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

NucPred

Fetching Q09854 from www.uniprot.org...

The NucPred score for your sequence is 0.49 (see score help below)

   1  MAYPLVVSFFLYIVILDKHAWCAPFNNLLTDWNLNTNVSALDPSDYWGEW    50
  51  ENHEFFPSPEHWRFPIYTIAIDKWVDGDPTNNDFSGTRFEYDIYETEFRN   100
 101  GGDIIGVRQSLDYLQGMGVKAVYFAGTPFVNMPWGADQYSPLDFTLLDPH   150
 151  LGTINDWRGTIEEMHSKGMYVIVDLTVATLADLIGFEGFTNTTTPFTFIE   200
 201  HNALWKGEDRYADWNFTNSWDPDCELPRFWGESGEPVVVEWTGCYNSDFD   250
 251  QYGDTEAFGSHPDWQRQLSKFASVQDRLREWKPSVASKLKRLSCLVISML   300
 301  DVDGFRIDKATQMTVDFLVDWAKSVRLCANRFNKSNFFIPGEVTGPSSFG   350
 351  AIYYNRGRQPNQRPANLIDALNATSSDNVYFLREEGENALDASAFHYSVY   400
 401  RIILRFLRMDGLMEIPYDLPVDLAEAWHQIVINEDSFNPKTEKYDPRHLY   450
 451  GVSNYDVFRWASVADGSRRLILGTMMTFFLFPGAPLIYYGDEQGLYVLDN   500
 501  SANNYLYGRQSMAAAPAWYIHGCYSGSSSTYPAIDLSPAKIGCLDIWNSL   550
 551  DHFDPSRIERQLFIEFQDIRSRYSALTHGWKSELLGNWTNIEYLPNSGIN   600
 601  PSNVGTFSMVRGAINSLQNISSEYNFPGVKTSSSDVWILFTNSNVSVNLK   650
 651  SNCFSKEAIVSPFISGTKIKNLVYPYDEYQLEASSHFSQISNTEPMGCLP   700
 701  ELGLDGYGYKLFVPINEYIPRRPFITKFSPSHDSRLVIPLEKLRIIVEFS   750
 751  EEMDCKSISKSLLITSKTLNGDSPVLDESSVTCQKINDKDRVRFSGQSSS   800
 801  LFRWSATFSNIADGIHRISFNNASTADGKDFTHSVDHFLLRVGSLNNPIV   850
 851  FSSANYSYDLLQKENNSVYIKHAAIGADMFRYSLDFGSTWTEWQTYDGNN   900
 901  TYCNLSGWSQSSRYGWKGHHIMVQYWSELTGSSNYMQESDLEYPYKRWFP   950
 951  HVFMDSDYTQWTHDSDIRNRMLPLENGSFLGYHIADVYPSALQFNVWGLN  1000
1001  KDGKADKSFIYGSLQNNSFLSRVSPSSLEENVFYIQHPPPKSYLSWSVTF  1050
1051  DPQRRRYYINPSGCVFVSLGIYLSSLIVPLLTGVLAVYIFKKKFYHVKFN  1100
1101  AFGTSKQNLHFRQHDVLGMKNLFNFSCSNKIKGEEVLNDGDKGKRRTVLL  1150
1151  ATLEYDIPSLNICIKIGGLGVMAQLMARHLEHEDIIWVIPCVGDVSYSNV  1200
1201  EEDDPIEVVIIDQTYFINVYKYVIGNIIYILLDAPIFRRQTSGKPYPSRA  1250
1251  DDLSSAIFYSAWNQCIASVISRNNIDLYHMNDYHGSLAPLYLLPKIIPVA  1300
1301  LSLHNAEFQGLWPLRNSSEKEEVCSVFNISKSVCSKYVQFGNVFNLLHAG  1350
1351  ASYIRIHQKGYGVVGVSSKYGKRSWARYPIFWGLRKIGKLPNPDPADNGT  1400
1401  NFKDLDANSMNEFENIKAKHKRSAQEWANLNIDPEADLLIFVGRWTLQKG  1450
1451  IDLIADITPTLLENFNSQIVVVGPVIDLYGKFAAEKFTALMKKYPGRIYS  1500
1501  RPLFTQLPSYIFSGADFALIPSRDEPFGLVAVEFGRKGTLGIGAKVGGLG  1550
1551  QMPGWWYTIESNTTAHLLCQFEEACRQALTSSKSVRTKLRAISTIQRFPV  1600
1601  SEWVSKLDTHVRNCIKFSHKQNLEEDFIHEPVIDVDEFAISSSKDIDADE  1650
1651  DLEIIGSSDNKAIDSNGEGFLIEKDNIGTGSYSNQQSFDFKSSESDSFPQ  1700
1701  KSPSVESFSIIDNDNPFHEGQNSSTGYKDIVQGLLAENGVSEAGVDVMTS  1750
1751  IVSSTIPIVSNHQTEGSQMFNEISSVSSIHVYHDESQPPVEMPAESDTPL  1800
1801  QNKLYHPGMWSSSDIRIPNNSSQLSIDSVRSGMRPFSLSKVPHQFDDEEG  1850
1851  KALQIFREKLKDLNCKNSMNEMCIENFLMKCTRKYFDEVRKLRLGTLKPE  1900
1901  NLQFVKDPSSLALETNLLPASDTIEEKNDVGNKQVNSHILDPGFLKEEEC  1950
1951  VYEFEQLHGLRKALQVEIYGWPLYTILLAIGQVLAATSFQLNLFSDTPDQ  2000
2001  PEYQSYIVCSVYISASLFWYILHSLVPNIYALSTPFIIYATAFALAGLTT  2050
2051  FSSLGDSRLWISRVATWIYSIASGSQALFFSLNFGNEGRYDILYWIVRAC  2100
2101  FIQGSQQVWSAALWYWGSYSTDKPNRMGVSGKLNPQPWMAAITWPIALVL  2150
2151  LAIAFVVYRGLPNFYRQCPSKIPAFYRSLFRRRLIMWFFISVFLQNYWMS  2200
2201  SVYGRSWAFMWSAHNVHKWAMFLLVILFYVAIWIALVALLASLSRYHSWI  2250
2251  LPILGLGFGAPRWLQTLWGTSNIGIYVPFLGKGAPYLSRMLWLYLGLLDT  2300
2301  VQTVGIGIILLQTLTREHITVVLITGQIVGAIASMVGKASSPSKFGPGDV  2350
2351  FIDFTHWSVKDGPQILASIPFWVCLICQLSVIIGYFLFFRRENLSRP     2397

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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