FUGUE v2.s.07 (01 Apr 2003)
Search sequence(s) against fold library using environment-specific
substitution tables and structure-dependent gap penalties.
Fold library and substitution tables are based on the HOMSTRAD database.
http://www-cryst.bioc.cam.ac.uk/~homstrad/
FUGUE server is available at:
http://www-cryst.bioc.cam.ac.uk/~fugue/
http://www-cryst.bioc.cam.ac.uk/~fugue/prfsearch.html
Citation:
J. Shi, T. L. Blundell and K. Mizuguchi (2001), J Mol Biol, 310(1), 243-57
Size of fold library: 5694
Probe sequence ID : nuoC-brucella
Probe sequence len : 202
Probe divergence : 0.604
Recommended cutoff : ZSCORE >= 6.0 (CERTAIN 99% confidence)
Other cutoff : ZSCORE >= 4.0 (LIKELY 95% confidence)
Other cutoff : ZSCORE >= 3.5 (MARGINAL 90% confidence)
Other cutoff : ZSCORE >= 2.0 (GUESS 50% confidence)
Other cutoff : ZSCORE < 2.0 (UNCERTAIN)
PLEN : Profile length
RAWS : Raw alignment score
RVN : (Raw score)-(Raw score for NULL model)
ZSCORE : Z-score normalized by sequence divergence
ZORI : Original Z-score (before normalization)
AL : Alignment algorithm used for Zscore/Alignment calculation
0 -- Global, 2 -- GloLocSeq (No sequence termini gap penalty)
3 -- GloLocPrf (No profile termini gap penalty)
The sequence(s) you submitted is HERE (in original format).
The sequence(s) actually used by FUGUE is HERE (in PIR format).
Download all the results in compressed format HERE. new!
View Ranking (Click on a profile hit will bring you to the corresponding HOMSTRAD family)
Profile Hit PLEN RAWS RVN ZSCORE ZORI AL
hs1h9fa 57 -130 14 2.24 4.30 02 GUESS Alignment hs1o70a 296 -364 50 2.23 4.81 00 GUESS Alignment hsd1tyfa 183 -110 77 2.12 3.85 00 GUESS Alignment Ribosomal_S8 138 -115 47 1.91 3.95 00 UNCERTAIN Alignment hs1cixa 44 -163 16 1.89 2.94 02 UNCERTAIN Alignment hs1l9va 313 -264 29 1.85 3.49 03 UNCERTAIN Alignment ANATO 74 -192 35 1.84 4.12 02 UNCERTAIN Alignment myb_DNA-binding 61 -153 13 1.78 4.09 02 UNCERTAIN Alignment hs1vpra 344 -353 30 1.75 3.24 03 UNCERTAIN Alignment hs1vpra 344 -353 30 1.75 3.24 03 UNCERTAIN Alignment
View Alignments (What do they mean -- aa, ma, mh, hh? See note at the bottom of the page.)
Hint: check 'ma' first if your query is a single sequence, otherwise start with 'aa'. Profile Hit HTML POSTSCRIPT TEXT(PIR FORMAT) Confidence View Model Z-score hs1h9fa aa ma mh hh aa ma mh hh aa ma mh hh GUESS PDB Chime 2.24 hs1o70a aa ma mh hh aa ma mh hh aa ma mh hh GUESS PDB Chime 2.23 hsd1tyfa aa ma mh hh aa ma mh hh aa ma mh hh GUESS PDB Chime 2.12 Ribosomal_S8 aa ma mh hh aa ma mh hh aa ma mh hh UNCERTAIN PDB Chime 1.91 hs1cixa aa ma mh hh aa ma mh hh aa ma mh hh UNCERTAIN PDB Chime 1.89 hs1l9va aa ma mh hh aa ma mh hh aa ma mh hh UNCERTAIN PDB Chime 1.85 ANATO aa ma mh hh aa ma mh hh aa ma mh hh UNCERTAIN PDB Chime 1.84 myb_DNA-binding aa ma mh hh aa ma mh hh aa ma mh hh UNCERTAIN PDB Chime 1.78 hs1vpra aa ma mh hh aa ma mh hh aa ma mh hh UNCERTAIN PDB Chime 1.75 hs1vpra aa ma mh hh aa ma mh hh aa ma mh hh UNCERTAIN PDB Chime 1.75Keys
aa: query sequences (including PSI-BLAST homologues) aligned against all the representative structures from a HOMSTRAD family ma: master sequence aligned against all the representative structures from a HOMSTRAD family mh: master sequence aligned against a single structure of highest sequence identity from a HOMSTRAD family hh: single sequence/structure pair with highest sequence identity in 'aa' Note: If your query is a single sequence, master sequence is equivelent to your query and all the other sequences (if any) are collected by PSI-BLAST. If your query is a sequence alignment, master sequence is set to the first sequence in the alignment.JOY Keys are described here
If you have any further questions, please write to Jiye Shi and Kenji Mizuguchi at fugue@cryst.bioc.cam.ac.uk