HMMER hmmscan (SOAP) SOAP

Scan a database of HMM protein signatures (e.g. Pfam or TreeFam) with a protein sequence.

Scan a database of HMM protein signatures (e.g. Pfam or TreeFam) with a protein sequence.

This service does not require a license but should be used according to EMBL-EBI’s policies http://www.ebi.ac.uk/about/terms-of-use

Free.

E-mail supplied for submission must be a valid e-mail address and no more than 30 concurrent jobs should be submitted at any one time, see http://www.ebi.ac.uk/Tools/webservices/ and the EMBL-EBI Terms of Use: http://www.ebi.ac.uk/about/terms-of-use

EMBL-EBI support: http://www.ebi.ac.uk/support/WebServices

Goujon M., McWilliam H., Li W., Valentin F., Squizzato S., Paern J. and Lopez R. (2010) “A new bioinformatics analysis tools framework at EMBL-EBI.” Nucleic Acids Res. 38:W695-9 PMID: 20439314 (http://europepmc.org/abstract/MED/20439314) DOI: 10.1093/nar/gkq313 (http://dx.doi.org/10.1093/nar/gkq313)

Eddy S.R. (2011) “Accelerated Profile HMM Searches” PLoS Computational Biology 7(10):e1002195 PMID: 22039361 (http://europepmc.org/abstract/MED/22039361) DOI: 10.1371/journal.pcbi.1002195

McWilliam H., Li W., Uludag M., Squizzato S., Park Y.M., Buso N., Cowley A.P. and Lopez R. (2013) “Analysis Tool Web Services from the EMBL-EBI” Nucleic Acids Res. 41(Web Server issue):W597-600 PMID: 23671338 (http://europepmc.org/abstract/MED/23671338) DOI: 10.1093/nar/gkt376