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 : t0233
Probe sequence len : 362
Probe divergence : 0.591
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
hs1khda 324 803 1074 57.96 60.20 00 CERTAIN Alignment thymid_phosphorylase 440 -37 435 23.07 25.50 00 CERTAIN Alignment hs1mt5a 537 -641 35 3.66 5.99 00 MARGINAL Alignment hs1ufoa 234 -296 87 3.43 5.99 02 GUESS Alignment hsd1nuba3 58 -308 30 3.09 4.56 02 GUESS Alignment hsd2sqca2 271 -283 55 3.05 5.36 00 GUESS Alignment hs1gl1i 34 -1 25 2.99 4.26 22 GUESS Alignment hs1l9va 313 -203 87 2.83 4.44 00 GUESS Alignment hsd1qusa 312 -273 67 2.68 5.03 00 GUESS Alignment Amidase 494 -551 76 2.61 4.74 00 GUESS 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 hs1khda aa ma mh hh aa ma mh hh aa ma mh hh CERTAIN PDB Chime 57.96 thymid_phosphorylase aa ma mh hh aa ma mh hh aa ma mh hh CERTAIN PDB Chime 23.07 hs1mt5a aa ma mh hh aa ma mh hh aa ma mh hh MARGINAL PDB Chime 3.66 hs1ufoa aa ma mh hh aa ma mh hh aa ma mh hh GUESS PDB Chime 3.43 hsd1nuba3 aa ma mh hh aa ma mh hh aa ma mh hh GUESS PDB Chime 3.09 hsd2sqca2 aa ma mh hh aa ma mh hh aa ma mh hh GUESS PDB Chime 3.05 hs1gl1i aa ma mh hh aa ma mh hh aa ma mh hh GUESS PDB Chime 2.99 hs1l9va aa ma mh hh aa ma mh hh aa ma mh hh GUESS PDB Chime 2.83 hsd1qusa aa ma mh hh aa ma mh hh aa ma mh hh GUESS PDB Chime 2.68 Amidase aa ma mh hh aa ma mh hh aa ma mh hh GUESS PDB Chime 2.61Keys
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