… developed to predict peptide ligands of different MHC allotypes or the … to predict the binding
of a peptide to a given MHC molecule … geometries of the ligand at the protein surface (ie, the …

… RANKPEP [23] predicts the MHC class I-binding peptides using profile motifs by calculating
… NetMHCcons offers three options to predict peptide binding to different HLA allotypes. Each …

… : binding mode prediction, also known as geometry optimization, … 12 diverse peptides bound
to HLA-A*02:01, computed binding … of ab initio predictions of peptide binding to MHC class II …

… allotypes and (iii) post-translational modifications in the MHC … developed continuously to
predict peptides binding to MHC-I … statistics for the six different classes of SARS-CoV-2 epitopes …

… a known peptide template and approaches that follow an ab initio … sequence and the MHC
allotype, we predict the major … all the MHC templates that host a different MHC. Otherwise, …

… [2006] “Ab initio prediction of peptide-MHC binding geometry for diverse class I MHC
allotypes,” Proteins 63(3), 512–526. Berendsen, WFV and Berendsen, HJC [1988] “A leap-frog …

… that allow for varied structure-based analyses of peptide-HLA … geometry prediction of
peptide binding modes, peptide … The first, called APE-Gen (anchored peptide-MHC ensemble …

… strategies sample the peptide backbone ab initio, allowing for a … -binding groove, we
modeled different regular backbone … find that peptide backbone similarity is allotype-independent …

… The previous version of APE-Gen is using an abinitio, sampling … sequence and the MHC
allotype, we predict the major … all the MHC templates that host a different MHC. Otherwise, …

… predict the binding affinity of polypeptides with different MHC allotypes has proven to have a
fairly high prediction … , binding affinity, binding energy, affinity predicted values, and stability …