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

NucPred

Fetching P39526 from www.uniprot.org...

The NucPred score for your sequence is 0.74 (see score help below)

   1  MANRSLKKVIETSSNNGHDLLTWITTNLEKLICLKEVNDNEIQEVKEIHT    50
  51  QLDEFVRYISVLENTDDLELHSVFISLSQLYTISIWRLKDEYPGVVFDSA   100
 101  AFLTNVLCEEDVSIDDGDTDPNQKKKKKKSSTKKKKYIYSPAKDIACTIL   150
 151  VQLFENFGSSISSLIPLLFNAIFKNLKKIMEKSKYYHATFMTTLLQLFNA   200
 201  ILRNSNNDDKILDPATYAKFSKLSKTVFDSISTDEKDFSVTFVSVLIECW   250
 251  TAHFKQTNFIREHSHDIIETIYSRFTEGEIGVYGFANDETRIFTAKSLAE   300
 301  ILFDYYFSKNILTLQEVWSIYVKIFLNCDTRDVESGCFESIIHLINLNLL   350
 351  ADNTFLSNSKYLDIVLSLSGVFSSYEVNNRSMNTLSRYLRYFQHMHEVIL   400
 401  PHLNDSAKTQMLYYILGCSDTYQSSSKSDSASNFKYSIDAKPETQWLTLL   450
 451  QLDFTYVLISDLGSTFTTEENTVKEIRDKLVDLATCEIFTIRVHTVEILK   500
 501  VFLNNCPEYLSETIENSLRALSTDFKSTGKFIFHKNHGHAFIIANLIKGA   550
 551  ESDYISYELIMRITVFSTSFIKNNTTSTSSNLYFKGLLCWILLIGLMNYK   600
 601  DEQYLKLQIPQLFLFWKVLLTHTYTYHDEDELYKNLEIRNHALTCLLTYL   650
 651  SNTTIDKEMAKQVSYLLTKCSNFNHSIDLKSKNIDNALLHNENRILQVYL   700
 701  KLEKYINSDFNSSLLILIVKNFSDPNLYTESSSSVLGSLKDIGNRKVSNK   750
 751  DDMESNIVLESSINTLLRQNNGFAFGLSSKITGDRIVNLSMSSAYKYDES   800
 801  ISGSWPSKDYNWYNIFEVEVSKPISPILSLDSLILLYGSGSYSQIDRYAP   850
 851  QVTTSLIDSSMELFSSVFPFLNSKIQYSIMETLNLSMFSKMTTPLRSVAV   900
 901  AANVCSALHNALRIMQENNLELDYSVGQLIIESIKKIQFFNDIFLTKIKA   950
 951  DCVGLLTAAIARTLGDEERQKFLTEQSRIFIKNVADMDEPYLRMFHVLSL  1000
1001  ATIFKYNSQYANFEEYFDVIFALMRDPHPVVHSWSLKAMHILLEKHLVID  1050
1051  LKTAALLLSSMEELLVQDKYGIYGRSTLRCNYNRDFNSHVAIGEISRTLT  1100
1101  ETVGPNFLELNTKVLDSFRNITLSMLISNNILNSITSIKMFENIATFKMK  1150
1151  NILNYEIFILASKSIIKSSIVTGIGSSYFDTTFTGSNELISRTSSLKGAF  1200
1201  ENFDLLTLLYKLQMEEFFMKEMENLSWRYLALFPNSGSVKNYFTEWILHT  1250
1251  FKRDNHWFDKLYSIFNMSLGRLFQSYNRDVSALLEVNGLKKSSEKEIKGE  1300
1301  EEESIANVNQLTDTDAGGLDSENLQWKSRQIILNLILMLCLESEKYENLL  1350
1351  LALSNKIADLIKISFRGSTVRNEGMKLTGLHILNFVLKNYSTMRDPQVPG  1400
1401  SSILEQQEAQITSALMPAFSKGSSPTVMSFAITVAAEVLASNIMPPDKLG  1450
1451  RISQLLIDLLGNFKDPNSGIRIGEAIIVTPKAKRKIELAVLDAWAEVVQR  1500
1501  SITSSNDALFSFTRKYWSILVPLWIISLREYMMIKYNDNDSTVQVKNDSK  1550
1551  ENSLIEPRSTKIELYEPVWLNFVEALGCTLDSDVQVILASLNDEELEYFL  1600
1601  FILFSQCLEAIVKNIDDHSVKMQVLPALHNVLKSNLCIKSIFEDDIITEV  1650
1651  VEIMDRLISTGDSKEEFLLVDIISDLIIGYSKCNATPETFLQDIDKLYEL  1700
1701  LRLLMTIISERLPFIKYNVLTSEEDDNEIKISPTDISLLKKTFIAFESNI  1750
1751  SNFDNMFKVDLYSCLLFIIGKIYECSHREVIIPIILPLFKALVKALTESE  1800
1801  DEKNIVLLEIFYGSIKDVIYHKLDSKNKVATILILLSNGYSKLSFQELNQ  1850
1851  CANILSEALNNPATQPIALQGFKRIISNIFKYPLLQYFMKLVIKRFFQDI  1900
1901  QTNDSLSQASIKTKLIIQFSEEVIKQDHQKASLSIALCLSFFAAYHSAYT  1950
1951  EKIDNEVASGIVALAKLDKNSFKEAISSTISPQQKAIIGSVMEAYVKSQS  2000
2001  LGSVEEAFQLKSFD                                      2014

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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