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

NucPred

Fetching Q589A6 from www.uniprot.org...

The NucPred score for your sequence is 0.97 (see score help below)

   1  MKGHQFKFWIFELREIKNSHYFSDSWTQFNSVGSFIHIFFHQERFIKLFD    50
  51  PRIWSILLSPNSRGSTSNRYFTIKGVILFVVVFLLYRINNRNMVERKNLY   100
 101  LIGLLPIPMNSIGPRNDTLEKPFWSSNINRLIVSLLYLPKGKNISASCFL   150
 151  DPKESTSTWFLPITKKCIMPESNRGSQWWRNWIGKKRDSSCKISNETVAG   200
 201  IEISFKEKDIKYLEFLFVYYMDDPISKDHDWELFDRLSLRRRRNIINLNS   250
 251  GQLFEILVKHWICYLMSAFREKRPIEVEGFFKQQGAGSTIQSNDIEHVSH   300
 301  LFSRNKWAISLQNCAQFHMWQFHQDLVVSWGKNPYESDLLRNVSRENWIW   350
 351  LDNVWLVNNFNKVRNVSSNSQYDSTRSSFVQVTDSSQLKGSSDQSRDRWD   400
 401  SISNADSEYHTLINKREIQQLKERSILRDPSFLQTEEIEELLENPTRSIR   450
 451  SFFSGRCSELHLGSNPTEKPTRDPKLLKKHLVVSFAPSRRSENKEMINIF   500
 501  KIITYLQNSVSIHPISPDPGCDMVPKDEPDMDSSDKISFLNKNSFFYLFN   550
 551  LFHDRNSGGYTLHHDFESEERFQEMADLFTLSITKPDLVYHKGFAFSIDS   600
 601  CGLDQKQFLNEVFNSRDESKKKSLLILPPIFYEENAFFYRRIQKKWVRIS   650
 651  CGNYLEDRKQKRVVFASNNKMEAVNKNQYILIRNLIQIQYSTYGYIRNVL   700
 701  NRLFLMNRSDRSFEYGIKRDQIGNDTLNHRTIRKYTINQHLSNLKKSQKK   750
 751  RFDPLIFLSRTERFMNQDPDAYRYKWFNGSKNFQEHLVSEQRSRFQVVFG   800
 801  RLRINKYSIDWSEVIDKKDLSKSLRFFLSKSLLFLSKLLLFVSNSLPFFF   850
 851  VSFGNIPIHRSEIHISELKGPNDQLYNPLLESIGLQIVHLKKLKAFLLND   900
 901  HDTFQKSKLLINGRTISPFLFNKIPKWMIDSFDTRNNHRNGKTDSYFSMI   950
 951  SHDQNNWLNPVKPFHRSSLISSFYKANRLRFLNNPHHFCFYCNKRFPFYM  1000
1001  EKARINNYDFTYRQFLDILFIRNKIFALCVGKKKHAFLERDTISPIESQV  1050
1051  SNIFIPNDFTIRSDLFVRRTIDSITDISGTPLTEGQIVHFERTFYQPLSD  1100
1101  MNLSDSERKNLHQYLNFNSNMGLIYTPCSDKYLPSEKRKKRSLCLKKCVE  1150
1151  KGQMYRTFQRDSAFSTLSKWNLFQTYMPWFLTSTGYKYLNFLFFDTFSDL  1200
1201  LPILSSSQKFVSIFHDIMHGSYISWRILQKKVCLPQWNLISEISNKCLHN  1250
1251  LLLSEEMIHRNNESPLIWTHLGSPNVREFFYSILFLLLVAGYLVRTHLLF  1300
1301  VFRASSELQTEFEEVKSLMTPSYMIELRKLLDRYPTSESNFFWLKNLFLV  1350
1351  ALEQLGDSLEEIWGSASGGNMPLGGGPAYGVKSIRSNKKDFNINLIDLIS  1400
1401  IIPNPINRITFSRNTRHLSHTSKEIYSLIRKRKRVNGDWIEDKIESWVAS  1450
1451  SDSIDEEEREFLVQLSTLTTEKRIDQILLSLTHSDRLLKNDSGYQMIEQP  1500
1501  GAIYLRYLVDIHKKYLMNYEFNTSCLAERRVFLAHYQTITYSQTSCGANR  1550
1551  FHFPSHGKPFSLRLALSLSRGILVIGSIGTGRSYLVKYLATNSYVPFITV  1600
1601  FLNKFLDNKLKGFLIDASDDIDIDVSDDIDVSDDIDRDLDTELELLTMMN  1650
1651  ALTMDMMPEIGQFYITLQFELAKAMSPCIIWIPNIHDLDVNESNYLSLGL  1700
1701  LVNYLSRDCERWSTRNILVIASTHIPQKVDPALIAPNKLNTCIKIRRLLI  1750
1751  PQQRKHFFTLSYTRGFHLEKKMFHTNGFGSITMGSNVRDLVALNNEVLSI  1800
1801  SITQKKSIIDTNTIRSALHRQTWDFRSQVRSVQDHGIFFYQIGRAVAQNV  1850
1851  LLSNCPIDPISIYMKKKSCNEGDSSLYKWYFELGTSMKKLTILLYLLSCS  1900
1901  AGSVAQDLWSLPGPDGKKGITSYGLVENDSNLVHGLLKVEGALVGSSRTE  1950
1951  KDCSQFDNDRVTLFLRPELRNPLDMMQNGSCSILDHRFLYEKDKSELEKG  2000
2001  EGALDPQQIEEDLFNPIVWAPRIWTPWSFLFYCIERPNSLGFPYWAGSLR  2050
2051  GKRIIYDEEDELQENDSEFLQSGTMQYQTRDRSSKEQGFFRISQFIWDPA  2100
2101  DPLFFLSKDQPFVSVFSHREFFADEEMPKGLLTTQKSTPTSIYKRWFIKN  2150
2151  TQEKHFELLINRQRWLRTNSSLSNGSFRSNTLSESYQYLSNLFLSNGTLL  2200
2201  DQMTKTLLRKRWLFPDEMKIGFM                             2223

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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