Jessica Shapiro
Amit P. Singh
Douglas L. Brutlag
Bioinformatics Group
Stanford University


Click to run an example structural similarity search:   
 
Step 1:
Query
Enter PDB or SCOP code:
OR
Upload file:

Specify chain (if present):

Select a Target Database
Pairwise sequence identity less than or equal to
%
Hierarchy representatives at the
level
Scroll down to set options, or
(If you wish to be notified by email when your search is finished, please enter your email address at the bottom of the page.)

Step 2: Structural Similarity Search Options

Expectation Conservation Profile's Contribution to Recalculated SSE Scores
e
(Value must lie on the interval [0,1])
Scroll down to set additional options, or
(If you wish to be notified by email when your search is finished, please enter your email address at the bottom of the page.)

Step 3: Alignment Options

Numbering of Aligned Residues Distance Threshold
(for aligned residues)
Geometric Hashing
Permit non-sequential residue alignments Sequential numbering
Do not permit non-sequential residue alignments
Fewer Initial Superpositions
More Initial Superpositions

To be informed by email when your results are ready, enter your full email address below. If you leave this space blank, the results will appear on the following page as soon as they are available.

Email:




References:
Suggestions, comments, bugs to: Jessica Shapiro.