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

NucPred

Fetching Q10573 from www.uniprot.org...

The NucPred score for your sequence is 0.85 (see score help below)

   1  MNSIKIDSSTKIVIEYIDKLRNCSNEKRQKVSSVIRPVDFPGISTQQLCD    50
  51  ILIRFAYNGTYIDDVFRDHLLKLVVDKSITWNQVIHSVINTKTDRIYSKC   100
 101  LQCELIREMVNYVQIKSFSDKLHADELISIMKPTVFFLAQLIQDVLSDED   150
 151  ELEMIQIEYGDVRKAYYKPLEALSAFIHDDLCSSLLAFSEASEITHQLEL   200
 201  CRDSFSKLRSPDKSATTLVEMLIERHIEKCKPVKFQYIPEGIALFDLKNP   250
 251  SIRILIPIFACFKNHESSKLMAETIQTFAEIMRFYGPDVIFDILHGAILL   300
 301  KCEESMDLLHFPKQHRADFRWQSTTFFYKKLPQIIEYLIRSEKLTVAEVQ   350
 351  FGLEKALTDLSMMFDAADVAWQNASFLTLLNELEPVLGKTITDPLRLRRR   400
 401  EHMKTNDQLLPFADTDNQLIENTDIDKLLNAVKEVMNLQFGQTEEFSKLF   450
 451  VDKVKTGQTDNFDAITSILITEGRLMEVGKAFVLKNVEAQRSSAVGVNER   500
 501  IQIFDDTFILLSRILIKNPSVSINMFVNGGPGKSDAEQTMFYKWSMRYVK   550
 551  RVAKHRDPEPKDETEYIALRKEVEMLMRLANAEVGIEDDLENDVEEEMPE   600
 601  VQEPNIETQNVDEISIPDPLHLLIENDPTVTAESKETEEVKFNPEGVEQM   650
 651  DTNEKPAEISDSLIEPTLLEEPKDILENIIVPIIKVEAPKPDSPIKKKKD   700
 701  PDVTWHEVHCPLPRISRRTARAYLAQMKEGIPFWKTDDPNLNIGSILAAI   750
 751  PRLGQLLVDEHEEKRNRIDRKSAEENMTNILHAIESMPSLFLCLLEWLDC   800
 801  EPESGARTSLAFTINLSLERYLAVSTHGINYMKWIFIKSTVQQMIDELVD   850
 851  KSPAFPEVTCTAFSTARRFCPFVGRNENPDQLKLKHAWYYMRQQAWASPH   900
 901  ALRLLEHANTAREYDVWSHIYISKTIKSGCGDIMTSSVDMIFSFLMLDDL   950
 951  NSIIRIHESLMAFWLSEDAGQCQADGRFDPLSIRVVIRLMTQVLLIAEWT  1000
1001  LDRLLNEDPAFVERLNLKEVKAPEPEDPDKREKWIFLLRSMLERTINRFF  1050
1051  KIVRKGLLSNVVNTIIQLLKSIAGSADCKAKRLLVKRIPPDLIFQLAYIE  1100
1101  PSSVDYSLMNIYCDPDNKEHTQTKIMFLCALRRSQSFSF             1139

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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