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

NucPred

Fetching Q2L949 from www.uniprot.org...

The NucPred score for your sequence is 0.99 (see score help below)

   1  MKGHQFKSWIFELREILREIKNSHYFLDSWTQFNSVGSFIHIFFHQERFI    50
  51  KLLDPRIWSILLSRNSQGSTSNRYFTIKGVVLFVVAVLIYRINNRNMVER   100
 101  KNLYLTGLLPIPMNSIGPRNDTLEESFGSSNINRLIVSLLYLPKGKKISE   150
 151  SCFLDPKESTWVLPITKKCIMPESNRGSRWWRNWIGKKRDSSCKISNETV   200
 201  AGIEISFKEKDIKYLEFLFVYYMDDSIRKDHDWELFDRLSPSKRRNIINL   250
 251  NSGQLFEILVKDWICYLMFAFREKIPIEVEGFFKQQGAGSTIQSNDIEHV   300
 301  SHLFSRGKWAISLQNCAQFHMWQFRQDLFVSWGKNPHESDFLRNISRENW   350
 351  IWLDNVWLVNRDRFFSKVRNVSSNIQYDSTRSSFVQVTDSRQLKGSSDQS   400
 401  RDRFDSISNEDSEYHTLINQREIQQLKERSILWDPSFLQTERTEIESDRF   450
 451  PKCLSGYSSMSRLFTEREKRMNNHLLPEEIEEFLGNPTRSIRSFFSDRWS   500
 501  ELHLGSNPTERSTRDQKLLKKEQDVSFVPSRRSENKEIVNIFKIITYLQN   550
 551  TVSIHPISSDPGCDMVPKDELGSSNKISFLNKNPFFDLFHLFHDQNRRGY   600
 601  TLHHDFESEERFQEMADLFTLSITEPDLVYYKGFAFSIDSYGLDQKQFLN   650
 651  EVFNSRDESKKKSLSALPPIFYEENESFYRRIRKKWVRISCGNDLEDPKP   700
 701  KIVVFASNNIMEAVNQDRLIRNLIQIQYSTYGYIRNVLNRFIKKNRSDRN   750
 751  FEYGIQRDQIGNDTLNHRTIMKYTINQHLSNLKKSQKKWFDPLILISRTE   800
 801  RSMNRDPNAYRYKWSNGSKNFQEHLEHFVSEQKSRFQVVFDRLRINQYSI   850
 851  DWSEVIDKKDLSKSLRFFLSKLLLFLSKLLLFLSNSLPFFFVSFGNIPIH   900
 901  RSEIHIYELKGPNDQLCNQLLESIGLQIVHLKKLKPFLLDDHNTSQKPKF   950
 951  LINGGTISPFLVNKIPKWMIDSFHTRNNRRKSFDNMDFSMISHDQDNWLN  1000
1001  PVKPFHRSSLISSFYKANRLRFLNNPHHFCFYCNKRFPFYVEKARINNYD  1050
1051  FTYGQFLNILFIRNKIFSLCGGKKKHAFLGRDTISPSPIESQVSNIFISN  1100
1101  DFPQSGDERYNLYKSFQFAIRSDPLVRRAIYSIADISGTPLTEGQIVNFE  1150
1151  RTYCQPLSDMNPSDSEEKNLHQYLNFNSNMGLIHTPCSEKYLPSEKRKKR  1200
1201  SLCLKKCVEKGWMYRTFQRDSAFSTLSKRNLFQTYMPWFLTSTGYKYLNL  1250
1251  IFLDTFSDLLPILSSSQKFVSIFHDIMHGSDISWRILQKKLCLPQWNLIS  1300
1301  EISSKCLHNFLLSEEMIHRNNESPLISTHLRSPNVQEFLYSILFLLLVAG  1350
1351  YLVRTHLLFVSRAYSELQTEFEKVKSLMIPSYMIELRKLLDRYPTSELNS  1400
1401  FWLKNLFLVALEQLGDSLEEIRGSAFGGNMLWGGGPAYGVKSIRSKKKYL  1450
1451  NINLIDIIDLISIIPNPINRIIFSRNTRHLSHTSKEIYSLIRKRKNVSGD  1500
1501  WIDEKIESWVANSDSIDDKEREFLVQFSTLTTEKRIDQILLSLTHSDHLS  1550
1551  KNDSGYQMIEQPGPIYLRYLVDIHKKYLMNYEFNTSCLAERRIFLAHYQT  1600
1601  ITYSQTSCGANSFHFPSRGKPFSLRLALSPSRGILVIGSIGTGRSYLFKY  1650
1651  LATNSYVPFITVFLNKFLDNKLKGFLIDDIDIDDSDDIDASDDIDASDAI  1700
1701  DDSDAIDRDLDTELELLTMMNALTMDMMSEIDRFYITLQFELAKAMSPCI  1750
1751  IWIPNIHDLDVNEANYLSLGLLVNYLSKDCERCSTRNILVIASTHIPQKV  1800
1801  DPTLIAPNKLNTCIKIRRLLIPQQRKHFFTLSYTRGFHLEKKMFHTNGFG  1850
1851  SITVGSNARDLVALTNEALSISITQKKSIIDTNTIRSALHRQTWDLRSQV  1900
1901  RSVQDHGILFYQIGRAVVQNVLLSNCPLDPISIYMKKKSCNEGDSYLYKW  1950
1951  YFELGTSMKKLTILLYLLSCSAGSVAQDLWSLPGPDEKNGITSYGFVEND  2000
2001  SDLVHGLLEVEGALVGSSRTEKDCGQFDNDRVTLLLRSEPGNPLYMMQNG  2050
2051  SCSIVDQRNLYEKYESEFEEGEGEGVLDPQQIEEDLFNHIVWAPRIWRPW  2100
2101  GFLFDCIERPNELGFPYWAGSFRGKRIIYDEKDELQENDSAFLQSGTMQY  2150
2151  QARDRSSKEQGFFRISQFIWDPADPLFFLFKDQPFVSVFSHREFFADEEM  2200
2201  SKGLLTSQTDPPTSIYKRWFIKNTQEKHFELLIHRQRWLRTNSSLSNANG  2250
2251  FFRSNTPSESYQYLSNLFLSNGRLLDQMTKTLLRKRWLFPDEMKIGFM    2298

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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