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

NucPred

Fetching Q9ZWC8 from www.uniprot.org...

The NucPred score for your sequence is 0.33 (see score help below)

   1  MKQRWLLVLILCFFTTSLVMGIHGKHLINDDFNETALLLAFKQNSVKSDP    50
  51  NNVLGNWKYESGRGSCSWRGVSCSDDGRIVGLDLRNSGLTGTLNLVNLTA   100
 101  LPNLQNLYLQGNYFSSGGDSSGSDCYLQVLDLSSNSISDYSMVDYVFSKC   150
 151  SNLVSVNISNNKLVGKLGFAPSSLQSLTTVDLSYNILSDKIPESFISDFP   200
 201  ASLKYLDLTHNNLSGDFSDLSFGICGNLTFFSLSQNNLSGDKFPITLPNC   250
 251  KFLETLNISRNNLAGKIPNGEYWGSFQNLKQLSLAHNRLSGEIPPELSLL   300
 301  CKTLVILDLSGNTFSGELPSQFTACVWLQNLNLGNNYLSGDFLNTVVSKI   350
 351  TGITYLYVAYNNISGSVPISLTNCSNLRVLDLSSNGFTGNVPSGFCSLQS   400
 401  SPVLEKILIANNYLSGTVPMELGKCKSLKTIDLSFNELTGPIPKEIWMLP   450
 451  NLSDLVMWANNLTGTIPEGVCVKGGNLETLILNNNLLTGSIPESISRCTN   500
 501  MIWISLSSNRLTGKIPSGIGNLSKLAILQLGNNSLSGNVPRQLGNCKSLI   550
 551  WLDLNSNNLTGDLPGELASQAGLVMPGSVSGKQFAFVRNEGGTDCRGAGG   600
 601  LVEFEGIRAERLERLPMVHSCPATRIYSGMTMYTFSANGSMIYFDISYNA   650
 651  VSGFIPPGYGNMGYLQVLNLGHNRITGTIPDSFGGLKAIGVLDLSHNNLQ   700
 701  GYLPGSLGSLSFLSDLDVSNNNLTGPIPFGGQLTTFPVSRYANNSGLCGV   750
 751  PLRPCGSAPRRPITSRIHAKKQTVATAVIAGIAFSFMCFVMLVMALYRVR   800
 801  KVQKKEQKREKYIESLPTSGSCSWKLSSVPEPLSINVATFEKPLRKLTFA   850
 851  HLLEATNGFSAETMVGSGGFGEVYKAQLRDGSVVAIKKLIRITGQGDREF   900
 901  MAEMETIGKIKHRNLVPLLGYCKVGEERLLVYEYMKWGSLETVLHEKSSK   950
 951  KGGIYLNWAARKKIAIGAARGLAFLHHSCIPHIIHRDMKSSNVLLDEDFE  1000
1001  ARVSDFGMARLVSALDTHLSVSTLAGTPGYVPPEYYQSFRCTAKGDVYSY  1050
1051  GVILLELLSGKKPIDPGEFGEDNNLVGWAKQLYREKRGAEILDPELVTDK  1100
1101  SGDVELFHYLKIASQCLDDRPFKRPTMIQLMAMFKEMKADTEEDESLDEF  1150
1151  SLKETPLVEESRDKEP                                    1166

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.