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

NucPred

Fetching Q8L3R3 from www.uniprot.org...

The NucPred score for your sequence is 0.41 (see score help below)

   1  MGGCVSVSLSCDREVNQFSQWLCVSGSYIQNLSENLASLQKAMGVLNAKR    50
  51  DDVQGRINREEFTGHRRRLAQVQVWLTRIQTIENQFNDLLSTCNAEIQRL   100
 101  CLCGFCSKNVKMSYLYGKRVIVLLREVEGLSSQGVFDIVTEAAPIAEVEE   150
 151  LPIQSTIVGQDSMLDKVWNCLMEDKVWIVGLYGMGGVGKTTLLTQINNKF   200
 201  SKLGGGFDVVIWVVVSKNATVHKIQKSIGEKLGLVGKNWDEKNKNQRALD   250
 251  IHNVLRRKKFVLLLDDIWEKVELKVIGVPYPSGENGCKVAFTTHSKEVCG   300
 301  RMGVDNPMEISCLDTGNAWDLLKKKVGENTLGSHPDIPQLARKVSEKCCG   350
 351  LPLALNVIGETMSFKRTIQEWRHATEVLTSATDFSGMEDEILPILKYSYD   400
 401  SLNGEDAKSCFLYCSLFPEDFEIRKEMLIEYWICEGFIKEKQGREKAFNQ   450
 451  GYDILGTLVRSSLLLEGAKDKDVVSMHDMVREMALWIFSDLGKHKERCIV   500
 501  QAGIGLDELPEVENWRAVKRMSLMNNNFEKILGSPECVELITLFLQNNYK   550
 551  LVDISMEFFRCMPSLAVLDLSENHSLSELPEEISELVSLQYLDLSGTYIE   600
 601  RLPHGLHELRKLVHLKLERTRRLESISGISYLSSLRTLRLRDSKTTLDTG   650
 651  LMKELQLLEHLELITTDISSGLVGELFCYPRVGRCIQHIYIRDHWERPEE   700
 701  SVGVLVLPAIHNLCYISIWNCWMWEIMIEKTPWKKNLTNPNFSNLSNVRI   750
 751  EGCDGLKDLTWLLFAPNLINLRVWGCKHLEDIISKEKAASVLEKEILPFQ   800
 801  KLECLNLYQLSELKSIYWNALPFQRLRCLDILNNCPKLRKLPLDSKSVVK   850
 851  VEEFVIKYKEKKWIERVEWEDEATQYRFLPTCRLR                  885

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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