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

NucPred

Fetching P38181 from www.uniprot.org...

The NucPred score for your sequence is 0.68 (see score help below)

   1  MFQSFFHNNGPAAAGETFSDSRSYPLTNHQEVPRNGLNELASSATKAQQQ    50
  51  PTHILNSYPITGSNPLMRASAMGATSGSINPNMSNMNEHIRVSGMGTSKP   100
 101  LDLAGKYIDHLQHKDSNTPVLDERSYYNSGVDYNFSREKNGLGAFTPFEK   150
 151  QDVFNIPDEILHEFSTSQTKTDMGIFPELNRCWITIDNKLILWNINNDNE   200
 201  YQVVDDMKHTIQKVALVRPKPNTFVPAVKHLLLISTTMELFMFAISLDKA   250
 251  TNELSVFNTHLSVPVQGIDVIDIVSHERSGRIFFAGQASGLNIWELHYSG   300
 301  SDDWFNSKCSKVCLTKSALLSLLPTNMLSQIPGVDFIQALFEDNSNGNGG   350
 351  FSQETITQLTIDQQRGIIYSLSSKSTIRAYVITEKSLEGPMSIEPAYISR   400
 401  IIGTTTARAAPILGPKYLKIVKISSVAPEENNNLFLVALTVGGVRLYFNG   450
 451  SMGRFNIEALRLESIKFPPSSVTPEVIQQELLHQQQEQAKRSFPFFSNLM   500
 501  SSEPVLLKFQKKSSVLLETTKASTIISPGIFFSAVIKSSQQTHQQEKKEN   550
 551  SSVTGTTATAGSKTVKQQPVTLQHKLFVSVPDYGILKTHGKYVENATFLE   600
 601  TAGPVQQIIPLSGLFNATTKPQGFANEFATQYTSETLRVAVLTSTSIEIY   650
 651  KYRTPDEIFEDLIDNPLPFVLNYGAAEACSTALFVTCKSNKSEKLRSNAL   700
 701  TFLTMGIPGVVDIKPVYNRYSVSTVSSLLSKPTLSTATTNLQQSITGFSK   750
 751  PSPANKEDFDLDDVILSPRFYGIALLITRLLRDIWGRHVFMTFTDNRVTS   800
 801  HAFISSSDPITPSINNLKSDEISQNRNIISKVSISKDCIEYYLSSINILN   850
 851  EFFITYGDSISQISAPYVLANNSNGRVIDKTEEVANQAESIAINAMIKMV   900
 901  QSIKEGLSFLNVLYEESEVEGFDNQYLGFKDIISFVSLDVQKDLVKLDFK   950
 951  DLFAPNDKTKSLIREILLSIINRNITKGASIEYTATALQERCGSFCSASD  1000
1001  ILGFRAIEHLRRAKEIGLRNYDSLNYHLKNATALLEQIVDDLSIEKLKEA  1050
1051  VSMMLSVNYYPKSIEFLLNIANSMDKGKLACQYVANGFLENDDRKQYYDK  1100
1101  RILVYDLVFDTLIKVDELAEKKQSSKTQNQISISNDDEVKLRQKSYEAAL  1150
1151  KYNDRLFHYHMYDWLVSQNREEKLLDIETPFILPYLMEKAGSSLKISNIL  1200
1201  WVYYSRRSKFFESAEILYRLATSNFDITLFERIEFLSRANGFCNSVSPLS  1250
1251  QKQRIVQLASRIQDACEVAGIQGDILSLVYTDARIDSAIKDELIKTLDGK  1300
1301  ILSTSELFNDFAVPLSYHEIALFIFKIADFRDHEVIMAKWDELFQSLRME  1350
1351  FNNTGKKEDSMNFINLLSNVLIKIGKNVQDSEFIFPIFELFPIVCNFFYE  1400
1401  TLPKEHIVSGSIVSIFITAGVSFNKMYYILKELIETSDSDNSVFNKEMTW  1450
1451  LIHEWYKSDRKFRDIISYNDIIHLKEYKIDNDPIEKYVKNSGNNLGICFY  1500
1501  KE                                                  1502

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.