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A5 The leftmost panel shows the total mass of the protein in Daltons. The button next to it shows whether it is the average mass (Av. – blue) or monoisotopic mass (Mo. – red). You can change the mass type by clicking on the Av./Mo. button.
The next two panels from the left can show either of two states:
A6 If no peptide is selected the mass of the amino acid under the cursor (i.e. the residue mass + 18 Da) will be displayed in the left-hand panel and the right-hand panel will show the residue number (if the protein is a multi-chain protein, the first chain will be labeled ‘a’, the second ‘b’ etc (i.e. 80b is residue number 80 in the second chain counting from the N-terminus).
A9 Line distance. When the button is pressed, the distance between the sequence lines will be increased for easier viewing.
It is also possible to highlight individual residues. This is done through the ‘Modify residue dialog’ (double-click on a residue and click on one of the colored frames at the bottom of the dialog box).
The following description is based on Microsoft Internet Explorer, most most other browsers work similarly.
Point your browser to the location above (double click on the link) and a list of files on the FTP server is displayed. Right-click on the file named clustalw1.83.DOS.zip and select ‘Copy to folder...’ from the menu. Select an appropriate directory, copy and decompress the file.
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