A Protein Secondary Structure Prediction Server (original) (raw)

Format examples:Raw | FASTA | MSF | BLC | Batch

Raw Format Example

Copy the content of the block below to use as an example (also available as a separate file: link)

MQVWPIEGIKKFETLSYLPPLTVEDLLKQIEYLLRSKWVPCLEFSKVGFVYRENHRSPGYYDGRYWTMWKLPMFGCTDATQVLKELEEAKKAYPDAFVRIIGFDNVRQVQLISFIAYKPPGC

Back to the top of the page...

FASTA Format Example

Copy the content of the block below to use as an example (also available as a separate file: link)

0_1a apaFS---ASGASDGQSVSVSVAAAGETYYIAQCAPVGGQDACNPATATSFTTDASGAASFSFTVRKSYAGQ TPSGTPVGSVDCATDACNLGAGNSGLNLGHVALTFG 1_MA APGVTVTPATGLSNGQTVTVSATTPGTVYHVGQCAVVEGVIGCDATTSTDVTADAAGKITAQLKVHSSFQAV VANGTPWGTVNCKVVSCSAGLGSDSGEGAAQAITFA 2_KE SAAVSVSPATGLADGATVTVSASATSTSATALQCAILAGRGACNVAEFHDFSLSG-GEGTTSVVVRRSFTGY VPDGPEVGAVDCDTAPCEIVVGGNTGEYGNAAISFG 3_NC APTATVTPSSGLSDGTVVKVAGAQAGTAYDVGQCAWVDGVLACNPADFSSVTADANGSASTSLTVRRSFEGF LFDGTRWGTVDCTTAACQVGLSDAAGNGPGVAISFN

Back to the top of the page...

MSF Format Example

Copy the content of the block below to use as an example (also available as a separate file: link)

/tmp/filelPdICy MSF: 108 Type: N January 01, 1776 12:00 Check: 2741 ..

Name: 0_1a Len: 108 Check: 4063 Weight: 1.00 Name: 1_MA Len: 108 Check: 4875 Weight: 1.00 Name: 2_KE Len: 108 Check: 449 Weight: 1.00 Name: 3_NC Len: 108 Check: 3354 Weight: 1.00

       0_1a  APAFSVSPAS GASDGQSVSV SVAAAGETYY IAQCAPVGGQ DACNPATATS
       1_MA  APGVTVTPAT GLSNGQTVTV SATTPGTVYH VGQCAVVEGV IGCDATTSTD
       2_KE  SAAVSVSPAT GLADGATVTV SASATSTSAT ALQCAILAGR GACNVAEFHD
       3_NC  APTATVTPSS GLSDGTVVKV AGAQAGTAYD VGQCAWVDGV LACNPADFSS

       0_1a  FTTDASGAAS FSFTVRKSYA GQTPSGTPVG SVDCATDACN LGAGNSGLNL
       1_MA  VTADAAGKIT AQLKVHSSFQ AVVANGTPWG TVNCKVVSCS AGLGSDSGEG
       2_KE  FSLSG.GEGT TSVVVRRSFT GYVPDGPEVG AVDCDTAPCE IVVGGNTGEY
       3_NC  VTADANGSAS TSLTVRRSFE GFLFDGTRWG TVDCTTAACQ VGLSDAAGNG

       0_1a  GHVALTFG
       1_MA  AAQAITFA
       2_KE  GNAAISFG
       3_NC  PGVAISFN

Back to the top of the page...

BLC Format Example

Copy the content of the block below to use as an example (also available as a separate file: link)

0_1a Name 1_MA Name 2_KE Name 3_NC Name

iteration 1 AASA PPAP AGAT FVVA STST VVVV STST PPPP AAAS STTS GGGG ALLL SSAS DNDD GGGG QQAT STTV VVVV STTK VVVV SSSA VAAG ATSA ATAQ APTA GGSG ETTT TVSA YYAY YHTD IVAV AGLG QQQQ CCCC AAAA PVIW VVLV GEAD GGGG QVRV DIGL AGAA CCCC NDNN PAVP ATAA TTED ASFF TTHS SDDS FVFV TTST TALA DDSD AAGA SA N GGGG AKES AIGA STTS FATT SQSS FLVL TKVT VVVV RHRR KSRR SSSS YFFF AQTE GAGG QVYF TVVL PAPF SNDD GGGG TTPT PPER VWVW GGGG STAT VVVV DNDD CCCC AKDT TVTT DVAA ASPA CCCC NSEQ LAIV GGVG ALVL GGGS NSGD SDNA GSTA LGGG NEEN LGYG GAGP HANG VQAV AAAA LIII TTSS FFFF GAGN

Back to the top of the page...

Batch Format Example (Note: batch submission has to be in FASTA format)

Copy the content of the block below to use as an example (also available as a separate file: link)

my_seq1 MKFLVLLFNILCLFPILGADELVMSPIPTTDVQPKVTFDINSEVSSGPLYLNPVEMAGVK YLQLQRQPGVQVHKVVEGDIVIWENEEMPLYTCAIVTQNEVPYMAYVELLEDPDLIFFLK EGDQWAPIPEDQYLARLQQLRQQIHTESFFSLNLSFQHENYKYEMVSSFQHSIKMVVFTP KNGHICKMVYDKNIRIFKALYNEYVTSVIGFFRGLKLLLLNIFVIDDRGMIGNKYFQLLD DKYAPISVQGYVATIPKLKDFAEPYHPIILDISDIDYVNFYLGDATYHDPGFKIVPKTPQ CITKVVDGNEVIYESSNPSVECVYKVTYYDKKNESMLRLDLNHSPPSYTSYYAKREGVWV TSTYIDLEEKIEELQDHRSTELDVMFMSDKDLNVVPLTNGNLEYFMVTPKPHRDIIIVFD GSEVLWYYEGLENHLVCTWIYVTEGAPRLVHLRVKDRIPQNTDIYMVKFGEYWVRISKTQ my_seq2 MASVKSSSSSSSSSFISLLLLILLVIVLQSQVIECQPQQSCTASLTGLNVCAPFLVPGSP TASTECCNAVQSINHDCMCNTMRIAAQIPAQCNLPPLSCSAN my_seq3 MEKKSIAGLCFLFLVLFVAQEVVVQSEAKTCENLVDTYRGPCFTTGSCDDHCKNKEHLLS GRCRDDVRCWCTRNC

Back to the top of the page...

Primary citation: Drozdetskiy A, Cole C, Procter J & Barton GJ. Nucl. Acids Res.

(first published online April 16, 2015) doi: 10.1093/nar/gkv332 [link]
More citations: link.