SERVERNAME: frsvr_SDPMA TARGET: T0081 PARAMETERS: excludefolds: 1kja 1hli include h3p2 URL: http://www.cs.bgu.ac.il/~dfischer/cafasp1/frsvr_SDPMA.t0081 SERVER'S URL: http://www.doe-mbi.ucla.edu/people/frsvr/submit.html RANK FOLD SCORE LENGTH_ALIGNMENT SEQ_ID% 1 451c 5.65 82 20 2 2bbma 4.88 124 13 3 1jdbb_936-1072 4.11 136 11 4 1lis 4.10 117 24 5 1osa 3.17 124 15 6 1aj5a 2.97 128 19 7 1cgme 2.68 140 19 8 1srra 2.60 104 13 9 1top 2.56 135 14 10 1pdr 2.49 88 19 11 1auz 2.47 78 17 12 1e2aa 2.40 101 19 13 1cgn 2.31 116 17 14 1axj 2.26 110 20 15 1etu 2.25 148 16 END The following are additional results for your prediction obtained using a multiple alignment of sequences homologous to your submitted sequence. The sequences in the multiple alignment (in addition to your sequence) are: mgsa_bacsu mgsa_bruab mgsa_ecoli mgsa_haein y036_syny3 This method (MULT+gonnet+predss) is still under testing. Comparing the results of the predictions for the homologous sequences may provide further information. You can obtain these by submitting them to this server. The three-dimensional fold predicted for your amino acid sequence is in the table below. HERE I INCLUDE ONLY THE RESULTS OF THE MULT+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. 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: MULT+gonnet+predss . Most similar fold: 451c CYTOCHROME $C=551= (REDUCED) RANK Z-SCORE FOLD LENGTHALI %ID 1 5.65 451c 82 20 1-3 alpha ; Cytochrome c] 1-3-1-1-4-2- 2 4.88 2bbma 124 13 1-28 alpha ; EF-hand] 1-28-1-5-4-5-2- 3 4.11 1jdbb_936-1072 136 11 199 4 4.10 1lis 117 24 1-15 alpha ; Lysin] 1-15-1-1-1-1- 5 3.17 1osa 124 15 1-28 alpha ; EF-hand] 1-28-1-5-4-6- 6 2.97 1aj5a 128 19 1998 7 2.68 1cgme 140 19 1-20 alpha ; Four-helical up-and-down bundle] 1-20-5-1-2-1-1- 8 2.60 1srra 104 13 1997 new ; A PHOSPHATASE RESISTANT MUTA 9 2.56 1top 135 14 1-28 alpha ; EF-hand] 1-28-1-5-1-1- 10 2.49 1pdr 88 19 1997 new ; THE THIRD PDZ DOMAIN FROM TH 11 2.47 1auz 78 17 199 12 2.40 1e2aa 101 19 1998 13 2.31 1cgn 116 17 1-20 alpha ; Four-helical up-and-down bundle] 1-20-3-2-1-3- 14 2.26 1axj 110 20 1998 15 2.25 1etu 148 16 3-21 a/b ; P-loop n. tri. hydrolases] 3-21-1-2-4-1- 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 5.0 +- 1.0. YOUR HIGHEST SCORING FOLD IS ABOVE THIS THRESHOLD 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. Additional information for your prediction can be found at the url: http://www.mbi.ucla.edu/people/frsvr/preds/24456t0081 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 hhhhhhhhhh GKIDVLIFFWDPLNAVPHDPDVKALLRLAT | | | | | || GSQGV....WGPIPMPPNAVSDDEAQTLAK hhhhhhhhh 19%