I have been given the task of protein sequence PSI BLASTing a histidine kinase in Vibrio Cholerae. I have to do two rounds of PSI BLAST and observe the top three hits in each. I noticed that these hits all start with "Vibrio Cholerae Histidine kinase" but after that they have different accession numbers e.g. EEO20674.1 vs WP_001121906. Also between the 1st and 2nd round of iterations the only hit that has remained is that with the accession number EEO20674.1(moving from 2nd to 1st best hit between the rounds). Does this mean that EEO20674.1 is likely to be the best distant related homologue for comparison or is the BLAST just reproducing redundant sequences (note the Identity rates is 100% for one of the top 3 in first round and 99% for the other 2 and 99% for all three in the 2nd round) between the hits?
Question: Common match hit between 1st and 2nd round PSI BLAST
3.4 years ago by
chrisclarkson100 • 50
chrisclarkson100 • 50 wrote:
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