Proteins sequence alignment

FIGURE 3-30 Aligning protein sequences with the use of gaps. subtilis. Introduction of a gap in the B. subtilis sequence allows a bet-Shown here is the sequence alignment of a short section of the EF-Tu ter alignment of amino acid residues on either side of the gap. Iden-... 

FIGURE 3-30 Aligning protein sequences with the use of gaps. 

Before one aligns protein sequences, it is prudent to inspect the target and template sequences because one often finds the sequence of the template structure to be different from that obtained by ExPASy. These differences... 

Gap A break in a DNA or protein sequence which enables two or more sequence to be aligned... 

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The aim of the fust dimension breadth is to reveal sequence-function relationships by comparing protein sequences by sequence similarity. Simple bioinformatic algorithms can be used to compare a pair of related proteins or for sequence similarity searches e.g., BLAST (Basic Local Alignment Search Tool). Improved algorithms allow multiple alignments of larger number of proteins and extraction of consensus sequence pattern and sequence profiles or structural templates, which can be related to some functions, see e.g., under http //www. expasy.ch/tools/ similarity. 

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