Welcome to the K2SA Homepage
K2SA SERVER WORKING AGAIN

Mon Jan 17 21:46:34 2004

The K2SA server is fully operational now.

K2SA is a protein structure alignment program based on K2. K2SA uses the same basic strategy as K2 but is about 100 times faster. This speed up is the result of
  • A fast simulated annealing technique that replaces the genetic algorithm.
  • Tighter code.
K2SA alignments should be as good as K2 alignments (or even better!). If you'd like, you can still run the old version of K2.

PLEASE NOTE: Be sure to use the 'Browse' buttons to locate the PDB files on your computer's hard drive. PDB codes alone will not work - you must have the appropriate files already on your computer to submit to the server.

Protein 1 (PDB file)  
Protein 2 (PDB file)  


impose sequential constraints
do not impose sequential constraints

Maximum number of annealing rounds. (Select a larger number for difficult alignments, a smaller number for easier alignments.)

Number of annealing restarts. (Select a larger number for difficult alignments, a smaller number for easier alignments.)

your email address

 

Please Note: This is a beta server. As such not all of the bugs have been worked out. If you experience any trouble, please let us know.


Looking for KENOBI? K2 has superceded it. Check the documentation page for further details.


Acknowledgements

This work was supported by NSF grant DBI#0078194.