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

NucPred

Fetching Q9C8H1 from www.uniprot.org...

The NucPred score for your sequence is 0.25 (see score help below)

   1  MGFEALNWYCKPIAEGFWEKTPDGAFGAYTPCAIDSLVMIVSNSVLLGLC    50
  51  FYRIWITLYNAKAQIYVLRKMYYHCVLWILACCCVVEPVLRLVMGISLFD   100
 101  MGDETDLPPFEVASLMVEAFAWFAMLVLIGLETKQYVKEFRWYVRFGVVY   150
 151  VLVADAVLLDLVLPLKNSINRTALYLCISSRCCQALFGILLLVYIPELDL   200
 201  YPDYHILNNESLDNVEYDALPGGVNICPERYASIFSGIYFSWMTPLMQLG   250
 251  YRKPITERDVWQLDQWDQTETLIKRFQRCWTEESRRPKPWLLRALNNSLG   300
 301  RRFWLGGIFKVGHDLSQFVGPVILSHILQSMIEGDPAWVGYVYAFLIFFG   350
 351  VTFGVLCQSQYFQHVGRVGFRLRSTLVAAIFHKSLRLTNKARKNFASGKV   400
 401  TNMITTDANALQLIAEQLHGLWSAPFRIIVSMVLLYQQLGVASIFGSLIL   450
 451  FLLIPFQTLIVRKMRKLTKEGLQWTDKRVGIIYEILASMDIVKCYAWEKS   500
 501  FESRIQGIRNEELSWFRKAQLLSAFNSFILNSTPVVVTLVSFGVYVLLGG   550
 551  DLTPARAFTSLSLFAVLRSPLSTLPNLISQAVNANVSLQRIEELLLSEER   600
 601  ILAQNPPLQPGAPAISIKNGYFSWDSKTSKPTLSDINLEIPVGSLVAIVG   650
 651  GTGEGKTSLISAMLGELSHAETSSVDIRGSVAYVPQVSWIFNATLRENIL   700
 701  FGSDFESERYWRAIDVTALQHDLDLFPGRDRTEIGERGVNISGGQKQRVS   750
 751  MARAVYSNSDIYIFDDPFSALDAHVAHQVFDSCVKHELKGKTRVLVTNQL   800
 801  HFLPLMDRIILVSEGMIKEEGNFAELSKSGTLFKKLMENAGKMDATQEVN   850
 851  TNDENISKLGPTVTIDVSERSLGSIQQGKWGRSMLVKQEERETGIISWDV   900
 901  VMRYNKAVGGLWVVMILLVCYLTTEVLRVLSSTWLSIWTDQSTPKSYSPG   950
 951  FYIVVYALLGFGQVAVTFTNSFWLISSSLHAAKRLHDAMLNSILRAPMLF  1000
1001  FETNPTGRVINRFSKDIGDIDRNVANLMNMFMNQLWQLLSTFALIGIVST  1050
1051  ISLWAIMPLLILFYATYIYYQSTSREVRRLDSVTRSPIYALFGEALNGLS  1100
1101  SIRAYKAYDRMAKINGKSMDNNIRFTLASTSSNRWLTIRSESLGGVMIWL  1150
1151  TATFAVLRYGNAENQAVFASTMGLLLSYTLNITTLLSGVLRQASKAENSL  1200
1201  NSVERVGNYIDLPSEATAIIENNRPVSGWPSRGSIQFEDVHLRYRPGLPP  1250
1251  VLHGLSFFVYPSEKVGVVGRTGAGKSSMLNALYRIVELEKGRILIDDYDV  1300
1301  AKFGLTDLRRVLSIIPQSPVLFSGTVRFNIDPFSEHNDADLWEALERAHI  1350
1351  KDVIDRNPFGLDAEVSEGGENFSVGQRQLLSLARALLRRSKILFLDEATA  1400
1401  SVDVRTDSLIQRTIREEFKSCTMLIIAHRLNTIIDCDKILVLSSGQVLEY  1450
1451  DSPQELLSRDTSAFFKMVHSTGPENGQYLSNLVFERRGNGMSQGG       1495

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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