We now offer HHblits v3.0.0 and the new Uniclust30 database.

HHblits - Homology detection by iterative HMM-HMM comparison

Paste protein sequence or MSA
Search with pancreatitis induced protein PIP49.
or upload a local file
Select alignment format
Match state assignment
(For A2M/A3M format the match assignment of the input is used.)
 

Select HMM database
Standard
Max. iterations
Alignment mode
 local  global 
MAC realignment threshold
(0.0:global, >=0.1:local)
 
Job-ID
 (leave empty for automatic creation)
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Alva V., Nam SZ., Söding J., Lupas AN. (2016) The MPI bioinformatics Toolkit as an integrative platform for advanced protein sequence and structure analysis. Nucleic Acids Res. pii: gkw348. [Epub ahead of print] PMID: 27131380
Remmert M., Biegert A., Hauser A., Söding J. (2011) HHblits: Lightning-fast iterative protein sequence searching by HMM-HMM alignment. Nat Methods. 9(2):173-5. doi: 10.1038/nmeth.1818. PMID: 22198341