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

NucPred

Fetching Q5B1T9 from www.uniprot.org...

The NucPred score for your sequence is 0.90 (see score help below)

   1  MTYFLPSFFQKRLLKYALSRLEFIDTEALDPDSLGIRWGQRSTVELRDIG    50
  51  LRLEKLATLLHLPASSKLLAARIRLLRLTVPADIYSSGIICEASGIDVHL   100
 101  HFPSEKEASAARTSLFESHEFGHESIIPNPADLAESFLQAEPKEEKEELQ   150
 151  AALSSRSEILHRTSSSISDDEEELGLGDETVSLPSFVAAFLKGVADRLQV   200
 201  HVDEVSIRLDVEMKQDGPSKRQPEEKPDLISGLLIIRQISVGAVVTASSS   250
 251  DELHPGKRPISLSAIELALVSEPIVFSNYSQFTAPTSPSSPLRSKSSQSS   300
 301  SPASSVPPAPSSASSSTHAMMASTIFEPSQPTVDIPEDEHGVAKLEGSIY   350
 351  TYDGRFSDADTDENRSHGYLEESQDLSEKLLDDPAYLDSVIDSHLQDDDS   400
 401  EGLGDIQPGDIKPGDSNQSYTDRSTPSQPSLGFQAPALVDPHSRSGDHSV   450
 451  AVASMPNIRNIERPLDQYGPQSSMPVLSRPLTQDITGNNSQESQPAPPSP   500
 501  SETSSSGSVSAYFNNDLSESRLFSPEEAQSMYMSAMSHRSDSRSFIPDIP   550
 551  GAWDSPEATLRREAIQHHGSLGHTDETTEALEDQDRTPVSTPKPTDRETK   600
 601  YHSGHTLGQQQESYSESTDKHSIQPSPDVNETTKVSKSFLHIDKVTIWIP   650
 651  STKPTKDHQDISEPLDARSAGGSFKDSTTHLEASQVRERSVSFSKPPSSL   700
 701  RTRRDSTELALAGTDTKSYTKYGLGSLNSTNISVEISCIEVQFDISIGWL   750
 751  MIKIGQRVLQGFGDIGQPKTSKKSTERDVQSPQDIDFTLGTLCIKFVELV   800
 801  PGKSFPLEEQQDPSTTFFDLLHDSVLLQSTVSGVQAHYSNANNVTDFSAA   850
 851  VSKFTIKFATEDLISFSEDMKMRESTKDGLLPTGNDIVLSLSKSQDSATF   900
 901  KTDTLPLCVSLNIQRLEDLLGRFGGLSTIMELGSSISSMSGSKGPKNDVP   950
 951  RRTRGVRFAGSPQSPVRSPTPSVPWKVNARIGGIVLDVSGENHYLTLRTT  1000
1001  AAKIISRYEMMAVQIDKAKLSGPLSIHSGKDAPAKVSLNNIRVEFLYTPK  1050
1051  EPDLDRLLSLITPSKDKYDDDDDIMIDTLFRQRKQGSVLRVTVSGAKVVV  1100
1101  SRPELGPLQQLGEELGRLSSVAKYLPEDDRPGILTLVLIRDVEARVHIGG  1150
1151  QIGTIAANLENAEAAHISIPSLVAGQLGSIRVTRNGDEELIGEALPPKPG  1200
1201  FAPLPVLMVRFIADEMEPTIRVKLHNLRVEYTVSAAMAFLGVSDEMTPGD  1250
1251  VAANMASSLANIAELHPPLQDLEEGSTTPVKPMKLKVSMRDCVLGLNPRG  1300
1301  TAAKGLIVLANSTFNGAIHDISSSEIALDLRKAFVMIIDDVRNTDARGNL  1350
1351  PRRRAASPQSDQIQAFTDMGYVSVSSISSATAVVRIMRLTENGAKSLDVE  1400
1401  VRDDLLILETCADSTQTLISILSGLQPPSPPSQLKKYRTEVVPIRDMLDS  1450
1451  LSGDAFAADNLPIGAADQAEIQDHIPERDIDYVTDFHSMTASEEELASGP  1500
1501  SSQVRDSFHSQCHVSSSMSELDFREDHFMQQSSVGGTAHRWDSTHNTYDL  1550
1551  SDDSKLQNSPLRVRVRDAHVIWNLFDGYDWQRTRDTISKAVKDVEKKATD  1600
1601  RRTSGRATAAFEDDEEAIIGDCLFNSVYIGIPANRDPAELRNDINRNIDD  1650
1651  LISETGSYATTSTVTTARRNMSPGFRGKKLRLSRSKDHKMTFELKGICAD  1700
1701  LVVFPPGSQETMSSLDVRVKELEIFDHIPTSTWRKFATYMNEAGEKELGT  1750
1751  SMVHLEILTVRPVSYLAASELILKATVLPLRLHVDQDALDFMSRFFEFRD  1800
1801  DSTAPSGPSQEPPYLQRSEINAIPVKLDFKPKRVDYAGLRSGRTTEFMNF  1850
1851  FILDEADMVLKHVIVYGAKGFDKLGQALNDVWMPDIKNNQLPGVLAGLAP  1900
1901  IRSLVNVGSGVKDLVAVPVREYRKDGRIVRSIQKGAFAFAKTTSNELVKL  1950
1951  GAKLAIGTQTVLQGAEELLSPPTGQATTGEEDEIDEDEAPKKISLYADQP  2000
2001  VGVVQGLRGGFRGLERDLLLTRDAIIAVPGEVQESGSAKAAAKAVLKRAP  2050
2051  TVILRPAIGVSKAVGQTLLGAGNSMDPSNRRKIEDKYKRH            2090

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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