Evolution of the B-Block Binding Subunit of TFIIIC That Binds to the Internal Promoter for RNA Polymerase III
Figure 2
Eukaryotic B-block binding subunits showing similarities in regions different from their authentic B-block_TFIIIC sites to archaeal B-block binding subunits. DELTA-BLAST searches were performed in the eukaryotic database (taxid: 2759) using the M. yellowstonensis, P. fumarii, M. conradii, and M. limicola sequences shown in Table 2 as queries and the phrase “B-block binding” as an Entrez query. The other conditions were set as the default. All of the displayed blast-hit alignments were examined by eye to identify proteins in which regions different from the authentic B-block_TFIIIC sites were detected. Eukaryotic subunits that had such alignments with -values lower than 0.05 are shown. The numbers in parentheses are GI numbers. The horizontal lines represent eukaryotic proteins, and the aa lengths are shown to the right. Small filled boxes represent the alignments between authentic B-block_TFIIIC sites. Small empty boxes are alignments in regions different from the authentic B-block_TFIIIC sites of eukaryotic proteins. Small grey boxes show authentic B-block_TFIIIC sites that were not detected by archaeal proteins. The aa positions of alignments in eukaryotic and archaeal sequences are shown below and above the boxes, respectively. -values of alignments are shown just above the boxes. -values are colored magenta when regions different from the authentic B-block_TFIIIC sites were detected at lower -values than the alignments of authentic regions in the same eukaryotic proteins. Because of limited space, the maximum number of proteins shown in each column of the eukaryotic groups against each query is four. More than four proteins were detected in some cases, and fewer or no proteins were detected in other cases. Although the proteins were principally picked up from the displayed alignments in order from the lowest to the higher -values, some disorders were taken for intelligible presentation in the text.
