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: 5245
Probe sequence ID : T0258
Probe sequence len : 201
Probe divergence : 0.683
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
hs1tika 201 350 602 38.18 40.78 00 CERTAIN Alignment NADHdh_2 273 -21 325 26.35 28.88 00 CERTAIN Alignment hsd1d4aa 273 -25 315 24.46 26.97 00 CERTAIN Alignment hs1rlia 156 -14 199 14.74 17.40 00 CERTAIN Alignment hs1t0ia 185 -4 218 13.71 16.43 00 CERTAIN Alignment hs1e5da 401 -56 93 12.68 15.39 33 CERTAIN Alignment hs1sqsa 228 -101 178 12.11 14.76 00 CERTAIN Alignment hs1nni1 165 -65 149 10.46 13.12 00 CERTAIN Alignment hs1uxoa 184 -188 67 3.98 6.56 00 MARGINAL Alignment hsd1brma1 146 -106 56 3.70 6.11 00 MARGINAL 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 hs1tika aa ma mh hh aa ma mh hh aa ma mh hh CERTAIN PDB Chime 38.18 NADHdh_2 aa ma mh hh aa ma mh hh aa ma mh hh CERTAIN PDB Chime 26.35 hsd1d4aa aa ma mh hh aa ma mh hh aa ma mh hh CERTAIN PDB Chime 24.46 hs1rlia aa ma mh hh aa ma mh hh aa ma mh hh CERTAIN PDB Chime 14.74 hs1t0ia aa ma mh hh aa ma mh hh aa ma mh hh CERTAIN PDB Chime 13.71 hs1e5da aa ma mh hh aa ma mh hh aa ma mh hh CERTAIN PDB Chime 12.68 hs1sqsa aa ma mh hh aa ma mh hh aa ma mh hh CERTAIN PDB Chime 12.11 hs1nni1 aa ma mh hh aa ma mh hh aa ma mh hh CERTAIN PDB Chime 10.46 hs1uxoa aa ma mh hh aa ma mh hh aa ma mh hh MARGINAL PDB Chime 3.98 hsd1brma1 aa ma mh hh aa ma mh hh aa ma mh hh MARGINAL PDB Chime 3.70Keys
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