PredPRBA: Prediction of Protein-RNA Binding Affinity Using Gradient Boosted Regression Trees
Frontiers in Genetics, 2019 Protein-RNA interactions play essential roles in many biological aspects. Quantifying the binding affinity of protein-RNA complexes is helpful to the understanding of protein-RNA recognition mechanisms and identification of strong binding partners.
Lei Deng, Lei Deng, Wenyi Yang, Hui Liu
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Specific integrin alpha and beta chain phosphorylations regulate LFA-1 activation through affinity-dependent and -independent mechanisms [PDF]
, 2005 Integrins are adhesion receptors that are crucial to the functions of multicellular organisms. Integrin-mediated adhesion is a complex process that involves both affinity regulation and cytoskeletal coupling, but the molecular mechanisms behind this ...
Susanna C. Fagerholm +11 more
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New Journal of Physics, 2021 The specificity of molecular recognition is important for molecular self-organization. A prominent example is the biological cell where a myriad of different molecular receptor pairs recognize their binding partners with astonishing accuracy within a ...
Marc Schenkelberger +5 more
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Prediction of protein-ligand binding affinity with deep learning
Computational and Structural Biotechnology Journal, 2023 The prediction of binding affinities between target proteins and small molecule drugs is essential for speeding up the drug research and design process. To attain precise and effective affinity prediction, computer-aided methods are employed in the drug ...
Yuxiao Wang +5 more
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Interrogation of the protein-protein interactions between human BRCA2 BRC repeats and RAD51 reveals atomistic determinants of affinity [PDF]
, 2011 The breast cancer suppressor BRCA2 controls the recombinase RAD51 in the reactions that mediate homologous DNA recombination, an essential cellular process required for the error-free repair of DNA double-stranded breaks.
Rajendra, Eason +28 more
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Reversible domain closure modulates GlnBP ligand binding affinity
PLoS ONE, 2022 Glutamine binding protein (GlnBP) is an Escherichia Coli periplasmic binding protein, which binds and carries glutamine to the inner membrane ATP-binding cassette (ABC) transporter. GlnBP binds the ligand with affinity around 0.1μM measured by isothermal
Qun Chen +13 more
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Learning protein binding affinity using privileged information
BMC Bioinformatics, 2018 Background Determining protein-protein interactions and their binding affinity are important in understanding cellular biological processes, discovery and design of novel therapeutics, protein engineering, and mutagenesis studies.
Wajid Arshad Abbasi +3 more
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In silico analysis of correlation between physicochemical properties of ligands and binding affinity to protein targets [PDF]
, 2023 In silico analysis is a powerful technique to identify better therapeutic interventions. Molecular docking is widely used to screen ligands through analysing binding affinities for target receptors.
Md. Aktar, Hossain, Saima, Sultana
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High-throughput binding affinity calculations at extreme scales
BMC Bioinformatics, 2018 Background Resistance to chemotherapy and molecularly targeted therapies is a major factor in limiting the effectiveness of cancer treatment. In many cases, resistance can be linked to genetic changes in target proteins, either pre-existing or ...
Jumana Dakka +7 more
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Calcium Binds to Transthyretin with Low Affinity
Biomolecules, 2022 The plasma protein transthyretin (TTR), a transporter for thyroid hormones and retinol in plasma and cerebrospinal fluid, is responsible for the second most common type of systemic (ATTR) amyloidosis either in its wild type form or as a result of destabilizing genetic mutations that increase its aggregation propensity.
Cantarutti, C +8 more
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