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

NucPred

Fetching Q80YR7 from www.uniprot.org...

The NucPred score for your sequence is 0.95 (see score help below)

   1  MTGEVGSEVNLEVNDLKLLSQEAADSPVDSGQGSFETLEPLSERDSDEEI    50
  51  FVSKKPKSRKVLQDSDSEAEDRDDAPEKPTYDDSAEDTQENLHSGKSQSR   100
 101  SFPKALADSDESDMEETPSQESPETQEAPSLEPGHQTGHSVDFTTGRKLS   150
 151  KTLLREGAEGKAKSKRRLEKEERTMEKIRRLKKKETRCEESDADRPLNDS   200
 201  GCLLEDSDLFETGLEEENDSALEDEESLESIRAAVKNKVKNRKKKEPTLE   250
 251  SEAFSLEDGNELSKGSARKERKAARLSKEALKKLHSETQRLVRESALNLP   300
 301  YHMPESKTIHDFFKRKPRPTCQGSAMALLKSCKYQSGHYKETVNPADAAG   350
 351  MGAEDSSRGSEQRTGAGIAAETNVLSEVSEEAGITAGSDEACGKDPVRRG   400
 401  ELEIEETEKHSDDRPYSPGDRSMSQQESSIPRIEDNEGHQAGDLTESDPP   450
 451  ALEGEELKTVEKTDAKEGMPEQKTQSAAAAAVAVVTAAAAPPEKVRRFTV   500
 501  DRLRQLGVDVSSQPRLGADEDSFVILDEPKTNRELEALKQRFWRHANPAA   550
 551  SPRACQTVNVNIIVKDLGTNGKEELKAEVVPVTLAAEKLEGASHAKPGEK   600
 601  LQMLKAKLQEAMKLRRLEERQKRQALFKLDNEDGFEEEEEEEEMTDESEE   650
 651  DGEEETTEYLLGSEDTETKDEKETDKENTDTSSDIGKSVALCVPKPLSSD   700
 701  STLLLFKDSSSKMGYFPTEEKSETDEYLAKQSDKLDEDDSSSLLTKESSH   750
 751  NSSFELIGSTIPSYQPCNRQIGRGASFLPTAGFRSPSPGLFRGSLISSAS   800
 801  KSSGKLSEPSLPVEDSQDLYTASPEPKTLFLGAGDFQFCLEDDTQSQLLD   850
 851  ADGFLNIRNHRHRYQAVKPQLPLASMDENAMDANMDELLDLCTGQFTSQP   900
 901  EEKCQPRKNDKKENMEELLNLCSGKFPTQDASPVAPLGLRSQEKESSTED   950
 951  PMEEALALCSGSFPTDREEEGEEEEFGDFQLVSKENGFASDEDEHSDSND  1000
1001  EELALDLEDDEEELLKQSEKMKRQMRLKKYLEDEAEVSGSDVGSEDEYDG  1050
1051  EEIDEYEEDVIDEVLPSDEELESQIKKIHMKTMLDDDKRRLRLYQERYLA  1100
1101  DGDLHSDGPGRTRKFRWKHIDDTSQMDLFHRDSDDDQVEEQLDETEAKWR  1150
1151  KERIEREQWLREQAQQGKIAADEEDIGDDSQFMMLAKKVTAKALQKNASH  1200
1201  TVVVQESKSVLRNPFETIRPGGAHQLKTGSLLNQPKAVLQKLAALSDLNP  1250
1251  SAPRNSRNFVFHTLSPTKAEAAKDSSKPQVRRRGLSSMMSPSPKRLKTNG  1300
1301  SSPGPKRSIFRYLES                                     1315

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.