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

NucPred

Fetching Q8K284 from www.uniprot.org...

The NucPred score for your sequence is 0.98 (see score help below)

   1  MDALESLLDEVALEGLDGLCLPALWSRLESRSPAFPLPLEPYTQEFLWRA    50
  51  LATHPGISFYEEPRERPDLQLQDRYEEIDLETGILESRRDPVTLEDVYPI   100
 101  HMILENKDGIQGSCRYFKERKDITSSIRSKCLQPRCTMVEAFSRWGKKLI   150
 151  IVASQDMRYRALIGLEGDPDLKLPDFSYCILERLGRSRWQGELQRDLHTT   200
 201  AFKVDAGKLHYHRKILNKNGLITMQSHVIRLPTGAQQHSILLLLNRFHVD   250
 251  RRSKYDILMEKLSMMLSTRSNQIETLGKLREELGLCERTFKRLYQYMLNA   300
 301  GLAKVVSLPLQEIHPECGPCKTKKGTDVMVRCLKLLKEFKRKMEDDHDDD   350
 351  DDEEVISKGVPPVDIVFERDMLTQTYELIERRGTKGISQAEIRVAMNVGK   400
 401  LEARMLCRLLQRFKVVKGFMEDEGRQRTTKYISCVFAEESDLSRQYAREK   450
 451  ARGELLTTVSLASVQDESLMPEGEEAFLSDSESEEESSCSGGKRRGRGSR   500
 501  GHARASGDAGSGSRPHHSTPAKGGWKVLNLHPLKKPKAAAEERSRRSSAC   550
 551  RDGLDTSSSSELNAPFDPHSMDSHSGDIAVIEEVRLDNPKEGGGSQKGGR   600
 601  HGSSQDKPHKTYRLLKRRNLIIEAVTNLRLIESLFTIQKMIMDQEKQEGV   650
 651  STKCCKKSIIRLVRNLSEEGLLRLYRTTVIQDGIKKKVDLVVHPSMDQND   700
 701  PLVRSAIEQVRFRISNSSTANRVKVPPAPAPQEEAEEENQEPEVPSRSAN   750
 751  SDPNTSSKPESTRVKKTDEKMGITPLKNYKPVIVPGLGRSIGFLPKMPRL   800
 801  KAMHLFLWYLVYGHPAGHTGEQPALHSERKTGKQESSRPGAQPSSGDDWD   850
 851  TSEAKNNTESSSWESEMELSTEIVYVDEISWMRYVPPIPIHRDFGFGWAL   900
 901  VSDILLCLPLSIFVQLVQVSYKVDNLEDFLNDPLKKHTLIRFLPRHIRQQ   950
 951  LLYKRRYIFSVVENLQRLCYMGLLQFGPTEKFQDKDQVFVFLKKNAVIVD  1000
1001  TTICDPHYNLAHSSRPFERRLYVLDSMQDVECYWFDLQCICLNTPLGVVR  1050
1051  CPCAQKICPDPGSDPEGSLRKEQESAMDKHNLERKCAMLEYTTGSREVVD  1100
1101  EGLVPGDGLGAAGLDSSFYAHLKRNWVWTSYIINKARKNNTSENGLTGRL  1150
1151  QTFLSKRPMPLGSGGSGRLPLWSEGRADAELCADKEEQFELDREPTPGRN  1200
1201  RKVRGGKSQKRKRLKKEPIRKTKRRRRGEHPEAKSKKLRYQDEADQNALR  1250
1251  MMTRLRVSWSMQEDGLLMLCRIASNVLNTKVKGPFVTWQVVRDILHATFE  1300
1301  ESLDKTSHSVGRRARYIVKNPQAFMNYKVCLAEVYQDKALVGDFMSRKGN  1350
1351  YEDPKVCAKEFKEFVEKLKEKFSSGLRNPNLEIPNTLQELFAKYRVLAIG  1400
1401  DEKDRVRKEDELNSVEDIHFLVLQNLIQSTLSLSNSQSNSCQSFQIFRLY  1450
1451  REFREPVLVRAFMECQKRSLVNRRRVSHSQGPKKNRAVPFVPMSYQLSQS  1500
1501  YYKLFTWRFPTTICTESFQFYDRLRTNGMLDQPDHFSFKDLDSSDPSNDL  1550
1551  VAFSLDSPGGHCVTALALFSLGLLSVDVRIPEQIVVVDSSMVESEVMKSL  1600
1601  GKDGGLDDDEEEEDLDEGSGTKRQGVEVKAHQASHTKYLLMRGYYTVPGM  1650
1651  VSTRNLNPNDSIVVNSCQVKFRLRNTPASTQLGPTGFTATPLEELQAGLS  1700
1701  CLPASFTSLVDPQLRTHCPEEFAHQMAQSGYSPEDVAASLEILQAVAAAD  1750
1751  CFGIDKEKLSRQFSALEKIADRRTRTFLDYIQDLLEQEQVMEVGGNTVRL  1800
1801  VTMASAQPWLLHSMRLRDMEVDTKASGDDSQSRLPEGPSIEDHTSEGAAV  1850
1851  PPVSSHSTKKRPHCPETDAEEATRLPAKKPTLQDVRVAASPRPGAEEQAE  1900
1901  AQAPAQLAAPEDADAGGPRQENQENVGVSGLEQLGCEFQLPEGSEDPRGL  1950
1951  TESNMAQAAWESGCERVCFVGRPWRGVDGHLNMPVCKGMLEAVLYHIMSR  2000
2001  PGVPESCLLQYYQGVLQPVAVLELLRGLESLGCIQKRTLRKPASVSLFSR  2050
2051  PVVEGLGQASEAEALSCHESTVTFYEPTLDCTIRLGRVFPHDINWNKWIH  2100
2101  L                                                   2101

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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