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

NucPred

Fetching O09053 from www.uniprot.org...

The NucPred score for your sequence is 0.93 (see score help below)

   1  METTSLQRKFPEWMSMQSQRCATEEKACVQKSVLEDNLPFLEFPGSIVYS    50
  51  YEASDCSFLSEDISMRLSDGDVVGFDMEWPPIYKPGKRSRVAVIQLCVSE   100
 101  SKCYLFHISSMSVFPQGLKMLLENKSIKKAGVGIEGDQWKLLRDFDVKLE   150
 151  SFVELTDVANEKLKCAETWSLNGLVKHVLGKQLLKDKSIRCSNWSNFPLT   200
 201  EDQKLYAATDAYAGLIIYQKLGNLGDTAQVFALNKAEENLPLEMKKQLNS   250
 251  ISEEMRDLANRFPVTCRNLETLQRVPVILKSISENLCSLRKVICGPTNTE   300
 301  TRLKPGSSFNLLSSEDSAAAGEKEKQIGKHSTFAKIKEEPWDPELDSLVK   350
 351  QEEVDVFRNQVKQEKGESENEIEDNLLREDMERTCVIPSISENELQDLEQ   400
 401  QAKEEKYNDVSHQLSEHLSPNDDENDSSYIIESDEDLEMEMLKSLENLNS   450
 451  DVVEPTHSTWLEMGTNGRLPPEEEDGHGNEAIKEEQEEEDHLLPEPNAKQ   500
 501  INCLKTYFGHSSFKPVQWKVIHSVLEERRDNVVVMATGYGKSLCFQYPPV   550
 551  YTGKIGIVISPLISLMEDQVLQLELSNVPACLLGSAQSKNILGDVKLGKY   600
 601  RVIYITPEFCSGNLDLLQQLDSSIGITLIAVDEAHCISEWGHDFRSSFRM   650
 651  LGSLKTALPLVPVIALSATASSSIREDIISCLNLKDPQITCTGFDRPNLY   700
 701  LEVGRKTGNILQDLKPFLVRKASSAWEFEGPTIIYCPSRKMTEQVTAELG   750
 751  KLNLACRTYHAGMKISERKDVHHRFLRDEIQCVVATVAFGMGINKADIRK   800
 801  VIHYGAPKEMESYYQEIGRAGRDGLQSSCHLLWAPADFNTSRNLLIEIHD   850
 851  EKFRLYKLKMMVKMEKYLHSSQCRRRIILSHFEDKCLQKASLDIMGTEKC   900
 901  CDNCRPRLNHCLTANNSEDASQDFGPQAFQLLSAVDILQEKFGIGIPILF   950
 951  LRGSNSQRLPDKYRGHRLFGAGKEQAESWWKTLSHHLIAEGFLVEVPKEN  1000
1001  KYIKTCSLTKKGRKWLGEASSQSPPSLLLQANEEMFPRKVLLPSSNPVSP  1050
1051  ETTQHSSNQNPAGLTTKQSNLERTHSYKVPEKVSSGTNIPKKSAVMPSPG  1100
1101  TSSSPLEPAISAQELDARTGLYARLVEARQKHANKMDVPPAILATNKVLL  1150
1151  DMAKMRPTTVENMKQIDGVSEGKAALLAPLLEVIKHFCQVTSVQTDLLSS  1200
1201  AKPHKEQEKSQEMEKKDCSLPQSVAVTYTLFQEKKMPLHSIAENRLLPLT  1250
1251  AAGMHLAQAVKAGYPLDMERAGLTPETWKIIMDVIRNPPINSDMYKVKLI  1300
1301  RMLVPENLDTYLIHMAIEILQSGSDSRTQPPCDSSRKRRFPSSAESCESC  1350
1351  KESKEAVTETKASSSESKRKLPEWFAKGNVPSADTGSSSSMAKTKKKGLF  1400
1401  S                                                   1401

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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