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

NucPred

Fetching Q8N201 from www.uniprot.org...

The NucPred score for your sequence is 0.92 (see score help below)

   1  MNRAKPTTVRRPSAAAKPSGHPPPGDFIALGSKGQANESKTASTLLKPAP    50
  51  SGLPSERKRDAAAALSSASALTGLTKRPKLSSTPPLSALGRLAEAAVAEK   100
 101  RAISPSIKEPSVVPIEVLPTVLLDEIEAAELEGNDDRIEGVLCGAVKQLK   150
 151  VTRAKPDSTLYLSLMYLAKIKPNIFATEGVIEALCSLLRRDASINFKAKG   200
 201  NSLVSVLACNLLMAAYEEDENWPEIFVKVYIEDSLGERIWVDSPHCKTFV   250
 251  DNIQTAFNTRMPPRSVLLQGEAGRVAGDLGAGSSPHPSLTEEEDSQTELL   300
 301  IAEEKLSPEQEGQLMPRYEELAESVEEYVLDMLRDQLNRRQPIDNVSRNL   350
 351  LRLLTSTCGYKEVRLLAVQKLEMWLQNPKLTRPAQDLLMSVCMNCNTHGS   400
 401  EDMDVISHLIKIRLKPKVLLNHFMLCIRELLSAHKDNLGTTIKLVIFNEL   450
 451  SSARNPNNMQVLYTALQHSSELAPKFLAMVFQDLLTNKDDYLRASRALLR   500
 501  EIIKQTKHEINFQAFCLGLMQERKEPQYLEMEFKERFVVHITDVLAVSMM   550
 551  LGITAQVKEAGIAWDKGEKRNLEVLRSFQNQIAAIQRDAVWWLHTVVPSI   600
 601  SKLAPKDYVHCLHKVLFTEQPETYYKWDNWPPESDRNFFLRLCSEVPILE   650
 651  DTLMRILVIGLSRELPLGPADAMELADHLVKRAAAVQADDVEVLKVGRTQ   700
 701  LIDAVLNLCTYHHPENIQLPPGYQPPNLAISTLYWKAWPLLLVVAAFNPE   750
 751  NIGLAAWEEYPTLKMLMEMVMTNNYSYPPCTLTDEETRTEMLNRELQTAQ   800
 801  REKQEILAFEGHLAAASTKQTITESSSLLLSQLTSLDPQGPPRRPPPHIL   850
 851  DQVKSLNQSLRLGHLLCRSRNPDFLLHIIQRQASSQSMPWLADLVQSSEG   900
 901  SLDVLPVQCLCEFLLHDAVDDAASGEEDDEGESKEQKAKKRQRQQKQRQL   950
 951  LGRLQDLLLGPKADEQTTCEVLDYFLRRLGSSQVASRVLAMKGLSLVLSE  1000
1001  GSLRDGEEKEPPMEEDVGDTDVLQGYQWLLRDLPRLPLFDSVRSTTALAL  1050
1051  QQAIHMETDPQTISAYLIYLSQHTPVEEQAQHSDLALDVARLVVERSTIM  1100
1101  SHLFSKLSPSAASDAVLSALLSIFSRYVRRMRQSKEGEEVYSWSESQDQV  1150
1151  FLRWSSGETATMHILVVHAMVILLTLGPPRADDSEFQALLDIWFPEEKPL  1200
1201  PTAFLVDTSEEALLLPDWLKLRMIRSEVLRLVDAALQDLEPQQLLLFVQS  1250
1251  FGIPVSSMSKLLQFLDQAVAHDPQTLEQNIMDKNYMAHLVEVQHERGASG  1300
1301  GQTFHSLLTASLPPRRDSTEAPKPKSSPEQPIGQGRIRVGTQLRVLGPED  1350
1351  DLAGMFLQIFPLSPDPRWQSSSPRPVALALQQALGQELARVVQGSPEVPG  1400
1401  ITVRVLQALATLLSSPHGGALVMSMHRSHFLACPLLRQLCQYQRCVPQDT  1450
1451  GFSSLFLKVLLQMLQWLDSPGVEGGPLRAQLRMLASQASAGRRLSDVRGG  1500
1501  LLRLAEALAFRQDLEVVSSTVRAVIATLRSGEQCSVEPDLISKVLQGLIE  1550
1551  VRSPHLEELLTAFFSATADAASPFPACKPVVVVSSLLLQEEEPLAGGKPG  1600
1601  ADGGSLEAVRLGPSSGLLVDWLEMLDPEVVSSCPDLQLRLLFSRRKGKGQ  1650
1651  AQVPSFRPYLLTLFTHQSSWPTLHQCIRVLLGKSREQRFDPSASLDFLWA  1700
1701  CIHVPRIWQGRDQRTPQKRREELVLRVQGPELISLVELILAEAETRSQDG  1750
1751  DTAACSLIQARLPLLLSCCCGDDESVRKVTEHLSGCIQQWGDSVLGRRCR  1800
1801  DLLLQLYLQRPELRVPVPEVLLHSEGAASSSVCKLDGLIHRFITLLADTS  1850
1851  DSRALENRGADASMACRKLAVAHPLLLLRHLPMIAALLHGRTHLNFQEFR  1900
1901  QQNHLSCFLHVLGLLELLQPHVFRSEHQGALWDCLLSFIRLLLNYRKSSR  1950
1951  HLAAFINKFVQFIHKYITYNAPAAISFLQKHADPLHDLSFDNSDLVMLKS  2000
2001  LLAGLSLPSRDDRTDRGLDEEGEEESSAGSLPLVSVSLFTPLTAAEMAPY  2050
2051  MKRLSRGQTVEDLLEVLSDIDEMSRRRPEILSFFSTNLQRLMSSAEECCR  2100
2101  NLAFSLALRSMQNSPSIAAAFLPTFMYCLGSQDFEVVQTALRNLPEYALL  2150
2151  CQEHAAVLLHRAFLVGMYGQMDPSAQISEALRILHMEAVM            2190

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.