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ConSurf Quick Analysis Procedure
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# Check '''No''' you do not have a Multiple Sequence Alignment (MSA) to upload. | # Check '''No''' you do not have a Multiple Sequence Alignment (MSA) to upload. | ||
# Don't worry, you can leave all the settings that appear now at their defaults. | # Don't worry, you can leave all the settings that appear now at their defaults. | ||
| - | + | ::-If you want the server to return your result quickly, reduce ''Maximum homologs to collect'' from 150 to 75. | |
# '''Enter your email address''' in the bottom slot! This avoids losing the result and having to do it over. | # '''Enter your email address''' in the bottom slot! This avoids losing the result and having to do it over. | ||
Revision as of 22:31, 6 February 2016
Here is a quick procedure for coloring a protein molecule by evolutionary conservation. This procedure does not necessarily give the highest quality result, but will give you a preliminary result that is often sufficient. If you wish to take it further, see Limiting ConSurf Analysis to Proteins of a Single Function.
- Go to the ConSurf Server.
- Check Amino Acids.
- Check Yes there is a known protein structure.
- Enter your PDB code and click the Next button.
- Choose one chain from the pull-down Chain Identifier menu. (ConSurf can only analyze one chain at a time.)
- Check No you do not have a Multiple Sequence Alignment (MSA) to upload.
- Don't worry, you can leave all the settings that appear now at their defaults.
- -If you want the server to return your result quickly, reduce Maximum homologs to collect from 150 to 75.
- Enter your email address in the bottom slot! This avoids losing the result and having to do it over.
