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

NucPred

Fetching Q8VBX6 from www.uniprot.org...

The NucPred score for your sequence is 0.50 (see score help below)

   1  MLETIDKNRALQAAERLQSKLKERGDVANEDKLSLLKSVLQSPLFSQILN    50
  51  LQTSLQQLKDQVNIATLATAAADHAHTPQFSSAVISNLQSESLLLSPNHG   100
 101  NLEALPGPGAPAVMDGKPTCDELDQLIKNMAQGRHVEIFELLKPPCGGLG   150
 151  FSVVGLRSENRGELGIFVQEIQEGSVAHRDGRLKETDQILAINGQVLDQT   200
 201  ITHQQAISILQKAKDTVQLVIARGSLPPVSSPRISRSPSAASTISAHSNP   250
 251  MHWQHVETIELVNDGSGLGFGIIGGKATGVIVKTILPGGVADQHGRLCSG   300
 301  DHILKIGDTDLAGMSSEQVAQVLRQCGNRVKLMIARGAVEETPASSSLGI   350
 351  TLSSSTSSTSEMRVDASTQKNDESETFDVELTKNVQGLGITIAGYIGDKK   400
 401  LEPSGIFVKSITKSSAVEHDGRIQIGDQIIAVDGTNLQGFTNQQAVEVLR   450
 451  HTGQTVRLTLMRKGASQEAELTSRGDTAKDVDLPAENCEKDEESLSLKRN   500
 501  TSILPIEEEGFPLLSAELEEAEDVQQEAALLTKWQRIMGINYEIVVAHVS   550
 551  KFSENSGLGISLEATVGHHFIRSVLPEGPVGHSGKLFSGDELLEVNGINL   600
 601  LGENHQDVVNILKELPIDVTMVCCRRTVPPIALSEMDSLDINDLELTEKP   650
 651  HIDLGEFIGSSETEDPMLAMSDVDQNAEEIQTPLAMWEAGGQSIELEKGS   700
 701  RGLGFSILDYQDPIDPANTVIVIRSLVPGGIAEKDGRLFPGDRLMFVNDI   750
 751  NLENSTLEEAVEALKGAPSGMVRIGVAKPLPLSPEEGYVSAKEDAFLCSP   800
 801  HACKESGLSDKALFRADLALIDTPDAESIAESRFESQFSPDNDSVYSTQA   850
 851  SIFSLHDGTCSDGMNYGPSLPSSPPKDVTSSSEVVLGLHLSLEELYTQNL   900
 901  LQRQHAGSPPTDMRPAPTSGFPISDYTTTNAVEQKYECANPVAWPHSQLP   950
 951  SSLSTSELAPALPAVAQKYLTDQSSLASDAESVNLQSMSQEAFERTVTIA  1000
1001  KGSSSLGMTVSANKDGLGVIVRSIIHGGAISRDGRIAVGDCILSINEEST  1050
1051  ISLTNAQARAMLRRHSLIGPDIKITYVPAEHLEEFRVSFGQQAGGIMALD  1100
1101  IFSSYTGRDIPELPEREEGEGEESELQNAAYSSWSQPRRVELWREPSKSL  1150
1151  GISIVGGRGMGSRLSNGEVMRGIFIKHVLEDSPAGKNGTLKPGDRIIEVD  1200
1201  GMDLRDASHEQAVEAIRKAGNPVVFMVQSIINRPRKSPLPSLPHSLYPKY  1250
1251  SFSSTNPFADSLQLTTDQAPSQSESETEKPALCNVPPSSPSVFSEMGSDC  1300
1301  AQPSATAVSEDEDKEDEFGYSWKNIQERYGSLTGQLHVIELEKGQSGLGL  1350
1351  SLAGNKDRTRMSVFIVGIDPTGAAGRDGRLQIADELLEINGQILYGRSHQ  1400
1401  NASSIIKCAPSKVKIIFIRNADAVNQMAVCPGIAADSPSSTSDSPQNKEV  1450
1451  EPCSTTSASAADLSSLTDVYQLELPKDQGGLGIAICEEDTINGVMIESLT  1500
1501  EHGGAAKDGRLKPGDHILAVDDEVVAGCPVEKFISLLKTAKATVKLTVRA  1550
1551  ENPACPAVPSSAVTVSGERKDNSQTPAVPAPDLEPIPSTSRSSTPAVFAS  1600
1601  DPATCPIIPGCETTIEISKGQTGLGLSIVGGSDTLLGAIIIHEVYEEGAA  1650
1651  CKDGRLWAGDQILEVNGIDLRKATHDEAINVLRQTPQRVRLTLYRDEAPY  1700
1701  KEEDVCDTFTIELQKRPGKGLGLSIVGKRNDTGVFVSDIVKGGIADADGR  1750
1751  LMQGDQILMVNGEDVRHATQEAVAALLKCSLGAVTLEVGRVKAAPFHSER  1800
1801  RPSQSSQVSESSLSSFTPPLSGINTSESLESNSKKNALASEIQGLRTVEI  1850
1851  KKGPADSLGLSIAGGVGSPLGDVPIFIAMMHPNGVAAQTQKLRVGDRIVT  1900
1901  ICGTSTDGMTHTQAVNLMKNASGSIEVQVVAGGDVSVVTGHQQELANPCL  1950
1951  AFTGLTSSSIFPDDLGPPQSKTITLDRGPDGLGFSIVGGYGSPHGDLPIY  2000
2001  VKTVFAKGAAAEDGRLKRGDQIIAVNGQSLEGVTHEEAVAILKRTKGTVT  2050
2051  LMVLS                                               2055

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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