Con-Struct Map
A Graphical Tool for Comparative Contact Map Analysis
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Title of this job:
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The title will identify this job to you later. Make it descriptive.
Your email address (optional):
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If you provide an email address, you will be sent an email when this job is finished.
Select the type of structure alignment:
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CE-MC alignment performed by the server
User provided alignment
If you would prefer to provide your own alignment data, choose the bottom option here, and provide your data in the form of a file in the Joy input format below.
Server Alignment (CE-MC) Options
Please enter the PDB IDs to align (maximum 10 structures, space-delimited):
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Structures will be aligned with CE-MC, a multiple structure alignment algorithm.
At this time, we must limit you to 10 structures for server alignments.
Please note that the more structures you specify, the longer the Con-Struct Map tool will take to load.
User Provided Alignment Options
Joy input format alignment file (sample:
here
)
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Please provide your alignment in joy input format. For more information, please see the "Format of the alignment file" section
in the Joy manual
Con-Struct Map Options
Reference structure:
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The contact map of this structure will be compared with the contact maps of other structures.
If you chose to allow the server to perform the alignment for you, this structure will be one of the structures you specified above.
If you chose to do your own alignment above, this will be one of the structures in the alignment file that you provided.
Select the type of atom to calculate distance between residues:
Alpha Carbon
Beta Carbon
Distance cut off (4.0Å to 12.0Å):
Degree of conservation: show contacts shared by at least a certain number of structures:
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This can be any number between 1 and the number of structures (inclusive).