| Biol 591 |
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Fall 2002
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Scenario
3: Comparison of protein sequence against database
How to run the DG47 amino acid sequence through Blast
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| Go to http://www.ncbi.nlm.nih.gov/ | This is the National Center for Biological Information (NCBI) site, home of Blast and much else. Why not bookmark it? |
| Click on the Blast on the blue bar near the top | |
| Click in the Standard protein-proetin BLAST [blastp] under Protein BLAST | There many flavors of Blast, depending on what kind of sequence you have (DNA or protein) and what you want to compare it against (DNA or protein). PHI-Blast and PSI-Blast are very useful variants, which we may discuss later. |
| Paste the DG47 amino acid sequence into the Search box. If you don't have the sequence, get it now by clicking here | Make up a header line (beginning >), to give Blast something by which to refer to your sequence. |
| Click the Blast button. | This will bring you to a new page. Check the Query= line near the top. It should tell you that there are 63 letters. Note the time estimate below the Format button. |
| Click the Format button. | This will open up a new window, which will refresh itself until Blast is ready with the output.. |
| When the output arrives, scroll down to the box below Distribution of n Blast Hits... for results in graphical form and further down for results in text form. | Same graphical and text formats as with BlastN. |
| Congratulate self | You're done! |