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

NucPred

Fetching P32319 from www.uniprot.org...

The NucPred score for your sequence is 0.52 (see score help below)

   1  MILLHFVYSLWALLLIPLTNAEEFTPKVTKTIAQDSFDILSFDDSNTLIR    50
  51  KQDTSVTISFDDGETWEKVEGIEGEITWIYIDPFNRHDRAVATAMNGSYL   100
 101  YITNDQGKSWERITLPDSGESISPRECYIETHPLNKNYFLAKCNYCEKTE   150
 151  VNNDNEENSGDEEGQFEIFNITRCTDKVFASNDGGKSFSEIKSSLERNEN   200
 201  SPISISDCGFAKTSKDSDLESSDTSIICLFQNMQLIMDEFSSPYTESKLV   250
 251  LTTDWGKSLKEFDQFKDKVVNGYRILKSHMVVLTQGDRYNDMSSMDVWVS   300
 301  NDLSNFKMAYMPTQLRHSMQGEIYEDAMGRIILPMSRERSDQEEDKGIVS   350
 351  EILISDSQGLKFSPIPWTANEVFGYINFYQPTYLKGTMIASLYPLSRRRN   400
 401  RKGKAKGVKSKGVTKISVDNGLTWTMLKVVDPDNADSFDCDITDFENCSL   450
 451  QNMFYTREGSTPTAGILMTTGIVGDGSVFDWGDQRTFISRDGGLTWKLAF   500
 501  DFPCLYAVGDYGNVIVAIPYNADEDDDPQSEFYYSLDQGKTWTEYQLETT   550
 551  IYPNEVMNTTPDGSGAKFILNGFTLAHMDGTTNFIYAIDFSTAFNDKTCE   600
 601  ENDFEDWNLAEGKCVNGVKYKIRRRKQDAQCLVKKVFEDLQLFETACDKC   650
 651  TEADYECAFEFVRDATGKCVPDYNLIVLSDVCDKTKKKTVPVKPLQLVKG   700
 701  DKCKKPMTVKSVDISCEGVPKKGTNDKEIVVTENKFDFKIQFYQYFDTVT   750
 751  DESLLMINSRGEAYISHDGGQTIKRFDSNGETIIEVVFNPYYNSSAYLFG   800
 801  SKGSIFSTHDRGYSFMTAKLPEARQLGMPLDFNAKAQDTFIYYGGKNCES   850
 851  ILSPECHAVAYLTNDGGETFTEMLDNAIHCEFAGSLFKYPSNEDMVMCQV   900
 901  KEKSSQTRSLVSSTDFFQDDKNTVFENIIGYLSTGGYIIVAVPHENNELR   950
 951  AYVTIDGTEFAEAKFPYDEDVGKQEAFTILESEKGSIFLHLATNLVPGRD  1000
1001  FGNLLKSNSNGTSFVTLEHAVNRNTFGYVDFEKIQGLEGIILTNIVSNSD  1050
1051  KVAENKEDKQLKTKITFNEGSDWNFLKPPKRDSEGKKFSCSSKSLDECSL  1100
1101  HLHGYTERKDIRDTYSSGSALGMMFGVGNVGPNLLPYKECSTFFTTDGGE  1150
1151  TWAEVKKTPHQWEYGDHGGILVLVPENSETDSISYSTDFGKTWKDYKFCA  1200
1201  DKVLVKDITTVPRDSALRFLLFGEAADIGGSSFRTYTIDFRNIFERQCDF  1250
1251  DITGKESADYKYSPLGSKSNCLFGHQTEFLRKTDENCFIGNIPLSEFSRN  1300
1301  IKNCSCTRQDFECDYNFYKANDGTCKLVKGLSPANAADVCKKEPDLIEYF  1350
1351  ESSGYRKIPLSTCEGGLKLDAPSSPHACPGKEKEFKEKYSVSAGPFAFIF  1400
1401  ISILLIIFFAAWFVYDRGIRRNGGFARFGEIRLGDDGLIENNNTDRVVNN  1450
1451  IVKSGFYVFSNIGSLLQHTKTNIAHAISKIRGRFGNRTGPSYSSLIHDQF  1500
1501  LDEADDLLAGHDEDANDLSSFMDQGSNFEIEEDDVPTLEEEHTSYTDQPT  1550
1551  TTDVPDTLPEGNEENIDRPDSTAPSNENQ                       1579

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.)

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