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

NucPred

Fetching O24308 from www.uniprot.org...

The NucPred score for your sequence is 0.80 (see score help below)

   1  MEKRPLQTSNAANIPSKTIEEMYQKKTQLEHILLRPDTYVGSIEKHTQNL    50
  51  WVYENDEMVHRAVSYVPGLYKIFDEILVNAADNKQRDPSMDSLKVTIDPE   100
 101  ANTVSVYNNGDGVPVEIHQEEKVYVPELIFGHLLTSSNYDDNVKKTTGGR   150
 151  NGYGAKLTNIFSTEFIIETADGRRLKKYKQVFSNNMGTKCEPVITKCKAS   200
 201  ENWTKVTFKPDLEKFKMAYLEEDVVALMKKRVLDMAGCFGKTVKVELNGT   250
 251  LIRFKSFRDYADLFLKCAEKSKPMPLPRIHAKVGDRWEICISLSDGQFQQ   300
 301  VSFVNSIATIKGGTHVDYITNQITTYIMNKVNKKKKDANVKAHTVKNHLW   350
 351  VFVNSLIDNPAFDSQTKETLTTRQASFGSKCDVPESMLKDVEKSGIVDTL   400
 401  LSWADFKQSKDLKKTDGTKTQRLRGCKAEDANEAGGRNSEKCTLILTEGD   450
 451  SAKALAMAGLSVVGRDHYGVFPLRGKLLNVREASSKQIMDNEEIQNIKKI   500
 501  LGLQQNKEYTNVKSLRYGHLMIMADQDHDGSHIKGLLINFIHSFWPSLLK   550
 551  VPSFLVEFTTPVIRASHPNKTITSFYSMPEYEAWKERLGNSATSWKIKYY   600
 601  KGLGTSTPQEGREYFSDLGRHRKDFIWDDELDGNAIELAFSKKKAEGRKI   650
 651  WMRNFEPGTCRDHEAKLINYKDFVNKELILFSRADLFGSFKKKLYKEIKV   700
 701  AQFIGYVSEHSAYHHGEQSLASTIIGMAQDFVGSNNINLLKPNGQFGTCN   750
 751  LGGKDHASARYIYTELSPVTRCLFHEHDDKLLEYLNEDGKSIEPNWYMPI   800
 801  IPLVLVNGSEGIGTGWSSYIPNYNPREIIANVRRLLNGEELVPMDPWYKG   850
 851  FRGTIEKSAKEGGYIVNGTVTEIDEQTFRITELPIRKWTQDYKQFLESIT   900
 901  DGAPNVKDPLIEDFRQNGDDAIVDIEIKMKPEKIATILQEGLFKKFKLTS   950
 951  TISTSNMHLFDAEGNKKFDTPEQILEEFFPLRLDYYEKSKEYILGNLNRL  1000
1001  LLILDNKVRFILGVVNGEIIVSNRKKAELLIELKEKGFTPMPRKGKSTKP  1050
1051  QVAGANDDDSEEQEDAEPETASQSVSVEGATWGDYDDLLSLPIGTLTLES  1100
1101  VQKLLDEKTEKEKEYEILSGTPTTSLWLKDLDEFEKKLDELDLKYAEDDR  1150
1151  KRASQGSKKANGFASKPAKKPPQPRKNTKKAKSVEPENDNSSMEIENAVE  1200
1201  AAKPAEVAKPKGRAAPKKNIQKEPEDDIQSLQERLAAYNIESSGEKSQAM  1250
1251  ESEEVQQKAAGKKQNNKRGGAKKKSSTIVLESDSDNEVNDVDDDDDDFEE  1300
1301  VQQKAAPVKKGGRKPAAQNAKKAPAKAPAKAPAAPKKRSVGTKQSAGQKL  1350
1351  LTDMLQPAEGTGTSPEKKVRKMRESPFNKKSGSILGRAAAAKDISPIADC  1400
1401  SAGSASNTPLSEDEVVEIAPQPARARPQRANRTQMKYALSESESEEDSDE  1450
1451  DAELSDFEEDDD                                        1462

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.