National Institutes of Biomedical Innovation, Health and Nutrition Crystallography and Biocomputing Group

Department of Biochemistry, University of Cambridge

FUGUE (Ver 2.0) Profile Library Search Against (test)HOMSTRAD

Citation: Shi, J., Blundell, T. L. & Mizuguchi, K. (2001), J Mol Biol, 310(1), 243-57.

N.B. Please note that Fugue has been updated (since 2nd of May 2002) and consequently the recommended z-score cut-offs used are different from previous versions. Please do refer to the new set of cut-offs when verifying your result. (New cut-offs will be shown on the resulting page or resulting email sent to you.)

E-mail: (where the results will be sent to)

Password (registered user only - for future use):

Name of your sequence (optional):

Please upload your sequence file here:
Enter your amino acid sequence below.

Please select the type of your input sequence:
The input is a single sequence. Run PSI-BLAST to collect sequence homologues. (Recommended)
The input is a single sequence. Use this sequence directly without collecting any sequence homologues.
The input is a multiple sequence alignment.
For single sequence, please use FASTA or pure amino acid format.
For multiple sequence alignment, please use FASTA / NBRF / CLUSTAL / MSF format.

Don't bother to set more optional parameters? Click 'Search!' to submit NOW. (Recommended)

Please specify your favorite return message option.
Report top hits (must be less than 20)
Report hits with Z-score higher than (must be greater than 3.0)

Note: Z-scores > 6.0 are likely to indicate evolutionary relationships and/or common folds.

Additional options for advanced users.
Include CASP format output in the return E-mail.
Use only the query sequence to generate alignments.
Include alignments in the return E-mail (Not recommended since the E-mail might be large).
Ignore sequences collected by PSI-BLAST, which have less than % identity to the master sequence.
Search also against a representative set of PDB chains (slower and experimental - known as FUGUE3 (or FUGUE2.1) in CAFASP3) (This option is obsolete and disabled.)

Alignments in JOY format are always available online (highly recommended).
The web address of the alignments will be included in the return E-mail.

Thank you for your patience. It's time for the job.

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