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Examples of high, medium and lower quality loop CDR H3 modeling predictions from homology modeling simulations with VL-VH rigid-body minimization. Structures are superposed using the Cα atoms of the VH framework. (a) HyHEL-5 Fab (1jhl), CDR H3 loop length 9, global rmsd 1.1 Å (after superposition of VH); (b) jel42 Fab (2jel), CDR H3 loop length 9, global rmsd 1.4 Å; (c) antibody 2H1 (2h1p), CDR H3 loop length 11, global rmsd 1.7 Å.
