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

NucPred

Fetching Q9Y719 from www.uniprot.org...

The NucPred score for your sequence is 0.42 (see score help below)

   1  MRNKNILVLNLILSIPRLVFTAKYDERESLWNLNQNQSATDPLDYWGKWE    50
  51  NHQYHPSPDDWQVPFYTVILDKWKDGDPRNNEANNTIYEYDIYETGFRNG   100
 101  GDIIGLKDSLDYLEIMGIKVIYIAGTPFLNQPWGADQYSPLDYTILDHHS   150
 151  GTIAQWRDTIEEIHRRGFYLVLDLTISTLGDLIGFRKYLNSTTPFSLFEH   200
 201  EAVWKSNVIYPDWNFTNKYDPKCELPRFWGEDGAPVVIDYVGCYDSDFDQ   250
 251  YGDTEAFGTHPDWERQLSKFASVQDRLREWRPSVSEKLKHFACMIIAMLD   300
 301  VDGFRIDKATQITVDFLASWAHSVRGCAATFNKKNFFIPGEVTGSSSYGS   350
 351  IYYGRGRQPDQRPPSILTSLNSSSLKENYFLREPKANALDASAFHYSLYR   400
 401  AMTRFLQMDGDLQVGHDLPVDFTDLWNAMAVNEDFYNPNTHKVDPRHMLG   450
 451  ITNHDVFRWSAIEFGLERLLLGTMITYFLFPGAPSIYYGDEQGFYVLDNT   500
 501  ANNYLYGRQAMPSSIAWKVHGCYALASDQYPELPVIKAYQGCNDDWNIMD   550
 551  HFDFAKPELKMFKIFNFIREQYPALKSGWKSVKLRNWTEYVHFPNSGKTP   600
 601  TEVGVWSIVRGALETLQNFDARNNTAWNGDIWILYTNQNRTTTLDYQCSS   650
 651  SNSVVSPYASGLTLKNLIYPFEEYILQESNKYSSNLKSYYGCIPNIEFPP   700
 701  WGFKILIPKKYYVRYPPQITSFNPQHDSRIYNHNGKQKLVISFTETMDCN   750
 751  EITSKLQFSSKTESGKVMKVDKETVKCSVSNNSADSYYFGLAPARFHWSG   800
 801  DLINIADGIHEIKLQRVHSQDHQSMSDSMYKLLLRFGKLDNPMVFSTANR   850
 851  SSSILSQENEKLYINHKAPGADLFRFSFDYGLHWSEWIDYLSNKTECTEF   900
 901  ANNISLKTWKGHHVIVQYWSRLTASANYIQEGGLGSLSSFPHLYMNGPYN   950
 951  QWGFDSGIPNRLIYKNCSWHKTFISDVFPTKFQFNVYNFDESGMPDQKKV  1000
1001  YGTIGNSTVLVRLPPSELKESVTWIKEAPPSNFLTWEIIISDLTRTYHLI  1050
1051  PRGSSTVSIILFSLFLVSPLICALATMLAFQKFFYQVRLNKGIEKKQEWK  1100
1101  EKLLGPFSRISQSNINQGFSHQVALNNSVKSVHPKISRKLILVATLEYDI  1150
1151  PDWDIKIKIGGLGVMAELMGKHLTHHDLIWVVPRVGDVNYPDGQELAPLE  1200
1201  VVVLDQVYEVRVYSHNLRNITYILLEAPVFRKQTSAEPYPARMDDLSSAI  1250
1251  FYSAWNQCIAGIIRRYPIDVYHINDYHGALAPCYLLPNVIPCVLSLHNAE  1300
1301  FQGLWPLRTQAEKNEVCAVYNISTKICTKYIQFGNVFNLLHAGVSYIRIH  1350
1351  QKGYGVVGVSNKYGKRSKARYPIFWGLKKVGKLPNPDPLDTAQLDDPTNI  1400
1401  TEEITIDLTAEAEKRAFKRDAQKWTNLELDDSADLLVFVGRWSMQKGIDL  1450
1451  IADIAPTLLQDFNAQLITIGPIIDLYGKFAAEKLNALMKKYPKRVYCRPE  1500
1501  FTHLPPCIFSGADFVLIPSRDEPFGLVAVEFGRKGALGIGARVGGLGQMP  1550
1551  GWWYSVESNATSHVLQQFEEACRKALSSSAEKRALLRAKSAKQRFPVLEW  1600
1601  ISKLDHLMDNCIRLNVGQRQQGSSSHSMKFRSKNDLSSIKLSTKEGLENE  1650
1651  ENELKDKAPPNEPNVGSLFLFNKSSMGSVGGPGHYKATDLSQELETNDQD  1700
1701  IEYNEFYSQLDTSTSDIFQDTSVDGFPDLQVSSDINVRNDRLSSFVMSSE  1750
1751  DLRSSDGHPENSDSVLETISSVHHRSPINQVVRNLNESQLSLDSVISMNL  1800
1801  NKEFALTKTENDFTDDNGRALNYFSQKLEELDPKNSVNELCIETFILKMK  1850
1851  KEWYDGLRNIRFGIQRPNLLIYDEDKKFINTEHFLGSKVNLNSVTSLGNF  1900
1901  NGSSPNSFLFLLKNRTMRIKCFMQMRIGDWPVYSIFLSVGQILAATSYQL  1950
1951  VLLSGSSAQFSTQLYIVGSIYTVSSVFWWYLYRMLPSVASLSLPFLLYCA  2000
2001  SFLLIGISSFINENMYLRLWISHIASWIYAVASASGSLYFSLNFGDEAGA  2050
2051  GVVSWIVRACIVQGFQQIWACCLWYWGSYIDRSMQECHSFPHEVYPLGLI  2100
2101  AVFSWPLALVMLLFAILLIFGLPDYYWESPGNIPAFYTALLRRKLVLWFF  2150
2151  VATILQNYWLSTLYGRSWKYLWGGSLLAPWKMLTIAFFLFLSMWIIMLMF  2200
2201  LGRKSLTHSWLLPVFGVGLGSPRWLQMMWGTSNIGVYLPWAGVAGPIVGR  2250
2251  ILWIWLGVLDSVQGVGVGMILLQTLTRRHIATTLIAGQIIGTLTSMLARA  2300
2301  TAPNRLGPGLVFLDLTSWRFEDGAKIFRSAPFWICLISQIAVSAGYLLFF  2350
2351  RRENLSRP                                            2358

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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