i>et al</i>. To compare the discriminatory performance of QEPPI and RO4, we evaluated their discriminatory performance using the datasets of PPI-target compounds and FDA-approved drugs using F-score and other indices. Results of the F-score of RO4 and QEPPI were 0.446 and 0.499, respectively. QEPPI demonstrated better performance and enabled quantification of drug-likeness for early-stage PPI drug discovery. Hence, it could be used as an initial filter for efficient screening of PPI-targeting compounds, which has been difficult in the past.<br>

Analysis of physicochemical properties of protein-protein interaction modulators suggests stronger alignment with the “Rule-of-Five”

2021 ◽  
Author(s):  
Jia Truong ◽  
Ashwin George ◽  
Jessica Holien
Keyword(s):  
Physicochemical Properties ◽  
Protein Interaction ◽  
Protein Interactions ◽  
Protein Protein Interactions ◽  
Protein Protein Interaction ◽  
Recent Advances

Despite the important roles played by Protein-Protein Interactions (PPIs) in disease, they have been long considered as ‘undruggable’. However, recent advances have suggested that the PPIs are druggable but may...

scholarly journals Quantitative Estimate of Protein-Protein Interaction Targeting Drug-likeness

2021 ◽  
Author(s):  
Takatsugu Kosugi ◽  
Masahito Ohue
Keyword(s):  
Physicochemical Properties ◽  
Protein Interaction ◽  
Quantitative Estimate ◽  
Early Stage ◽  
Assessment Method ◽  
Early Screening ◽  
Protein Protein Interaction ◽  
Approved Drugs ◽  
Fda Approved Drugs ◽  
Discriminatory Performance

The quantification of drug-likeness is very useful for screening drug candidates. The quantitative estimate of drug-likeness (QED) is the most commonly used quantitative drug efficacy assessment method proposed by Bickerton <i>et al</i>. However, QED is not considered suitable for screening compounds that target protein-protein interactions (PPI), which have garnered significant interest in recent years. Therefore, we developed a method called the quantitative estimate of protein-protein interaction targeting drug-likeness (QEPPI), specifically for early-stage screening of PPI-targeting compounds. QEPPI is an extension of the QED method for PPI-targeting drugs and developed using the QED concept, involving modeling physicochemical properties based on the information available on the drug. QEPPI models the physicochemical properties of compounds that have been reported in the literature to act on PPIs. Compounds in iPPI-DB, which comprises PPI inhibitors and stabilizers, and FDA-approved drugs were evaluated using QEPPI. The results showed that QEPPI is more suitable for the early screening of PPI-targeting compounds than QED. QEPPI was also considered an extended concept of "Rules of Four" (RO4), a PPI inhibitor index proposed by Morelli <i>et al</i>. To compare the discriminatory performance of QEPPI and RO4, we evaluated their discriminatory performance using the datasets of PPI-target compounds and FDA-approved drugs using F-score and other indices. Results of the F-score of RO4 and QEPPI were 0.446 and 0.499, respectively. QEPPI demonstrated better performance and enabled quantification of drug-likeness for early-stage PPI drug discovery. Hence, it could be used as an initial filter for efficient screening of PPI-targeting compounds, which has been difficult in the past.<br>

An efficient transient assays system using Agrobacterium-mediated transformation of onion (Allium cepa) epidermal cells

2020 ◽  
Vol 80 (03) ◽  
Author(s):  
Yu-Miao Zhang ◽  
Jun Wang ◽  
Tao Wu
Keyword(s):  
Subcellular Localization ◽  
Protein Interaction ◽  
Protein Interactions ◽  
Epidermal Cells ◽  
Cyclin Dependent Kinase ◽  
Protein Subcellular Localization ◽  
Protein Protein Interactions ◽  
Efficient System ◽  
Protein Protein Interaction ◽  
Onion Epidermal Cells

In this study, the Agrobacterium infection medium, infection duration, detergent, and cell density were optimized. The sorghum-based infection medium (SbIM), 10-20 min infection time, addition of 0.01% Silwet L-77, and Agrobacterium optical density at 600 nm (OD600), improved the competence of onion epidermal cells to support Agrobacterium infection at >90% efficiency. Cyclin-dependent kinase D-2 (CDKD-2) and cytochrome c-type biogenesis protein (CYCH), protein-protein interactions were localized. The optimized procedure is a quick and efficient system for examining protein subcellular localization and protein-protein interaction.

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