Sequence motifs using InterProScan
InterPro is a database of protein families, domains and functional
sites in which identifiable features found in known proteins can be
applied to unknown protein sequences.
The InterProScan script (obtained from ) is used to identify
motifs from the following sources:
- PROSITE patterns
- PROSITE profiles
- Smart HHMs
- Pfam HHMs
- TIGRFAM HHMs
- PIR SuperFamily
where "HHMs" are methods that employ Hidden Markov Models.
For full descriptions of the databases, see
The link below explains the results shown by ProFunc for motifs
matched by InterProScan.
Key to results
- Mulder NJ, Apweiler R, Attwood TK, Bairoch A, Barrell D, Bateman
A, Binns D, Biswas M, Bradley P, Bork P, Bucher P, Copley RR,
Courcelle E, Das U, Durbin R, Falquet L, Fleischmann W,
Griffiths-Jones S, Haft D, Harte N, Hulo N, Kahn D, Kanapin A,
Krestyaninova M, Lopez R, Letunic I, Lonsdale D, Silventoinen V,
Orchard SE, Pagni M, Peyruc D, Ponting CP, Selengut JD, Servant F,
Sigrist CJA, Vaughan R, Zdobnov EM (2003).
The InterPro Database, 2003 brings increased coverage and new
Nucl. Acids Res., 31, 315-318.
- Zdobnov EM and Apweiler R (2001).
InterProScan: an integration platform for the signature-recognition methods
Bioinformatics, 17, 847-848.