… : binding mode prediction, also known as geometry optimization, and … MHC-II allotype can
bind to different portions of the same … of Ab initio predictions of peptide binding to MHC class II …

… geometry prediction of pMHC complexes, considering different peptide lengths and MHC
allotypes… With the aim of developing a general tool for de novo pMHC geometry prediction, in …

… 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 …

… These methods are also known as “ab initio” methods … (C) Overlay of two complex models
showing different main-chain … (D) Overlay of two complex models showing different main-chain …

… 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, …

… the presentation of a diverse array of antigenic peptides (3). … In addition, 1-class ab initio
reconstruction followed by an … real space with secondary structure and geometry restraints (44). …

… [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 …