During evolutionary process, different regions of proteins are constrained differently; the regions critical for functional and structural integrity are well preserved, while the rest of the structure can diversify to accommodate insertions, deletions and substitutions [9], [10].
Loops or coils accommodate insertions or deletions more easily than alpha-helices or beta-strands.
Flexibility of these regions can vary from subtle local conformational variation to large changes in orientations of the regions to accommodate insertions (5).
Finally, the delivery system must also be able to accommodate the insertion of large antigenic sequences to enable broad MHC coverage.
Using an integer programming framework, our method refines predicted secondary structures (i.e. removes incorrect canonical base pairs) to accommodate the insertion of RNA 3D motifs (i.e. hairpins, internal loops and k-way junctions).
In the context of the cluster model of lipid apolipoprotein association, this is likely due to the size distribution of defects in the DMPC surface; all defects that can accommodate the insertion of apo A-II can also accommodate rcm apo A-II.
We engineered the HI loop of Ad19p to accommodate peptide insertions and clones.
The viruses can be readily manipulated, accommodate large insertions of foreign DNA, initiate little to no microscopically observable cytopathic effect in mammalian cells and have a good biosafety profile.
Finally, to accommodate motif insertions RNA-MoIP can remove base pairs.
The capacity of the RSV glycoprotein to accommodate large insertions and remain functional was first demonstrated with the RSV B, BA genotype (Buenos Aires, Argentina 1999).
