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

NucPred

Fetching P13830 from www.uniprot.org...

The NucPred score for your sequence is 0.61 (see score help below)

   1  MRPFHAYSWIFSQQYMGTKNVKEKNPTIYSFDDEEKRNENKSFLKVLCSK    50
  51  RGVLPIIGILYIILNGNLGYNGSSSSGVQFTDRCSRNLYGETLPVNPYAD   100
 101  SENPIVVSQVFGLPFEKPTFTLESPPDIDHTNILGFNEKFMTDVNRYRYS   150
 151  NNYEAIPHISEFNPLIVDKVLFDYNEKVDNLGRSGGDIIKKMQTLWDEIM   200
 201  DINKRKYDSLKEKLQKTYSQYKVQYDMPKEAYESKWTQCIKLIDQGGENL   250
 251  EERLNSQFKNWYRQKYLNLEEYRRLTVLNQIAWKALSNQIQYSCRKIMNS   300
 301  DISSFKHINELKSLEHRAAKAAEAEMKKRAQKPKKKKSRRGWLCCGGGDI   350
 351  ETVEPQQEEPVQTVQEQQVNEYGDILPSLRASITNSAINYYDTVKDGVYL   400
 401  DHETSDALYTDEDLLFDLEKQKYMDMLDTSEEESVEENEEEHTVDDEHVE   450
 451  EHTADDEHVEEPTVADDEHVEEPTVADEHVEEPTVAEEHVEEPTVAEEHV   500
 501  EEPASDVQQTSEAAPTIEIPDTLYYDILGVGVNADMNEITERYFKLAENY   550
 551  YPYQRSGSTVFHNFRKVNEAYQVLGDIDKKRWYNKYGYDGIKQVNFMNPS   600
 601  IFYLLSSLEKFKDFTGTPQIVTLLRFFFEKRLSMNDLENKSEHLLKFMEQ   650
 651  YQKEREAHVSEYLLNILQPCIAGDSKWNVPIITKLEGLKGSRFDIPILES   700
 701  LRWIFKHVAKTHLKKSSKSAKKLQQRTQANKQELANINNNLMSTLKEYLG   750
 751  SSEQMNSITYNFENINSNVDNGNQSKNISDLSYTDQKEILEKIVSYIVDI   800
 801  SLYDIENTALNAAEQLLSDNSVDEKTLKKRAQSLKKLSSIMERYAGGKRN   850
 851  DKKSKNFDTKDIVGYIMHGISTINTEMKNQNENVPEHVQHNAEENVEHDA   900
 901  EENVEHDAEENVEHDAEENVEHDAEENVEHDAEENVEENVEEVEENVEEN   950
 951  VEENVEENVEEVEENVEENVEENVEENVEENVEENVEENVEENVEENVEE  1000
1001  YDEENVEEVEENVEENVEENVEENVEENVEEVEENVEENVEENVEENVEE  1050
1051  NVEENVEEYDEENVEEHNEEYDE                             1073

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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