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

NucPred

Fetching Q8NG31 from www.uniprot.org...

The NucPred score for your sequence is 0.98 (see score help below)

   1  MDGVSSEANEENDNIERPVRRRHSSILKPPRSPLQDLRGGNERVQESNAL    50
  51  RNKKNSRRVSFADTIKVFQTESHMKIVRKSEMEGCSAMVPSQLQLLPPGF   100
 101  KRFSCLSLPETETGENLLLIQNKKLEDNYCEITGMNTLLSAPIHTQMQQK   150
 151  EFSIIEHTRERKHANDQTVIFSDENQMDLTSSHTVMITKGLLDNPISEKS   200
 201  TKIDTTSFLANLKLHTEDSRMKKEVNFSVDQNTSSENKIDFNDFIKRLKT   250
 251  GKCSAFPDVPDKENFEIPIYSKEPNSASSTHQMHVSLKEDENNSNITRLF   300
 301  REKDDGMNFTQCHTANIQTLIPTSSETNSRESKGNDITIYGNDFMDLTFN   350
 351  HTLQILPATGNFSEIENQTQNAMDVTTGYGTKASGNKTVFKSKQNTAFQD   400
 401  LSINSADKIHITRSHIMGAETHIVSQTCNQDARILAMTPESIYSNPSIQG   450
 451  CKTVFYSSCNDAMEMTKCLSNMREEKNLLKHDSNYAKMYCNPDAMSSLTE   500
 501  KTIYSGEENMDITKSHTVAIDNQIFKQDQSNVQIAAAPTPEKEMMLQNLM   550
 551  TTSEDGKMNVNCNSVPHVSKERIQQSLSNPLSISLTDRKTELLSGENMDL   600
 601  TESHTSNLGSQVPLAAYNLAPESTSESHSQSKSSSDECEEITKSRNEPFQ   650
 651  RSDIIAKNSLTDTWNKDKDWVLKILPYLDKDSPQSADCNQEIATSHNIVY   700
 701  CGGVLDKQITNRNTVSWEQSLFSTTKPLFSSGQFSMKNHDTAISSHTVKS   750
 751  VLGQNSKLAEPLRKSLSNPTPDYCHDKMIICSEEEQNMDLTKSHTVVIGF   800
 801  GPSELQELGKTNLEHTTGQLTTMNRQIAVKVEKCGKSPIEKSGVLKSNCI   850
 851  MDVLEDESVQKPKFPKEKQNVKIWGRKSVGGPKIDKTIVFSEDDKNDMDI   900
 901  TKSYTIEINHRPLLEKRDCHLVPLAGTSETILYTCRQDDMEITRSHTTAL   950
 951  ECKTVSPDEITTRPMDKTVVFVDNHVELEMTESHTVFIDYQEKERTDRPN  1000
1001  FELSQRKSLGTPTVICTPTEESVFFPGNGESDRLVANDSQLTPLEEWSNN  1050
1051  RGPVEVADNMELSKSATCKNIKDVQSPGFLNEPLSSKSQRRKSLKLKNDK  1100
1101  TIVFSENHKNDMDITQSCMVEIDNESALEDKEDFHLAGASKTILYSCGQD  1150
1151  DMEITRSHTTALECKTLLPNEIAIRPMDKTVLFTDNYSDLEVTDSHTVFI  1200
1201  DCQATEKILEENPKFGIGKGKNLGVSFPKDNSCVQEIAEKQALAVGNKIV  1250
1251  LHTEQKQQLFAATNRTTNEIIKFHSAAMDEKVIGKVVDQACTLEKAQVES  1300
1301  CQLNNRDRRNVDFTSSHATAVCGSSDNYSCLPNVISCTDNLEGSAMLLCD  1350
1351  KDEEKANYCPVQNDLAYANDFASEYYLESEGQPLSAPCPLLEKEEVIQTS  1400
1401  TKGQLDCVITLHKDQDLIKDPRNLLANQTLVYSQDLGEMTKLNSKRVSFK  1450
1451  LPKDQMKVYVDDIYVIPQPHFSTDQPPLPKKGQSSINKEEVILSKAGNKS  1500
1501  LNIIENSSAPICENKPKILNSEEWFAAACKKELKENIQTTNYNTALDFHS  1550
1551  NSDVTKQVIQTHVNAGEAPDPVITSNVPCFHSIKPNLNNLNGKTGEFLAF  1600
1601  QTVHLPPLPEQLLELGNKAHNDMHIVQATEIHNINIISSNAKDSRDEENK  1650
1651  KSHNGAETTSLPPKTVFKDKVRRCSLGIFLPRLPNKRNCSVTGIDDLEQI  1700
1701  PADTTDINHLETQPVSSKDSGIGSVAGKLNLSPSQYINEENLPVYPDEIN  1750
1751  SSDSINIETEEKALIETYQKEISPYENKMGKTCNSQKRTWVQEEEDIHKE  1800
1801  KKIRKNEIKFSDTTQDREIFDHHTEEDIDKSANSVLIKNLSRTPSSCSSS  1850
1851  LDSIKADGTSLDFSTYRSSQMESQFLRDTICEESLREKLQDGRITIREFF  1900
1901  ILLQVHILIQKPRQSNLPGNFTVNTPPTPEDLMLSQYVYRPKIQIYREDC  1950
1951  EARRQKIEELKLSASNQDKLLVDINKNLWEKMRHCSDKELKAFGIYLNKI  2000
2001  KSCFTKMTKVFTHQGKVALYGKLVQSAQNEREKLQIKIDEMDKILKKIDN  2050
2051  CLTEMETETKNLEDEEKNNPVEEWDSEMRAAEKELEQLKTEEEELQRNLL  2100
2101  ELEVQKEQTLAQIDFMQKQRNRTEELLDQLSLSEWDVVEWSDDQAVFTFV  2150
2151  YDTIQLTITFEESVVGFPFLDKRYRKIVDVNFQSLLDEDQAPPSSLLVHK  2200
2201  LIFQYVEEKESWKKTCTTQHQLPKMLEEFSLVVHHCRLLGEEIEYLKRWG  2250
2251  PNYNLMNIDINNNELRLLFSSSAAFAKFEITLFLSAYYPSVPLPSTIQNH  2300
2301  VGNTSQDDIATILSKVPLENNYLKNVVKQIYQDLFQDCHFYH          2342

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.