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

NucPred

Fetching P37709 from www.uniprot.org...

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

   1  MSPLLKSIIDIIEIFNQYASHDCDGAVLKKKDLKILLDREFGAVLQRPHD    50
  51  PETVDVMLELLDRDSDGLVGFDEFCLLIFKLAQAAYYALGQASGLDEEKR   100
 101  SHGEGKGRLLQNRRQEDQRRFELRDRQFEDEPERRRWQKQEQERELAEEE   150
 151  EQRKKRERFEQHYSRQYRDKEQRLQRQELEERRAEEEQLRRRKGRDAEEF   200
 201  IEEEQLRRREQQELKRELREEEQQRRERREQHERALQEEEEQLLRQRRWR   250
 251  EEPREQQQLRRELEEIREREQRLEQEERREQQLRREQRLEQEERREQQLR   300
 301  RELEEIREREQRLEQEERREQRLEQEERREQQLKRELEEIREREQRLEQE   350
 351  ERREQLLAEEVREQARERGESLTRRWQRQLESEAGARQSKVYSRPRRQEE   400
 401  QSLRQDQERRQRQERERELEEQARRQQQWQAEEESERRRQRLSARPSLRE   450
 451  RQLRAEERQEQEQRFREEEEQRRERRQELQFLEEEEQLQRRERAQQLQEE   500
 501  DSFQEDRERRRRQQEQRPGQTWRWQLQEEAQRRRHTLYAKPGQQEQLREE   550
 551  EELQREKRRQEREREYREEEKLQREEDEKRRRQERERQYRELEELRQEEQ   600
 601  LRDRKLREEEQLLQEREEERLRRQERERKLREEEQLLRQEEQELRQERER   650
 651  KLREEEQLLRREEQELRQERERKLREEEQLLQEREEERLRRQERARKLRE   700
 701  EEQLLRQEEQELRQERERKLREEEQLLRREEQLLRQERDRKLREEEQLLQ   750
 751  ESEEERLRRQEREQQLRRERDRKFREEEQLLQEREEERLRRQERERKLRE   800
 801  EEQLLQEREEERLRRQERERKLREEEQLLQEREEERLRRQERERKLREEE   850
 851  QLLRQEEQELRQERARKLREEEQLLRQEEQELRQERDRKLREEEQLLRQE   900
 901  EQELRQERDRKLREEEQLLQESEEERLRRQERERKLREEEQLLRREEQEL   950
 951  RRERARKLREEEQLLQEREEERLRRQERARKLREEEQLLRREEQELRQER  1000
1001  DRKFREEEQLLQEREEERLRRQERDRKFREEERQLRRQELEEQFRQERDR  1050
1051  KFRLEEQIRQEKEEKQLRRQERDRKFREEEQQRRRQEREQQLRRERDRKF  1100
1101  REEEQLLQEREEERLRRQERARKLREEEQLLRREEQLLRQERDRKFREEE  1150
1151  QLLQESEEERLRRQERERKLREEEQLLQEREEERLRRQERARKLREEEQL  1200
1201  LRQEEQELRQERARKLREEEQLLRQEEQELRQERDRKFREEEQLLRREEQ  1250
1251  ELRRERDRKFREEEQLLQEREEERLRRQERARKLREEEEQLLFEEQEEQR  1300
1301  LRQERDRRYRAEEQFAREEKSRRLERELRQEEEQRRRRERERKFREEQLR  1350
1351  RQQEEEQRRRQLRERQFREDQSRRQVLEPGTRQFARVPVRSSPLYEYIQE  1400
1401  QRSQYRP                                             1407

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.