SBC logo Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden.

NucPred

Fetching P91133 from www.uniprot.org...

The NucPred score for your sequence is 0.92 (see score help below)

   1  MIVDLIQSARQGEWAQVRQLLLKHWLVQVPEVFEVNSDLPWDNTAANERI    50
  51  LGSQGEILLAPLVSAFVLDVRNTKSTLEAMNGIAGVDPARRGQICGHVFK   100
 101  NGELTYTCLDCATDGTCVMCLQCFEVSIHKSHKYKMHSSSGSGYCDCGDA   150
 151  DAWTEGYACANHEKKDDEEAAVLAPELKKRCEQLVEIILQFSLSMITHKD   200
 201  DLKLPEIFEKMKPEVTNEAQQYLTVLYNDETHTYESVIKVLELYIHCTKD   250
 251  QAMLVATIVDREGRSAVKLGSKADCTKAKDDVQRKTARDPTSIRRSSNHN   300
 301  LPLSVKVMDTTLFALQNFSISLLTWLNTQMDVFPPLREIVGEILLSSKFA   350
 351  LKKNYTRKMKSEDQRLVAGIIRNVMVLPDDEEEELFALDGRMDVDEMDDD   400
 401  DIGGEALQMEIDADDEEEITAALAGVSEHQESPGPSRDSSTFTMLENILL   450
 451  QDTQMWKAGRSILHQMLMRTVFMIYDQKVRFAKAFMLHYNEIYEDFIKDD   500
 501  HEMDVSVVGLSVQFMTVPSLARKLVAEDQAFSVISKAIRDQTDKFVKYYN   550
 551  DGKIARFDFTSRSFPPELRRSLHITRDMAYILNAVPSESDWNRELIDGFV   600
 601  QGFADFLLFLQHLQGMDEVKRQAVEHQVWESEWETAFNILLRLKDAISMI   650
 651  IGWAETNEEVHNRLMIMCLELMNRMPPVYTKSEEDTYELTVTINGESCRI   700
 701  SHFDVLKSSTSVHQPVVRIIAGLFSASNYTGFLLNRSNNSHTSLNQERIK   750
 751  ELINCKDETNLYELSLRVLVLCAQSNATLWRRNGFSLINQIHNYFSPLCR   800
 801  NEMFDRDVLMMQVGAALTPSTKFIFHLLHRFRLFKWATSEFEQDKANEKP   850
 851  AKPESEDLSKTLVMIAEEFIQCLILILCERYTYGVGKTRPMDQMKREVIH   900
 901  ILCTGSHTFSHIQQKMSHDINSKRLSLHEAVNLVADFRKPLATTAGQFHC   950
 951  KESSLPTYSPFFMHYSKSDQSAAEQSQARVRAKMEKSVRACAPPILPDFQ  1000
1001  TFFERIPEILTTNVLIHVVRLIIDRTARRSRFSSDRLFHKTLYLIGIALN  1050
1051  EEEKNPSFGFTQRAEESIGLLSLLEGLVGKPESSICPILLEVTVEKYRKL  1100
1101  IKARAGVPEAAPAPENKPAQSEEEIKAKRAARAAEMRQKAMAKMSNMQSK  1150
1151  FMKKIEDEEKKDESQTPSEKSETVVKKDDYDNKHFFDEDVVKQVGHDFPV  1200
1201  CIGANKWHAELVKPRTLTCILCQEDEIIAPQQGKPMVCAAFIQQSQLFTH  1250
1251  KNKNGELMTASSGTISTRDLLTAPATLQYGVDVSTCSHSMHYECYRSLAE  1300
1301  ANRSRESLRARQVGQHSHKMVDTENGEYQCPLCKRLSNAAIPVLPAYQLT  1350
1351  NQNGFSTVSGAGKENFDTWVARVKRNLEMPLSSESVSKKGHSRKRSHSER  1400
1401  SLLDLEKLSKDPDTANTSAGVLQFGAMEMSSATHMPASAESQMLMTTSPS  1450
1451  QDDVEFYNELAAMFVDQDVNNTTSPAATPETIPAIGSSSRIPESQESGKK  1500
1501  PLSSQIQHVLYSLIRPFPALINSNRICSSSFEGFEEPIKDLGKNMMKFRK  1550
1551  RGNELKTNFIEKHLKGYVISTVTWQSTAHVARAISSYLHYDKKPLFGALN  1600
1601  TRQRDCLSAMARLCASLSHNMQFLLHAVSDMLRVFLCEPPRPKLAQTPGS  1650
1651  PLLSAPSTSSFTPAPAQIPHSGTNFAFLVQLFNPAGPRKNVNLNILQIDI  1700
1701  LSLAISLMMTIGWTWNNGTQSMNSSSTHQKARLLTPDGSVDEAYVLRLSL  1750
1751  LAHYFQIIATHSEADGNDVNMEEEQESQMEVDPVAAQTIRKLYALCHPFD  1800
1801  GPLRRVDILWRKMEEGAQSLLRPIALLYHFITLVDPPEALKDPSINSSEP  1850
1851  LFRYLGLPHKIEEQISGSMLEKLFTMWSSSIPSDQALRQDLVVQPVRPNL  1900
1901  LVELPEKYSQLINQVATFKCPTIPIEESTSNVPTLCLVCGTILCSQAYCC  1950
1951  QKIINKQSYGACRYHMSQCSGSVGMFLRVRDCSLVLMTTRKRGCFRPAPY  2000
2001  VDEFGEVDQGFRRGNPLHLNPELYQKLKSLWLQQGITEEVVNYNEIDFRN  2050
2051  VQYDWGHF                                            2058

Positively and negatively influencing subsequences are coloured according to the following scale:

(non-nuclear) negative ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| positive (nuclear)

with NucPred



If you find NucPred useful, please cite this paper:
NucPred - Predicting Nuclear Localization of Proteins. Brameier M, Krings A, Maccallum RM. Bioinformatics, 2007. PubMed id: 17332022
The authors also look forward to your comments and suggestions.

What does the NucPred score mean?

You have to decide on a NucPred score threshold. Sequences which score greater than or equal to this threshold are predicted to spend some time in the nucleus. Higher thresholds yield fewer predicted nuclear proteins, but these predictions are more accurate (you can have higher confidence in them). The table below gives more details of the performance of NucPred estimated using the sequences it was trained on (by cross-validation). Another benchmark is available in the Bioinformatics 2007 paper.

NucPred score threshold Specificity Sensitivity
see above fraction of proteins predicted to be nuclear that actually are nuclear fraction of true nuclear proteins that are predicted (coverage)
0.10 0.45 0.88
0.20 0.52 0.83
0.30 0.57 0.77
0.40 0.63 0.69
0.50 0.70 0.62
0.60 0.71 0.53
0.70 0.81 0.44
0.80 0.84 0.32
0.90 0.88 0.21
1.00 1.00 0.02

Sequences which score >= 0.8 with NucPred and which are predicted by PredictNLS to contain an NLS have been shown to be 93% correct with a coverage of 16%. (PredictNLS by itself is 87% correct with 26% coverage on the same data.)

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