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

NucPred

Fetching O42726 from www.uniprot.org...

The NucPred score for your sequence is 0.84 (see score help below)

   1  MMASQEPALELNGEQRDSVSETAEVLRSKSLESFSDLVDDGKTLLYGDIS    50
  51  KSFPFKTCDRILDDIRISPWFLKKFGSSVMKQPMLQYSRERQQLQPWNLV   100
 101  HLIDQVNLRSRYDYDSMTCPGKNTISVMFALLVDPNFTPNDFDDIDKFPE   150
 151  YFFHLKITVKRRSYLENFNRHVGITHYHVLEPESLHPFDKRDIFIMEEKD   200
 201  CRLVDQSIFVSADTNKLILVEIIKPEFNSENLAEYRTAKIEERYKNACQE   250
 251  FDLLNPDDIPSQAECLKTLFMIFKNPLQRKSANSEFKIISRDSVALNSQI   300
 301  NTDWLTTMFDFSLQKTAVEDNVQSGEEYKPPDLVDYITDFKVRGIREAYT   350
 351  RKSMEVVLIGKQSMLLENELGTEKKTVAKCFSNQHFSASHTWWFNILNHQ   400
 401  HIEPFPYDINYHFINLSVAFKYIDKDIIKNYETQIALDQENISHYFDALQ   450
 451  YVTNAKGSYQLIAYCGKQDVVGYEDLNNALQVFGLDPTDIDASLLDANTM   500
 501  IEYYNSHLLRSSDNQRKDLRNALRVLGKYLGSQKMLFLVEYEPYYNVQQA   550
 551  YTLLKVDETVDDDIIQTAYTINIADAPGLKKDYDRAIFTIALDRRSIFLL   600
 601  NVLTDECPEFAQYYNCTDISYDEALNIIEIDMNASDDVILEVFQKKWSHG   650
 651  IMTGPDYLLKLKMALQNIGFTRNSKLINHFLDTGIVDVSCLPVATWPAGI   700
 701  NNVGNTCYLNSLLQFFFTIKPLRDFILNYDDDSAKLLDASEYHSRRRIGG   750
 751  REVSKQEELRSVQFVYHLRDLFNDMIHTNSRCVTPTKELVYLAFAPSNVE   800
 801  VEFGDDTVAQKELIDLTTDVVEDPTDTTRHLASCDDDIIMCQSPVALPEH   850
 851  KTSSEAGTQQYSVQVAKISADQLENTLEIGRQQDVTECIGNVLAQLEIAS   900
 901  EPLSLEDDLEQNDLVKQLFYGRIKQDLIPVNDEASVRTKYERFLSLLVNT   950
 951  GDHPKDIYDALDFYFQNDYLNLEEYGDVKRTVSISELPAVLQIQIQRVYY  1000
1001  DREKFMPFKSIEPLPFGETLYMDRYMATEDPKLLAEIQQNAELKQKLQDL  1050
1051  KQRQRKLLSQNEIGLTLKSSLIETKKFLQSGTLKAHDIDADNIPSSIAYI  1100
1101  DILINNIDEELKSLFNKITDLETTISQQFSEFKHIGYSLFAVFIHRGEAS  1150
1151  YGHYWVYIKDHTKNGIWRKYNDDSVTEVPQSEVFNFTEGNTATPYFLVYV  1200
1201  REGQEQETIEPLKRILQQQE                                1220

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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