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

NucPred

Fetching Q32836 from www.uniprot.org...

The NucPred score for your sequence is 1.00 (see score help below)

   1  MDEQEFKLFLKFFILELKGILREIKNSHQLLDSWTKLNSLGTLIQIFFNP    50
  51  ERAFQLLDPRVWKILLSRNSRGWRKTRHFTIGRVLLFVVVVLMYRMSRRN   100
 101  MVENKKSYLTGVLPIPLNPIGHRNDTLEESIGFSNINRLILPLLYLPKGK   150
 151  KIPESSFLDPNESTWALPITKKSIMPESRWGSRWWCSWVGKRRDSSCKRA   200
 201  HKTVAGIEISFKEKKSKYLEFLEDSEYPTLINQREIQQIKEESILWHPSP   250
 251  SLERTEEEIKEFLGNSTRSLRSFFSDRWSELYLSSNPTERFTRDQKLLKQ   300
 301  DLSFVPYRRSENQEIVNLFKIITYLQKTVSIYPISSDPGCDRVPKDELDV   350
 351  DSSKKISFFKKNPFFDLLNLFHDRSRGGYTLERDFESEERFEERADLFTL   400
 401  SITEPDQVYHNSPKMDLIHIQEKGYIRKVLDRFFLMNRSARNFESGIPGA   450
 451  QIGNETLSHRTLMKYTVNRHFSSLKKSRKKSFDPLLFIERSMNRDPAAYR   500
 501  DKWSKGGKTFQEHLEHFVSEQKNRFKVQKSRFKAVFDRFHQSQYSIDWSV   550
 551  FIDKQDFPKARLFFLFVLVRSFLYKSLPFLLSKLPLLLSKLPLLVSKVLP   600
 601  LLSKLLPFFFVSCGNIPIHRSEIRIYELKGPTDQPCNPLLESIGLQILHL   650
 651  NKLKPCLLDDHETSQKSKIVGTIDNTDSYFSILFDDEENWMNPVKAFQRS   700
 701  SLISAFYKANRLRFLNNPHRFSFYCNKIFPFVVEKARFKNSDFLYGQFLK   750
 751  TFFIRKKPFSLCGEKHAFGERATLLPIESEVSKILIPQVSKILIPDDFPQ   800
 801  SGDERYNLCKSFHFPTRSVPLVDRALYSIADISERPLTEGQMVNLERTSF   850
 851  QPLSDIHLSDSERKNLHQDLNFNSNMGLIHTPYSEKDLPSEKRKKRNLGR   900
 901  NLKKCVEKGQMFRTLLSKMYRTLLSKWNLFQTYMPWFLTSTGYKYLTLLF   950
 951  LDLFSDLVPILSLGIRQNCVSLFDHILGDIRDDIRQGVIRPWQILQEKWV  1000
1001  LPQRNRIREISRMCLRNLTLSAERIRRNNESPLTHTHLRSPNVLEFLYST  1050
1051  LLLLLVAGYLVCTYLSRLSKDYGELQTELKKVKSLMIPSYTIELRKLMDR  1100
1101  YPPSELNSFGLKNLFLVAMEELKESLSVVGNMLEGGGRAYGVEAIFSNWN  1150
1151  LNLIDISDLISLIPNPIDRITFSINTRHLSHTSKEIYSFIRKRERVYGAW  1200
1201  IDDKIESLLSTSVAIDDCDRGNLLQFSTLTLTTEKGVDQILLSLTQSSKN  1250
1251  ASGSQMIEQPGEMYLRHVVDLQKKYLMGYEFNTSSLAERRIFLAHYQTMT  1300
1301  YSKTSCGVNAFHFPSHEKPFSLRLDLSPPRGILVIGSIGTGRSYLIKSLA  1350
1351  KNTHFPLITLEMEARSSWPFFQHLDEIYGDQLEYVYDDTSLSVEVEEEED  1400
1401  TSWGIEEWSLPDTREDDEIEDQAEMDTRRDLDGIEYTHAIQDMIDLGISV  1450
1451  DAQLNFLPESILINEIEGHDVDELDEAETELWELWMEEWDRHLLGISLQF  1500
1501  ALVRAMTPCILWIPNIHDVDLEDRTTLAGLMNSLSGDSEGRSTRKTLVIA  1550
1551  STHLPKKVDPALIASNRFNTCIKVRRLLSTQERERFFTLSYTRGFHFEKE  1600
1601  IFDTNGFRSITTQDLAALTNEALSISITQKKSIIDTNTIRFALHRQTWAV  1650
1651  ESRSISISDHGILFYQTGRALAQNLFLSQGLIDPISVYIKKKSCNDDGYS  1700
1701  YLYRWYLELGTSMKRLTILLYLLSCFAGSVAQDLWSPPGPDDKAEMFSYG  1750
1751  LVENDSHLAQGLLELEGALVASGTEKACSRFDNDQVTLLFRAEPSLDRMQ  1800
1801  DGFCSIFEQEGEEAAPGLEKPLVTHIVSAPRIWNPWLILFDWIDIEEASR  1850
1851  KEEEAELQDEEAELQDEGAGRKDEEAELQEFQDLEDPQDQEGGLQELQGL  1900
1901  QKEEAYLYQKALELQAQEDELQKYGPGFLESGTIMKKYPTRNRFRFFTEQ  1950
1951  GFFQASQFIWYPADSLFFLLKEQALGFVFSQPEFFADEEISKEGLLALTV  2000
2001  QRLPFSTTCHWFIKKRQERHFEFLIHRERWLRTNSSLSNGFFCSKTQTLF  2050
2051  ESYQYLSNLFLSNGRLVDQMTKTLLRKRWIFPDEMKIQIGFMYTGEGFPI  2100
2101  TSPERYVAMK                                          2110

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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