Solution state structure of pB1, the mimotopic peptide of apolipoprotein B-100, by NMR

Abstract

Apolipoprotein B-100 (Apo-B100) is a major protein component for low density lipoproteins (LDL). A number of mimetic peptides of Apo-B100 were screened from the phase-displayed random peptide library by utilizing monoclonal antibody (B9). Mimetic peptide for B9 epitope against apo B-100 was CRNVPPIFNDVYWIAF (pB1). From the BLAST search, the mimetic peptide pB1 had 40 % homology with apo B-100. As a result of the structural determination of this mimotope using homo/hetero nuclear 2D-NMR techniques and NMR-based distance geometry (DG) / molecular dynamic (MD) computations, DG structure had low penalty value of 0.3~0.6 Å2 and the total RMSD was 0.5~1.5 Å.