Solution State Structure of pB1, the Mimotopic Peptide of Apolipoprotein B-100, by NMR

Abstract

Apolipoprotein B-100 (Apo-B 100) 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 (pB 1). From the BLAST search, the mimetic peptide pBl 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 A 2 and the total RMSD was 0.5-1.5 A. Moreover, pB 1 structure included a weak 3 1 0 -helix from Ile 7 to Trp13.