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Peptides encoding potential HLA-binding motifs were derived from the orthopoxvirus genes, D8L, A27L, and C12L (the IL-18-binding protein [vIL18BP105]), all of which are preserved among poxviruses that infect humans, and which may be a target of host immunity.
From the 28 identified motifs, clusters of similar motifs were derived based on sequence similarity (many of the shorter motifs were contained within longer motifs).
B2, on the other hand, was limited to the nine Eurotiales from which the motifs were derived plus a lower confidence match with Tstip.
For mAbs 3074 [31], 2557 [3791 3791 (X-P Kong, personal communication), 537 [32], and 268 [31], the motifs were derived from crystal structures of these mAbs complexed with various V3 loop peptides (Table 1).
Weblogos summarizing the consensus motifs were derived using MEME.
Non-redundant SSR motifs were derived from 32,421 uniESTs.
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The score is invitingly lyrical, but not unsophisticated: many of its themes and recurring motifs are derived from 12-tone rows.
The most intensively studied motifs are derived from the consensus repeats of elastin and silk, as well as coiled-coil helices.
Consensus motifs are derived based on the retained sequences and can be used for predictions of potential ligands in a target proteome [ 16].
The logarithm of the E-value [61] [63] is used as the fitness score for the spaced dyad from which the motif is derived.
This TOS motif is derived from the conservation observed in the 4E-BP translatinitiationtion factors and the S6K1, S6K2 kinases and shows a strong beta amphipathicity.
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