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: 8491
Probe sequence ID : yecd
Probe sequence len : 199
Probe divergence : 0.746
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
hs1j2ra 188 262 533 36.32 39.17 00 CERTAIN Alignment hs1nf9a 207 183 474 32.07 34.93 00 CERTAIN Alignment Isochorismatase 263 35 394 28.32 31.21 00 CERTAIN Alignment 1nbaa 253 92 439 28.07 30.94 00 CERTAIN Alignment 1yaca 204 81 361 26.76 29.64 00 CERTAIN Alignment 1im5a 179 112 373 26.67 29.55 00 CERTAIN Alignment hs1iuka 136 -144 61 4.03 6.77 00 LIKELY Alignment hs1dxea 253 -272 44 3.44 6.13 00 GUESS Alignment 1a3wa 492 -120 20 3.37 6.00 33 GUESS Alignment hs1p9oa 269 -281 75 3.27 6.04 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 hs1j2ra aa ma mh hh aa ma mh hh aa ma mh hh CERTAIN PDB Chime 36.32 hs1nf9a aa ma mh hh aa ma mh hh aa ma mh hh CERTAIN PDB Chime 32.07 Isochorismatase aa ma mh hh aa ma mh hh aa ma mh hh CERTAIN PDB Chime 28.32 1nbaa aa ma mh hh aa ma mh hh aa ma mh hh CERTAIN PDB Chime 28.07 1yaca aa ma mh hh aa ma mh hh aa ma mh hh CERTAIN PDB Chime 26.76 1im5a aa ma mh hh aa ma mh hh aa ma mh hh CERTAIN PDB Chime 26.67 hs1iuka aa ma mh hh aa ma mh hh aa ma mh hh LIKELY PDB Chime 4.03 hs1dxea aa ma mh hh aa ma mh hh aa ma mh hh GUESS PDB Chime 3.44 1a3wa aa ma mh hh aa ma mh hh aa ma mh hh GUESS PDB Chime 3.37 hs1p9oa aa ma mh hh aa ma mh hh aa ma mh hh GUESS PDB Chime 3.27Keys
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