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

NucPred

Fetching Q6BI69 from www.uniprot.org...

The NucPred score for your sequence is 0.36 (see score help below)

   1  MKEVVVDVAPKCIKGIEFGALSAKDIIAQSEVEVHTRDLYDLEKGRIPKD    50
  51  GGALDTKMGISSNANECATCHGNLASCHGHFGHIKLALPVFHVGYFKATI   100
 101  QVLQCICKNCSAVLLDEQTKRSFLNDLRRPHIDNLRRMKILKKLLEQCKK   150
 151  QRRCLNCNHVNGVVKKAASGAGPAALKIVHDTFRWIGKKATPEKDLWDKE   200
 201  FDEVFSRNPELEKFVKRIHDDLNPLKVLNLFKQISPSDCELLGIDSARGG   250
 251  RPEMYIWRYLPAPPVCIRPSVMMDAQSNEDDLTIKLTEIVWTSSLIKAGI   300
 301  EKGISINNLMEQWDYLQLSVAMYINSDSANPALLPSSGGGSKSSKPIRGF   350
 351  CQRLKGKQGRFRGNLSGKRVDFSGRTVISPDPNLKIDEVAVPDRVAKVLT   400
 401  YPEKCTRYNRKKLQKLILSGPNVHPGANYLLKQNESAKRNLRFGDRVKLA   450
 451  KNLHIGDVVERHIEDGDIVLFNRQPSLHRLSILSHYAKIRPWRTFRLNEC   500
 501  VCTPYNADFDGDEMNIHVPQTEEARAEAINLMGVKNNLLTPKSGEPIIAA   550
 551  TQDFITGSYLVSHKDSFFDRASLVQLLCMMSDADIQFDIPPPAIFKPVML   600
 601  WTGKQVFSLLIKPNKKSNVVINLDAKNKTYTPPAKGFPNEMSPNDGFVII   650
 651  RGSQILSGVMDKSTLGDGKKHSVFYTILRDYGPDEAANAMNRMAKLCARY   700
 701  LGNRGFSIGINDVIPGSDLKQKKELMVEQAYLKCDELIDLYNRGNLETQP   750
 751  GCNEEQTLEAKIGGLLSKVREEVGEICINELDSANAPLIMATCGSKGSTL   800
 801  NVSQMVAVVGQQIISGNRVPDGFQDRSLPHFTKNSKTPQSKGFVRNSFFS   850
 851  GLTPPEFLFHSISGREGLVDTAVKTAETGYMSRRLMKSLDDLSAQYDHTV   900
 901  RNSSNGIVQFTYGGDGLDPFDMEGDARPVNFVRQWDHAYNITFDIEDKGL   950
 951  LPYQIIELVDSILHPLEDRLVRYDNVGKIIPLEDSDKIEYIDQNDAEREF  1000
1001  YQSIREFTTNKATKLAEIREKKMLKPFLTEPAEDFIRLDESDESLVAINQ  1050
1051  LSKVSANSINKFLEQCIYKYSRAKVEPGTAVGAIGAQSIGEPGTQMTLKT  1100
1101  FHFAGVASMNVTLGVPRIKEIINASKVISTPIINSVLVNDDDEIAARVVK  1150
1151  GRVEKTLLEDVAYFIEDVYKNNMAYLSIKIDLNTIEKLQLELNIESIAHS  1200
1201  IANAPKLKILAGDVSVTGKDRINVLVTLREPKSINLMKNASADYKGTDAS  1250
1251  IVNSLFFRMQHLKRALPRICIKGLPDISRAVINIRDDGKKELLVEGYGLK  1300
1301  EVMSTDGVVGTKTSTNHILEVFQVLGIEAARASIIGEIDYTMSKHGMSVD  1350
1351  PRHIQLLGDVMTYKGEVLGITRFGLSKMRDSVLQLASFEKTTDHLFDASF  1400
1401  YMKNDKIEGVSECIILGQTMNIGTGAFKLVNSFDVDKKALEMKPTLFEGM  1450
1451  CEVSATA                                             1457

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.)

Go back to the NucPred Home Page.