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Phosphorylation-mediated signal transduction in eukaryotes is a key regulator of protein function and likely has a pivotal role inLeishmaniadifferentiation considering the changes reported for protein phosphorylation in different life cycle stages9.Leishmaniahas 195 eukaryotic protein kinases (ePKs) divided in...
Proteins are the main agents ofbiological function. Indeed, proteins control molecular and cellular mechanisms and, thus, determine healthy and diseased states of organisms. However, they are not functional in isolated forms but they interact with each other and with other molecules (e.g., DNA an...
function. All enzymes identified thus far are proteins. Enzymes, which are thecatalystsof all metabolic reactions, enable an organism to build up the chemical substances necessary for life—proteins,nucleic acids, carbohydrates, andlipids—to convert them into other substances, and to degrade them. ...
5) Function to Sequence CNN-based • VAE-based • GAN-based • Transformer-based • Bayesian method • Reinforcement Learning • Flow-based • RNN-based • LSTM-based • Autoregressive • Boltzmann machine • Diffusion-based • GNN-based • Score-based 6) Function to ...
function is dependent on LEDGF. Moreover, formation of such protein complex can stabilize and protect MLL1 from ubiquitination and proteasome-mediated degradation [42]. Table1summarizes the binding affinity (dissociation constantKd), availability of the X-ray/NMR structures and inhibitors of these ...
that uses a bilinear function to generate compound and protein attentions for inferring their interaction sites (Gao et al., 2018), as well as a soft alignment matrix for inferring the pairwise interactions, and the separate and joint attentions proposed in DeepAffinity (Karimi et al., 2019) ...
For example, protein P1 interacts with protein P2 to form a protein complex [P1P2] and perform a biological function. In our study, we need to assess the abundance of protein complex [P1P2] formed by the protein-protein interaction between protein P1 and protein P2. By the law of mass ...
and they carry out important and diverse functional roles in the cell directly facilitated by their lack of structure. Despite their prevalence and critical roles in function and disease, IDRs do not fit neatly in the structure-function paradigm and remain outside the capabilities of structure-based...
Deciphering the relationship between a gene and its genomic context is fundamental to understanding and engineering biological systems. Machine learning has shown promise in learning latent relationships underlying the sequence-structure-function paradig