SERVERNAME: frsvr_SDP TARGET: T0068 PARAMETERS: excludefolds: 1kja 1hli include h3p2 URL: http://www.cs.bgu.ac.il/~dfischer/cafasp1/frsvr_SDP.t0068 SERVER'S URL: http://www.doe-mbi.ucla.edu/people/frsvr/submit.html RANK FOLD SCORE LENGTH_ALIGNMENT SEQ_ID% 1 1rmg 6.74 320 22 2 2pec 4.31 300 22 3 1tmf1 4.16 265 20 4 1a8x 3.93 333 16 5 2bbkh 3.80 303 16 6 2sim 3.68 317 16 7 1gof 3.52 335 18 8 1hgea 3.50 283 20 9 1idja 3.41 289 20 10 1fata 2.85 214 20 END NOTICE: the excludefolds excludes 2 library entries which are models. The server's output is: 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: 376 December 21, 1998 16:59 Type: P Check: 614 .. 1 SDSRTVSEPK TPSSCTTLKA DSSTATSTIQ KALNNCDQGK AVRLSAGSTS 51 VFLSGPLSLP SGVSLLIDKG VTLRAVNNAK SFENAPSSCG VVDKNGKGCD 101 AFITAVSTTN SGIYGPGTID GQGGVKLQDK KVSWWELAAD AKVKKLKQNT 151 PRLIQINKSK NFTLYNVSLI NSPNFHVVFS DGDGFTAWKT TIKTPSTARN 201 TDGIDPMSSK NITIAYSNIA TGDDNVAIKA YKGRAETRNI SILHNDFGTG 251 HGMSIGSETM GVYNVTVDDL KMNGTTNGLR IKSDKSAAGV VNGVRYSNVV 301 MKNVAKPIVI DTVYEKKEGS NVPDWSDITF KDVTSETKGV VVLNGENAKK 351 PIEVTMKNVK LTSDSTWQIK NVNVKK NAME: t0068 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: 1rmg MOL_ID: 1; 2 MOLECULE: RHAMNOGALACTURONASE A; 3 CHAIN: NULL; 4 SYNONYM: RGASE A; 5 EC: 3.2.1.-; 6 ENGINEERED: YES RANK Z-SCORE FOLD LENGTHALI %ID 1 6.74 1rmg 320 22 1998 2 4.31 2pec 300 22 2-47 beta ; Single-stranded right-handed beta-helix] 2-47-1-1-1-1- 3 4.16 1tmf1 265 20 2-7 beta ; Viral coat and capsid proteins] 2-7-1-4-7-1-2- 4 3.93 1a8x 333 16 199 5 3.80 2bbkh 303 16 2-39 beta ; 7-bladed beta-propeller] 2-39-2-1-1-1-1- 6 3.68 2sim 317 16 2-38 beta ; 6-bladed beta-propeller] 2-38-1-1-1-1- 7 3.52 1gof_151-537 335 18 2-39 beta ; 7-bladed beta-propeller] 2-39-1-1-1-1-1- 8 3.50 1hgea 283 20 2-13 beta ; Segmented RNA-genome viruses' proteins] 2-13-1-2-1-1-7- 9 3.41 1idja 289 20 1997 new ; PECTIN LYASE A 10 2.85 1fata 214 20 1997 new ; PHYTOHEMAGGLUTININ 11 2.75 1agx 306 22 3-59 a/b ; Glutaminase/Asparaginase] 3-59-1-1-2-1- 12 2.74 2por 245 21 6-6 MEMBR ; Porins] 6-6-1-1-1-2- 13 2.70 1fnf 262 24 99--2-1--2-1--2-1--2-1 [beta ; Immunoglobulin-like beta-sandwich] 14 2.64 2mev1 254 21 2-7 beta ; Viral coat and capsid proteins] 2-7-1-4-5-1-1- 15 2.60 7aata 338 20 3-41 a/b ; PLP-dependent transferases] 3-41-1-1-1-1-1- 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 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. hhhhhhhhhh bbbbb bbbb bbb bb TTLKADSSTATSTIQKALNNCDQGKAVRLSAGSTSVFLSGPLSLPSGVSL | | | | | | | | | GAVADNSTDVGPAITSAWAACKSGGLVYIPSGNYALNTWVTLTGGSATAI h hhhhhhhhhhhhh bbbbb bbbbb bbbbbbbbbbb bbb bbbbb bbbb bbbbbbb b bbbb LIDKGVTLRAVNNAKSFENAPSSCGVVDKNGKGCDAFITAVSTTNSGIYG | | | | || QLD.....................GIIYRTGTASGNMIAVTDTTDFELFS bbb bbbbbb bbbbbbbbbbbbbbbb bb hhhhhhhhh bbbbb bb P...GTIDGQGGVKLQDKKVSWWELAADAKVKKLKQNTPRLIQINKSKNF | | | | | | STSKGAVQGFG...........YVYHAEG......TYGARILRLTDVTHF bbbbb h hhhhh bbbbbbbbbbb bbbbbbbb bbbbbb bbbbbb b TLYNVSLINSPNFHVVFSDGDGFTAWKTTIKTPSTARNTDGIDPMSSKNI | | || | |||| | || SVHDIILVDAPAFHFTMDTCSDGEVYNMAIRG.GNEGGLDGIDVWGS.NI bbbbbbbbb bbbbbbbbbbbbbbbbbbb bbbbbbb bb bbbbbbb bbb bb b bbbb bb TIAYSNIATGDDNVAIKAYKGRAETRNISILHNDFGTGHGMSIGSETMGV | | | | | | | WVHDVEVTNKDECVTVKS...PANNILVESIYCNWSGGCAMGSLGADTDV bbbbbbbb bbbbbbbb bbbbbbbbbbbbbb bbbbbbb bbb bbbbbbbb bbbb b bbbbbbbhhh bbbbb YNVTVDDLKMNGTTNGLRIKSDKSAAGVVNGVRYSNVVMKNVAKPIVIDT | | | | | | || TDIVYRNV.YTWSSNQMYMIKSNGGSGTVSNVLLENFIGHGNAYSLDIDG bbbbbbbb bbbb bbbbbbb bbbbbbbbbbbbbbbbb bbbbbb bbb bbb bbbbbb bbbb bbb VYEKKEGSNVPDWSDITFKDVTSETKGVVVLNGENAKKPIEVTMKNVKLT | || || | YW...SSMTAVAGDGVQLNNITVKNWKGTEANGA.TRPPIRVVCSDTAPC bbbbbbbbbbbbbbb bbbbbb b bbb SDSTWQ | | TDLTLE bbbbbb 18% Additional information for your prediction can be found at the url: http://www.doe-mbi.ucla.edu/people/frsvr/preds/24409t0068/24409t0068.html p.s. if you need further information on this output, send an e-mail message to: fischer@mbi.ucla.edu