SERVERNAME: frsvr_SDP TARGET: T0081 PARAMETERS: excludefolds: 1kja 1hli include h3p2 URL: http://www.cs.bgu.ac.il/~dfischer/cafasp1/frsvr_SDP.t0081 SERVER'S URL: http://www.doe-mbi.ucla.edu/people/frsvr/submit.html RANK FOLD SCORE LENGTH_ALIGNMENT SEQ_ID% 1 451c 5.24 82 20 2 1qbea 3.58 101 27 3 1mtnc 3.47 97 21 4 2bbma 3.46 124 13 5 1gds 3.35 128 25 6 1osa 3.04 124 15 7 1etu 2.94 136 25 8 1awcb 2.90 130 16 9 1udg 2.85 144 22 10 2prp 2.84 130 15 11 1lis 2.78 110 25 12 1psda_108-295 2.72 128 23 13 1top 2.67 135 17 14 1aa2 2.65 108 16 15 1bgeb 2.43 135 16 END The three-dimensional fold predicted for your amino acid sequence is in the table below. HERE I INCLUDE ONLY THE RESULTS OF THE gonnet+predss METHOD. THE OTHER RESULTS CAN BE FOUND AT THE URL (www page) SPECIFIED AT THE END OF THIS MESSAGE. Please cite: Fischer, D. and Eisenberg, D. Fold Recognition Using Sequence-Derived Predictions. Protein Science, 5, 947-955, 1996. * * * * N O T E * * * * PLEASE CONSULT ALSO THE RESULTS OF gonnet+predss+multi Your sequence was translated to: seq.seq Length: 152 December 25, 1998 05:45 Type: P Check: 9034 .. 1 MELTTRTLPA RKHIALVAHD HCKQMLMSWV ERHQPLLEQH VLYATGTTGN 51 LISRATGMNV NAMLSGPMGG DQQVGALISE GKIDVLIFFW DPLNAVPHDP 101 DVKALLRLAT VWNIPVATNV ATADFIIQSP HFNDAVDILI PDYQRYLADR 151 LK NAME: t0081 FROM: dfischer@indigo.cs.bgu.ac.il BY YOUR REQUEST I HAVE NOT USED THE FOLLOWING FOLDS: 1hli 1kja The method used for this prediction was: gonnet+predss . Most similar fold: 451c CYTOCHROME $C=551= (REDUCED) RANK Z-SCORE FOLD LENGTHALI %ID 1 5.24 451c 82 20 1-3 alpha ; Cytochrome c] 1-3-1-1-4-2- 2 3.58 1qbea 101 27 1997 new ; BACTERIOPHAGE Q BETA CAPS 3 3.47 1mtnc 97 21 1997 new ; BOVINE ALPHA-CHYMOTRYPSIN:BPTI CRYSTALLIZATI 4 3.46 2bbma 124 13 1-28 alpha ; EF-hand] 1-28-1-5-4-5-2- 5 3.35 1gds 128 25 1997 new ; HIV-1 CAPSID PROTEIN, AMINO-TERMINAL CORE DOMAIN RESIDU 6 3.04 1osa 124 15 1-28 alpha ; EF-hand] 1-28-1-5-4-6- 7 2.94 1etu 136 25 3-21 a/b ; P-loop n. tri. hydrolases] 3-21-1-2-4-1- 8 2.90 1awcb 130 16 1998 9 2.85 1udg 144 22 3-9 a/b ; Uracil-DNA glycosylase] 3-9-1-1-1-2- 10 2.84 2prp 130 15 1998 11 2.78 1lis 110 25 1-15 alpha ; Lysin] 1-15-1-1-1-1- 12 2.72 1psda_108-295 128 23 3-15 a/b ; NAD(P)-binding Rossmann-fold domains] 3-15-1-4-3-1-1- 13 2.67 1top 135 17 1-28 alpha ; EF-hand] 1-28-1-5-1-1- 14 2.65 1aa2 108 16 1998 15 2.43 1bgeb 135 16 1-22 alpha ; 4-helical cytokines] 1-22-1-1-1-3-1- LEGEND: COL. 1: RANK. The ranks are obtained by sorting the fold library, by Z-SCORES, in decreasing order. Only the 15 structures that are most compatible to your sequence are shown. COL. 2: Z-SCORE. The z-scores are computed using the distribution of raw scores (not shown) of all folds. COL. 3: FOLD. Protein Data Bank codes for the coordinates of the 3D structures. COL. 4: LENGTHALI. The number of residues from your sequence that were aligned to the fold. COL. 5: % ID. Percentage of identical residues in the alignment. RELIABILITY OF THIS PREDICTION: With this method the confidence threshold is a z-score of 4.8 +- 1.0. YOUR HIGHEST SCORING FOLD IS ABOVE THIS THRESHOLD BUT ONLY SLIGHTLY HIGHER. THE PREDICTION IS NOT VERY RELIABLE. You may conclude that: IF the fold of your sequence is similar to one already observed, THEN: - Our method is not sensitive enough to assign a fold for your sequence, and/or - It may be contained within a larger fold, and/or - The fold of your sequence is not included in our library of folds. IF your sequence corresponds to a new, unobserved fold, THEN: - Our method reflects this by a below threshold score. Below is the alignment of your sequence with the top hit structure. In the near future, all the alignments in a more readable format will be made available. hhhhhhhh bbbbb bbb bbbbbb hhhhhhhhhh ERHQPLLEQHVLYATGTTGNLISRATGMNVNAMLSGPMGGDQQVGALISE | | | | | | | | EDPEVLFKNKGCVACHAIDTKMVGPAYKDVAAKFAGQAGAEAELAQRIKN hhhhhhh hhh hhhhhhhh hhhhhhhhhhh hh bbbbbb hhhhhhhhhhhh GKIDVLIFFWDPLNAVPHDPDVKALLRLATVWNIP | | | | | || | GSQGV....WGPIPMPPNAVSDDEAQTLAK.WVLS hhhhhhhhh hhh 20% Additional information for your prediction can be found at the url: http://www.doe-mbi.ucla.edu/people/frsvr/preds/24456t0081/24456t0081.html p.s. if you need further information on this output, send an e-mail message to: fischer@mbi.ucla.edu