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

NucPred

Fetching Q7RZD3 from www.uniprot.org...

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

   1  MDGQLSLLSPTSSSSTSHSRKRLTKKQRPPSANHRTSSSFNVESLRIDAQ    50
  51  SLDSKRSASSLRQGPNCNQSPSLARTVSVPVSVPSNAPAHTKASDLSLPR   100
 101  SHTTRSQSANRPYNPTQTIPTNRFILSPASSSQPQTQSPPYPSAVASTTV   150
 151  TSSRNKDTSKQYDPLDSCIGSFDQNKLSTDELIGAPFDGNAILSRIEATK   200
 201  LSAAPAPTSTTTIAHSNNISPRRVAPPPPPPPPALSRSNTDSKAARSSKP   250
 251  SKSPKSTISNKTMGASSFRHSASFSSAEQLPPSEKPSKSESSSSSNKRHS   300
 301  GDGKESRVPGMLRKKSGFSGFMNSLVGSPKKPLISAPENPVHVTHVGYDS   350
 351  NTGQFTGLPKEWQRLISESGITEKDRREHPQILVDVLTFYKETTEKPQED   400
 401  QQLEKFHDARATDFRSPPVTGTAPLVLQTGVGYAHGPMSPMISPPASPRF   450
 451  PQVGHEGSFENPRAPPPVPKGPGPLPAKDINLIPSRPAPKPPAISTRPLV   500
 501  PPASLPAKDSGIGMPPPGDEAPMPYLPPKDNVQHMYQEEHRNRSRSNSRT   550
 551  NGAAPFSPVQASPLHPIATANQTAAYQQQLLQHQQEQAMAQAQAAMSGQL   600
 601  SRAASKRQQPTPPTSQHQHPRQPDINGAPRMPQTQGAAPQASARPRHRPR   650
 651  QSNAIDVVASLKRICSDGDPREIYRGFTKIGQGASGGVYTGHERGSNRLV   700
 701  AIKQMNLEQQPKKDLIINEILVMKESSHPNIVNFIDSYLCAGELWVVMEY   750
 751  MEGGSLTDVVTFNIMTEGQIASVCRETLRGLQHLHSKGVIHRDIKSDNIL   800
 801  LSMEGNIKLTDFGFCATINEAQSKRTTMVGTPYWMAPEVVTRKEYGRKVD   850
 851  IWSLGIMAIEMIEGEPPYLTESPLRALWLIATNGTPHIKDEQSLSPVFRD   900
 901  FLYFALKVDPEKRASAHDLLRHDFMNKCVDLSTLAPLVRAAREARAQEKA   950
 951  RKGQ                                                 954

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.