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

NucPred

Fetching O08523 from www.uniprot.org...

The NucPred score for your sequence is 0.35 (see score help below)

   1  MNYSSLLRIWVSFIFALVRHQAQPRELMYPFWQNDTRTPKVDDGSSSEIK    50
  51  LAIPVFFFGVPYRTVYVNNNGVVSFNVLVSQFTPESFPLTDGRAFIAPFW   100
 101  ADVHNGIRGEIYYRETMDPAILRRATKDIRKYFKDMTTFSATWVFIVTWE   150
 151  EVTFYGGSSTTPVNTFQAVLVSDGSYTFTLFNYYEINWTTGTASGGDPLT   200
 201  GLGGVMAQAGFNGGNLTNFFSLPGSRTPEIVNIQETTNVNVPGRWAFKVD   250
 251  GKEIDPANGCTSRGQFLRRGEVFWDDLNCTIKCRCLDFNNEIYCQEASCS   300
 301  PYEVCEPKGRFFYCSPVETSTCVVFGEPHYHTFDGFLFHFQGSCAYLLAR   350
 351  QCLQTSSLPFFSVEAKNEHRGGSAVSWVKELSVEVNGYKILIPKGSYGKV   400
 401  KVNDLVTSLPVTLELGAVKIYQSGMSTAVETDFGLLVTFDGQHYASISIP   450
 451  GSYINSTCGLCGNYNKNPLDDFLRPDGRPAMSVLDLGESWRVYHADWKCG   500
 501  SGCVDNCTQCDAATEALYFGSDYCGFLNKTDGPLWECGTVVDATAFVHSC   550
 551  VYDLCSVRDNGTLLCQAIQAYALVCQALGIPIGDWRIQTGCVSTVRCPSF   600
 601  SHYSVCTSSCPDTCSDLTASQNCATPCTEGCECNEGFVLSTSQCVPLHKC   650
 651  GCDFDGHYYTMGEFFWATANCTVQCLCEEGGDVYCFNKTCRSGEVCAVED   700
 701  GYQGCFPKRETVCLLSQNQVLHTFDGAAYAFPSELSYTLLKTCPERPEYL   750
 751  EIDINKKKPDAGPAWLRGVRILVADQEVKIGGVGALEVKLNGQDVELPFF   800
 801  HPSGRLEIHRNKNSTTVESKGVVSVQYSDVGLLYIRLSTMYFNCTGGLCG   850
 851  FFNANASDEFCLPNGKCTDNLAVFLESWTTFEEICNGECGDLLKACNNDS   900
 901  ELLKFYRSRSRCGIINDPSNSSFLECHGVVNVTAYYRTCLFRLCQSGGNE   950
 951  SELCDSVARYASACKNADVEVGPWRTYDFCPLECPENSHFEECMTCTETC  1000
1001  ETLALGPICVDSCSEGCQCDEGYALQGSQCVPRSECGCNFEGHQLATNET  1050
1051  FWVDQDCQIFCYCNGTDNSVHCETIPCRDDEYCMEESGLYYCQPRTDASC  1100
1101  IVSGYGHYLTFDGYPFDFQTSCPLILCTTGSRPISDSFPKFIVTAKNEDR  1150
1151  DPSLALWVKQVDVNVFGYSIVIHRAYKHTVLVNNERLYLPLKLGQGKINI  1200
1201  FSFGFHVVVETDFGLKVVYDWKTFLSITVPRSMQNGTYGLCGRYNGNPDD  1250
1251  DLEMPMGLPALSINEFGQSWVKRDTFCQVGCGDRCPSCAKVEGFSKVQQL  1300
1301  CSLIPNQNAGFAKCHSKVNPTFFYKNCLFDSCIDGGAVQTACSWLQNYAS  1350
1351  TCQTQGIAVTGWRNYTSCSVTCPPNSHYESCVSVCQPRCAAIRLKSDCNH  1400
1401  YCVEGCQCDAGYVLNGKSCILPHNCGCYSDGKYYEPKQLFWNGDCTRRCR  1450
1451  CFRRNLIQCDPRQCKSDEECALRSGVRGCFSTKTSYCLAAGGGVFRTFDG  1500
1501  AFLRFPANCAFVLSTICQKLPDISFQLIINFDKWSSPNLTIISPVYFYIN  1550
1551  EEQILINDRNTVKVNGTQVNVPFITGLATKIYSSEGFLVIDTSPDIQIYY  1600
1601  NGFNVIKISISERLQNKVCGLCGNFNGDMTDDYVTLRGKPVVSSVVLAQS  1650
1651  WKTNGMQKRPLAPSCNELQFSQYAATCDNVHIQAMQGDGYCLKLTDMKGF  1700
1701  FQPCYGLLDPLPFYESCYLDGCYNHKKFQLCGSLAAYGEACRSFGILSTE  1750
1751  WIEKENCSGVVEDPCVGADCPNRTCELDNGGELCGCIEPPPYGNNSHDII  1800
1801  DAEVTCKAAQMEVSISKCKLFQLGFEREGVRINDRQCSGIEGEDFISFQI  1850
1851  NNTKGNCGNIVQSNGTHIMYKNTIWIESANNTGNIITRDRTINVEFSCAY  1900
1901  ELDIKISLDSVVKPMLSVINLTVPTQEGSFTTKMALYKNASYKHPYRQGE  1950
1951  VVLTTRDVLYVGVFVVGADSTHLILTLNKCYATPSRDSNDKLRYFIIEGG  2000
2001  CQNIKDNTIGIEENGVSLTCRFHVTVFKFIGDYDEVHLHCAVSLCDSEKY  2050
2051  SCKINCPQNSRIATDYSKEHKEQIISVGPIRRKRLDWCEDNGGCEQICTS  2100
2101  RVDGPLCSCVTGSLQEDGRSCRASNSSVELQVWTLLLIMTQISLWHLIYK  2150
2151  SGATS                                               2155

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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