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

NucPred

Fetching Q9VUV9 from www.uniprot.org...

The NucPred score for your sequence is 0.61 (see score help below)

   1  MADAAARQLQYEYKANSNLVLQADVRLIERPRRDEATGEVCSLVGKLDGT    50
  51  RMGDRYQRTKPEKTEERKVKRQKRDEAQYDFERMKGATLLSEGIDEMVGI   100
 101  VYRPKTQETRQTYEVLLSFIQEALGDQPRDILCGAADEILAVLKNDRLKD   150
 151  RERKKDIDSLLGAVTDERFALLVNLGKKITDFGSDAVNALTAAPNNEEQI   200
 201  DETYGINVQFEESEEESDNDMYGEIRDDDAQDEGEEARIDHTLHAENLAN   250
 251  EEAANNVKKERSLHPLDIDAYWLQRCLSKFYKDAMVSQSKAADVLKILKD   300
 301  AADDRDCENQLVLLLGYDCFDFIKQLKLNRQMVLYCTMLASAQTDSERQR   350
 351  IREKMRGNSALAKILRQLDTGKSEDQEEGEARGSKRGKGDAEDGGAAAAG   400
 401  QVAGVRQLLELEEMAFTQGSHFMANKRCQLPDGSYRKQRKGYEEVHVPAL   450
 451  KPVPFDANEELQPVDKLPKYVQPVFEGFKTLNRIQSRLYKAALDSDENML   500
 501  LCAPTGAGKTNVALLTMMREIGKHINEDGTINAQDFKIIYVAPMKSLVQE   550
 551  MVGNFGRRLACYNLTVSELTGDHQLTREQIAATQVIVCTPEKWDIITRKG   600
 601  GERTFVSLVRLVIIDEIHLLHDERGPVLEALVARTIRNIETTQEEVRLVG   650
 651  LSATLPNYQDVATFLRVKPDKGLFYFDNSYRPVSLEQQYIGVTEKKALKR   700
 701  FQVMNEIVYEKTMEHAGRNQVLVFVHSRKETGKTARAVRDMCLEQDTLGS   750
 751  FLKEGSASMEVLRTEAEQVKNTELKELLPYGFAIHHAGMTRVDRTLVEDL   800
 801  FADRHIQVLVSTATLAWGVNLPAHTVIIKGTQVYNPEKGRWVELSALDVL   850
 851  QMLGRAGRPQYDTKGEGILITNHSELQFYLSLLNQQLPIESQFISKLPDM   900
 901  LNAEIVLGTVQHLQDAVNWLGYTYLYIRMLRNPTLYGVSHDAIKADPLLE   950
 951  QHRADLLHTAACCLERSGLIKYDRKTGHFQVTDLGRIASHYYLTHETMLT  1000
1001  YNQLLKQTLSEIELFRVFSLSSEFRHISVREEEKLELQKLMERVPIPIKE  1050
1051  SIEEHSAKVNVLLQAYISQLKLEGFALMSDMVFITQSAARLMRAIFEIVL  1100
1101  TRGWAQLADKTLTLCKMIDRRMWQSMTPLRQFKKMPDEIAKKLEKKHFPW  1150
1151  GRLYDLEPHELGELIRVPKLGKTIHKFVHQFPKLELSTHIQPITRGTLRV  1200
1201  ELTITPDFQWDEKVHGQSEGFWVLIEDVDSELILHHEFFLLKQKYSQDEH  1250
1251  QLKFFVPVFEPLPPQYFLRIVSDRWIGAETQLPVSFRHLILPEKNMPPTE  1300
1301  LLDLQPLPISALRQPKFESFYSQRFPQFNPIQTQVFNAVYNSDENVFVGA  1350
1351  PTGSGKMTIAEFAIMRLFTTQSDARCVYLVSEEALADLVFADWHSKFGSL  1400
1401  DIKVVKLTGETGTDLKLIAKGQLVITTADKWDVLSRRWKQRKNVQLVNLF  1450
1451  IVDELQLVGGEEGPVLEIVCSRMRYISSQIEKQIRIVALSASLTDARDVA  1500
1501  QWLGCNPNATFNFHPSVRPIPLELHIQGYNVTHNATRIATMSKPVYNAIL  1550
1551  KYSAHKPVIVFVSSRKQARLTAIDVLTYAASDLQPNRFFHAEEEDIKPFL  1600
1601  ERMTDKTLKETLAQGVAYLHEGLSASDHRLVEQLFDSGAVQVAVISRDLC  1650
1651  WGMSISAHLVIIMDTQFYNGKNHSYEDYPITDVLQMIGRANRPNEDADAK  1700
1701  CVLMCQSSKKDFFKKFINEPLPIESHLDHRMHDHFNAEVVTKTIENKQDA  1750
1751  VDYLTWTFLYRRLTQNPNYYNLQGVTHRHLSDHLSELVENTLSDLEQSKC  1800
1801  ISVEDDMDTLPLNLGMIAAYYYINYTTIELFSLSLNSKTKVRGLLEIISS  1850
1851  AAEYEDVVVRHHEEQVLRTLSQRLPNKLTGPNETAPKFNDPHIKTNLLLQ  1900
1901  AHLSRLQLGPELQGDTEQILSKAIRLIQACVDVLSSNGWLSPAVAAMELA  1950
1951  QMVTQAMWSKDSYLKQLPHFSPEIVKRCTEKKIETVFDIMELEDEDRTRL  2000
2001  LQLSDLQMADVARFCNRYPNIELNYEVVDKDRINSGSTVNVVVQLEREDE  2050
2051  VTGPVIAPFFPQKREEGWWVVIGDPKTNSLLSIKRLTLQQKAKVKLDFVA  2100
2101  PSPGKHDYTLYYMSDSYLGCDQEYKFSIEVGDFQSESESESD          2142

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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