These data indicate that the Roc2 NH2-terminus confers strong binding preference to Cul5, and that the Roc1a RING domain contributes somewhat to the selection of Cul1 and Cul3.
However, receptor binding specificity data have shown that classical swines preferentially recognized NeuAcα2-6Gal [16], [17], [16], [17] and that avian-like swine switched their binding preference to NeuAcα2-6Gal over time [14], [15], [16].
This result is consistent with the commonly accepted notion that structurally related TFs may have similar binding preference to DNA sequences, since the hierarchical clustering performed was solely based on the binding preference information (PFMs).
The observation that apoE4 better co-localized with parenchymal CAA than plaques was not likely due to its higher binding preference to Aβ40 over Aβ42.
Finally, we asked whether KLF4 binding preferences to both methylated and unmethylated motifs that we identified in vitro reflect sequences preferred in vivo.
Together, these observations demonstrated the presence of 14 independent mono-phosphorylated Rb isoforms that are present in early G1 phase and showed that each has differential binding preferences to E2F family members.
As Lsm2-3-Pat1C complex showed an even stronger activity than Lsm1-7-Pat1C complex in decapping stimulation and exhibited a RNA-binding preference similar to that of Lsm1-7-Pat1C complex, we set out to solve the crystal structure of the Lsm2-3-Pat1C complex at a resolution of 3.15 Å.
Kpna1, which belongs to the same group as Kpna6, showed a similar binding preference except that it weakly bound ΔNLS45.
The MAL binding preference seemed to be more important than that of MAH in this CIRES prediction based on MAM staining and flow cytometry.
Taken together, our TAP, ERAP, and CTL-recognition data suggest that proteasomal digestion preferences often produce fragments that accommodate TAP binding preferences, that most epitope precursors are transported well into the ER, that a fraction is trimmed to shorter epitope precursors and optimal epitopes and that patients can recognize a variety of epitope-peptide forms.
