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

NucPred

Fetching O55164 from www.uniprot.org...

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

   1  MLETIDKNRALQAAERLQSKLKERGDVANEDKLSLLKSVLQSPLFSQILS    50
  51  LQTSLQQLKDQVNVATLATANADHAHTPQFSSAIISNLQSESLLLSPSNG   100
 101  NLEAISGPGAPPAMDGKPACEELDQLIKSMAQGRHVEIFELLKPPCGGLG   150
 151  FSVVGLRSENRGELGIFVQEIQEGSVAHRDGRLKETDQILAINGQVLDQT   200
 201  ITHQQAISILQKAKDTIQLVIARGSLPHISSPRISRSPSAASTVSAHSNP   250
 251  THWQHVETIELVNDGSGLGFGIIGGKATGVIVKTILPGGVADQHGRLCSG   300
 301  DHILKIGDTDLAGMSSEQVAQVLRQCGNRVKLMIARGAVEETPAPSSLGI   350
 351  TLSSSTSTSEMRVDASTQKNEESETFDVELTKNVQGLGITIAGYIGDKKL   400
 401  EPSGIFVKSITKSSAVELDGRIQIGDQIVAVDGTNLQGFTNQQAVEVLRH   450
 451  TGQTVRLTLMRKGASQEAEITSREDTAKDVDLPAENYEKDEESLSLKRST   500
 501  SILPIEEEGYPLLSTELEETEDVQQEAALLTKWQRIMGINYEIVVAHVSK   550
 551  FSENSGLGISLEATVGHHFIRSVLPEGPVGHSGKLFSGDELLEVNGINLL   600
 601  GENHQDVVNILKELPIDVTMVCCRRTVPPTALSEVDSLDIHDLELTEKPH   650
 651  IDLGEFIGSSETEDPMLAMSDVDQNAEEIQTPLAMWEAGIQAIELEKGSR   700
 701  GLGFSILDYQDPIDPANTVIVIRSLVPGGIAEKDGRLFPGDRLMFVNDIN   750
 751  LENSTLEEAVEALKGAPSGMVRIGVAKPLPLSPEEGYVSAKEDTFLCSPH   800
 801  TCKEMGLSDKALFRADLALIDTPDAESVAESRFESQFSPDNDSVYSTQAS   850
 851  VLSLHDGACSDGMNYGPSLPSSPPKDVTNSSDLVLGLHLSLEELYTQNLL   900
 901  QRQHAGSPPTDMSPAATSGFTVSDYTPANAVEQKYECANTVAWTPSQLPS   950
 951  GLSTTELAPALPAVAPKYLTEQSSLVSDAESVTLQSMSQEAFERTVTIAK  1000
1001  GSSSLGMTVSANKDGLGVIVRSIIHGGAISRDGRIAVGDCILSINEESTI  1050
1051  SLTNAQARAMLRRHSLIGPDIKITYVPAEHLEEFRVSFGQQAGGIMALDI  1100
1101  FSSYTGRDIPELPEREEGEGEESELQNAAYSSWSQPRRVELWREPSKSLG  1150
1151  ISIVGGRGMGSRLSNGEVMRGIFIKHVLEDSPAGKNGTLKPGDRIVEVDG  1200
1201  MDLRDASHEQAVEAIRKAGSPVVFMVQSIVNRPRKSPLPSLPHSLYPKCS  1250
1251  FSSTNPFAESLQLTSDKAPSQSESESEKATLCSVPSSSPSVFSEMSSDYA  1300
1301  QPSATTVAEDEDKEDEFGYSWKNIQERYGTLTGQLHMIELEKGHSGLGLS  1350
1351  LAGNKDRTRMSVFIVGIDPTGAAGRDGRLQIADELLEINGQILYGRSHQN  1400
1401  ASSIIKCAPSKVKIIFIRNADAVNQMAVCPGSAADPLPSTSESPQNKEVE  1450
1451  PSITTSASAVDLSSLTNVYHLELPKDQGGLGIAICEEDTLNGVTIKSLTE  1500
1501  RGGAAKDGRLKPGDRILAVDDELVAGCPIEKFISLLKTAKTTVKLTVGAE  1550
1551  NPGCQAVPSAAVTASGERKDSSQTPAVPAPDLEPIPSTSRSSTPAIFASD  1600
1601  PATCPIIPGCETTIEISKGQTGLGLSIVGGSDTLLGAIIIHEVYEEGAAC  1650
1651  KDGRLWAGDQILEVNGIDLRKATHDEAINVLRQTPQRVRLTLYRDEAPYK  1700
1701  EEDVCDTFTVELQKRPGKGLGLSIVGKRNDTGVFVSDIVKGGIADADGRL  1750
1751  MQGDQILMVNGEDVRNATQEAVAALLKCSLGTVTLEVGRIKAAPFHSERR  1800
1801  PSQSSQVSESSLSSFSLPRSGIHTSESSESSAKKNALASEIQGLRTVEIK  1850
1851  KGPADALGLSIAGGVGSPLGDVPIFIAMMHPNGVAAQTQKLRVGDRIVTI  1900
1901  CGTSTDGMTHTQAVNLMKNASGSIEVQVVAGGDVSVVTGHQQELANPCLA  1950
1951  FTGLTSSTIFPDDLGPPQSKTITLDRGPDGLGFSIVGGYGSPHGDLPIYV  2000
2001  KTVFAKGAAAEDGRLKRGDQIIAVNGQSLEGVTHEEAVAILKRTKGTVTL  2050
2051  MVLS                                                2054

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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