DAP intro

Blastp

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• FASTA SEQUENCE FROM NCBI ENTREZ protein = 2IJZ_A

• Origin of query sequence = Pseudomonas aeruginosa

>gi|119390187|pdb|2IJZ|A Chain A, Crystal Structure Of Aminopeptidase

RAELNQGLIDFLKASPTPFHATASLARRLEAAGYRRLDERDAWHTETGGRYYVTRNDSSLIAIRLGRRSP LESGFRLVGAHTDSPCLRVKPNPEIARNGFLQLGVEVYGGALFAPWFDRDLSLAGRVTFRANGKLESR LVDFRKAIAVIPNLNIHLNRAANEGWPINAQNELPPIIAQLAPGEAADFRLLLDEQLLREHGITADVVLDYE LSFYDTQSAAVVGLNDEFIAGARLDNLLSCHAGLEALLNAEGDENCILVCTDHEEVGSCSHCGADGPFLE QVLRRLLPEGDAFSRAIQRSLLVSADNAHGVHPNYADRHDANHGPALNGGPVIKINSNQRYATNSETA GFFRHLCQDSEVPVQSFVTRSDMGCGSTIGPITASQVGVRTVDIGLPTFAMHSIRELAGSHDLAHLVKVLGA FYASSELP

•Performed blastp search against non-redundant (nr) databases which was provided on the CD provided. Query sequences used was Pseudomonas Aeruginosa chain A crystal structure of asparytl aminopeptidase. Initial sequence alignment was performed using ClustalX and edited to reduce gapping in the alignment. Final multiple sequence alignment was again performed with 38 sequences. Treeview32 software was used to view phylogenetic tree produced from multiple sequence alignment. A bootstrapped N-J tree was produced using Clustalx for branches reliability indications.

•as mentioned in the methods and website :

C:\blast\blastall -p blastp -d C:\blast\databases\nr -i yourfile.fasta -o usefuloutputname.html

Output obtained : file:///C:/aminopeptidase.html

• obtained fastaformat files C:\blast\fastacmd -d C:\blast\databases\nr -i filewith_img_numbers -o C:\newsequences.fasta