The sequences of two cAMP regulatory transcription factors were compared using the BLAST alignment program from NCBI. The results below show the sequences from Escherichia coli (the Query sequence) and Methylobacterium extorquens (the Sbjct sequence). The BLAST "hit" compares residues 190-369 of the E. coli protein and residues 64-242 of the M. extorquens protein. Amino acid sequence identity is revealed by letters in the middle row; mismatches are spaces between the rows; and substitutions of similar amino acids are shown as a "+" in the middle row. Take a look at these "positives" as they are called in the BLAST output. Rationalize these positives based on your knowledge of Rgroup chemistry (recall the Venn diagram you made in Chapter 4).

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Sbict 64 EGFACRIRLRENGAROIMAYLVPGDVODLDNGALNRMDHTVGILSTCRVARIMPE-TARE 122 Query 250 LHHPOTARALRKNTLVDEATLREWLNVGRRSSVERMAHLFCELLLRERAVGLAPEDSY 309 Sbjct 123 LRQHEALARGIRKAALIDEAI-REI L-NIGERS AVERLAHLFCELLT RLRAVGLTSGNSY 182 uery 310 PLPLTQADLADITGIISVHVSRSLKELROGGLIELOGGRLKILDYARLRALAEERANYLH 369 Sbict 183 ELPITOLDLADITGMTSVHVNRSLGELKREGLIERKSKRLTLCDPARLAEVAEERPDYLH 242