Identification of inhibitors for protein-protein interactions (PPIs) from high-throughput screening (HTS) is challenging due to the weak affinity of primary hits. We present a hit validation strategy of PPI inhibitors using quantitative ligand displacement assay. From an HTS for Bcl-xL/Mcl-1 inhibitors, we obtained a hit candidate, I1, which potentially forms a reactive Michael acceptor, I2, inhibiting Bcl-xL/Mcl-1 through covalent modification. We confirmed rapid reversible and competitive binding of I1 with a probe peptide, suggesting non-covalent binding. The advantages of our approach over biophysical assays include; simplicity, higher throughput, low protein consumption and universal application to PPIs including insoluble membrane proteins.
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http://dx.doi.org/10.1016/j.bmcl.2014.09.073 | DOI Listing |
Proc Natl Acad Sci U S A
January 2025
Computer Science and Artificial Intelligence Laboratory, Massachusetts Institute of Technology, Cambridge, MA 02139.
Protein language models (PLMs) have demonstrated impressive success in modeling proteins. However, general-purpose "foundational" PLMs have limited performance in modeling antibodies due to the latter's hypervariable regions, which do not conform to the evolutionary conservation principles that such models rely on. In this study, we propose a transfer learning framework called Antibody Mutagenesis-Augmented Processing (AbMAP), which fine-tunes foundational models for antibody-sequence inputs by supervising on antibody structure and binding specificity examples.
View Article and Find Full Text PDFComput Med Imaging Graph
January 2025
The Department of Computer and Data Science, Case Western Reserve University, Cleveland, OH, USA; The Department of Biomedical Engineering, Case Western Reserve University, Cleveland, OH, USA.
A generic and versatile CT Image Reconstruction (CTIR) scheme can efficiently mitigate imaging noise resulting from inherent physical limitations, substantially bolstering the dependability of CT imaging diagnostics across a wider spectrum of patient cases. Current CTIR techniques often concentrate on distinct areas such as Low-Dose CT denoising (LDCTD), Sparse-View CT reconstruction (SVCTR), and Metal Artifact Reduction (MAR). Nevertheless, due to the intricate nature of multi-scenario CTIR, these techniques frequently narrow their focus to specific tasks, resulting in limited generalization capabilities for diverse scenarios.
View Article and Find Full Text PDFMol Divers
January 2025
Department of Pharmacology, Manipal College of Pharmaceutical Sciences, Manipal Academy of Higher Education (MAHE), Manipal, 576104, India.
SH2 (Src Homology 2) domains play a crucial role in phosphotyrosine-mediated signaling and have emerged as promising drug targets, particularly in cancer therapy. STAT3 (Signal Transducer and Activator of Transcription 3), which contains an SH2 domain, plays a pivotal role in cancer progression and immune evasion because it facilitates the dimerization of STAT3, which is essential for their activation and subsequent nuclear translocation. SH2 domain-mediated STAT3 inhibition disrupts this binding, reduces phosphorylation of STAT3, and impairs dimerization.
View Article and Find Full Text PDFSensors (Basel)
December 2024
School of Mechanical Engineering and Automation, Northeastern University, Shenyang 110819, China.
This paper focuses on the design of vehicle trajectories and their control systems. A method based on quintic polynomials is utilized to develop trajectories for intelligent vehicles, ensuring the smooth continuity of the trajectory and related state curves under varying conditions. The construction of lateral and longitudinal controllers is discussed, which includes a tracking error model derived from the two-degree-of-freedom dynamic model of a two-wheeled vehicle and the application of the Frenet coordinate system transformation.
View Article and Find Full Text PDFCells
December 2024
In Vitro Toxicology and Biomedicine, Dept Inaugurated by the Doerenkamp-Zbinden Foundation, University of Konstanz, 78464 Konstanz, Germany.
Cell-based test methods with a phenotypic readout are frequently used for toxicity screening. However, guidance on how to validate the hits and how to integrate this information with other data for purposes of risk assessment is missing. We present here such a procedure and exemplify it with a case study on neural crest cell (NCC)-based developmental toxicity of picoxystrobin.
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