Based on a protein-protein docking approach we have developed a procedure to verify or falsify protein-protein interactions that were proposed by other methods such as yeast-2-hybrid assays. Our method currently utilizes intermolecular energies but can be expanded to incorporate additional terms such ...
Next challenges in protein-protein docking: From proteome to interactome and beyond. Wiley Interdis Rev: Comput Mol Sci 2012;2(4):642-51Melquiond ASJ, Karaca E, Kastritis PL, Bonvin AMJJ (2011) Next challenges in protein-protein docking: from proteome to interactome and beyond. WIREs ...
Protein-Protein Docking:蛋白质-蛋白质对接 热度: RESEARCHARTICLEOpenAccess Cotranslationalprotein-RNAassociationspredict protein-proteininteractions CaiaDSDuncanandJuanMata * Abstract Background:Mostcellularproteinsfunctionaspartofstableproteincomplexes.Werecentlyshowedthataround ...
Modeling a protein-protein docking interaction is generally more difficult than predicting the structure of an individual protein, and because of its complex nature, accuracy can be a concern.NovaDockoffers the ability to predict protein-protein docking interactions for any two binding partners utilizing...
Protein-protein interactions are a pivotal component of many biological processes and mediate a variety of functions. Knowing the tertiary structure of a protein complex is therefore essential for understanding the interaction mechanism. However, experim
Flexible protein-ligand docking by global energy optimization in internal coordinates. Proteins 215–220 (1997). 42. Lee, K. et al. LW6, a novel HIF-1 inhibitor, promotes proteasomal degradation of HIF-1 alpha via upregulation of VHL in a colon cancer cell line. Biochem Pharmacol 80, 982...
Flow chart of a protein–protein docking method.Figure was adapted from Terashi et al. (2005). 1. Benzene cluster (BC) fitting: The protein–protein interaction site (PPI site) is searched using "benzene cluster fitting," as reported in Komatsu et al. (2003). This method depends on the...
Protein-protein docking is an emerging research topic, due to its potential for predicting protein-protein interactions (PPIs) and identifying hot spot residues at the protein-protein interface. Although protein-protein docking shares the principles of protein-small molecule docking, sampling of the con...
et al. Harnessing protein folding neural networks for peptide–protein docking. Nat. Commun. 13, 176 (2022). Article Google Scholar Masters, M., Mahmoud, A. H., Wei, Y. & Lill, M. A. Deep learning model for efficient protein–ligand docking with implicit side-chain flexibility. J. ...
On the analysis of protein–protein interactions via knowledge‐based potentials for the prediction of protein–protein docking Development of effective methods to screen binary interactions obtained by rigid-body protein–protein docking is key for structure prediction of co... E Feliu,P Aloy,B Oliva...