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

NucPred

Fetching Q6FMI5 from www.uniprot.org...

The NucPred score for your sequence is 0.10 (see score help below)

   1  MSWKERLDNPTLSVWPHDYLRPHAEPFVEQGTYSISIPQLSGDYATLLAA    50
  51  WTALLYRVTGDDDIVLYVRDNKVLRFTITPELTFTQLQNKINEQLAELAN   100
 101  VEGTNFDALSESLQKESGLERPPQLFRIACVTEDLQLDRYTHSPLDIGLQ   150
 151  LHESSSDVSIVFNKLLFSQDRITILADQLTLFLTSVLQNAKQVFTKVSLI   200
 201  TDSSTSILPDPKANLDWCGFVGCIHDIFQDNAEKFPERTCVVETPPINST   250
 251  KTRTFTYKDINEASNIVAHYLINTGIKRGDVVMIYSSRGVDLMVCVMGVL   300
 301  KAGATFSVIDPAYPPARQTIYLGVAKPKGLIVIRAAGQLDQLVEDYITKE   350
 351  LDLVSRIPSIAIQDNGTVEGGSLPSESGDVLASYTELKSTRTGVVVGPDS   400
 401  NPTLSFTSGSEGIPKGVLGRHFSLAYYFSWMAKQFNLSENDKFTMLSGIA   450
 451  HDPIQRDMFTPLFLGAQLYVPTQDDIGTPGRLAEWMGKYGCTVTHLTPAM   500
 501  GQLLTAQAVTPFPKLHHAFFVGDILTKRDCLRLQTLAENCCIVNMYGTTE   550
 551  TQRAVSYFEVTSRSQDPHFLKKLKDVMPAGRGMKNVQLLVVNRNDRTQVC   600
 601  GVGEIGEIYVRAGGLAEGYRGLPDLNKEKFVNNWFVEEGHWNYLDKDLEA   650
 651  PWKEFWQGPRDRLYRTGDLGRYLPNGDCECCGRADDQVKIRGFRIELGEI   700
 701  DTNISQHPLVRENITLVRNNLEGEKCLVTYMVPRFDKPELENFKIEVPSN   750
 751  ISDDPVVCGLIGYSPFTKDLKAFLKKRLASYAIPSLIIVLPKLPLNPNGK   800
 801  VDKPKLQFPTVKQLELVAKNSSIDINDSEFNQQEREIRDLWLECLPTKPT   850
 851  SISPEDSFFDLGGHSILATKMIFTVKKQLNVELPLGTIFKYPTIKAFAAE   900
 901  VSRLKSTDKIEEETTALTADYASDAASLIDTLPKSYPAARALGSPSEMAG   950
 951  PTTVNIFVTGVTGFLGSFILSDILNRTVTGVNFKIFAHVRAADETSGLDR  1000
1001  IRKAGTVYGTWKEEYANSLQVVIGDLSKKNFGLTDDKWSHLSETIDIIIH  1050
1051  NGALVHWVYPYSKLRNANVVSTINIMNLASEGKPKLFNFVSSTSVLDTNH  1100
1101  YFELSDKLQQSGKEGIPESDDLMGSSLGLTSGYGQSKWAAEHIIRAAGKR  1150
1151  GLRGSIIRPGYVTGASYNGSSNTDDFLLRFLKSAVQLGKIPDINNTVNMV  1200
1201  PVDQVARVVVAASINPPCGDDLCVVHVNAHPRIIFKDYLYELKNYGYDVE  1250
1251  IENYEQWKKTLEEAVIERSEDNALFPLLHMVLGDLEDSTKAPELDDKNAI  1300
1301  TSLRADIEWTNEDRTKGMGATPEQIGIYISFLESVGFLPHPKHFGDKALP  1350
1351  NIKISEQQKELVASGAGARSSSAA                            1374

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.