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

NucPred

Fetching Q14669 from www.uniprot.org...

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

   1  MSNRPNNNPGGSLRRSQRNTAGAQPQDDSIGGRSHLGQAKHKGYSPPESR    50
  51  KSNSKAPKVQSNTTSELSRGHLSKRSCSSSSAVIVPQPEDPDRANTSERQ   100
 101  KTGQVPKKDNSRGVKRSASPDYNRTNSPSSAKKPKALQHTESPSETNKPH   150
 151  SKSKKRHLDQEQQLKSAQSPSTSKAHTRKSGATGGSRSQKRKRTESSCVK   200
 201  SGSGSESTGAEERSAKPTKLASKSATSAKAGCSTITDSSSAASTSSSSSA   250
 251  VASASSTVPPGARVKQGKDQNKARRSRSASSPSPRRSSREKEQSKTGGSS   300
 301  KFDWAARFSPKVSLPKTKLSLPGSSKSETSKPGPSGLQAKLASLRKSTKK   350
 351  RSESPPAELPSLRRSTRQKTTGSCASTSRRGSGLGKRGAAEARRQEKMAD   400
 401  PESNQEAVNSSAARTDEAPQGAAASSSVAGAVGMTTSGESESDDSEMGRL   450
 451  QALLEARGLPPHLFGPLGPRMSQLFHRTIGSGASSKAQQLLQGLQASDES   500
 501  QQLQAVIEMCQLLVMGNEETLGGFPVKSVVPALITLLQMEHNFDIMNHAC   550
 551  RALTYMMEALPRSSAVVVDAIPVFLEKLQVIQCIDVAEQALTALEMLSRR   600
 601  HSKAILQAGGLADCLLYLEFFSINAQRNALAIAANCCQSITPDEFHFVAD   650
 651  SLPLLTQRLTHQDKKSVESTCLCFARLVDNFQHEENLLQQVASKDLLTNV   700
 701  QQLLVVTPPILSSGMFIMVVRMFSLMCSNCPTLAVQLMKQNIAETLHFLL   750
 751  CGASNGSCQEQIDLVPRSPQELYELTSLICELMPCLPKEGIFAVDTMLKK   800
 801  GNAQNTDGAIWQWRDDRGLWHPYNRIDSRIIEAAHQVGEDEISLSTLGRV   850
 851  YTIDFNSMQQINEDTGTARAIQRKPNPLANSNTSGYSESKKDDARAQLMK   900
 901  EDPELAKSFIKTLFGVLYEVYSSSAGPAVRHKCLRAILRIIYFADAELLK   950
 951  DVLKNHAVSSHIASMLSSQDLKIVVGALQMAEILMQKLPDIFSVYFRREG  1000
1001  VMHQVKHLAESESLLTSPPKACTNGSGSMGSTTSVSSGTATAATHAAADL  1050
1051  GSPSLQHSRDDSLDLSPQGRLSDVLKRKRLPKRGPRRPKYSPPRDDDKVD  1100
1101  NQAKSPTTTQSPKSSFLASLNPKTWGRLSTQSNSNNIEPARTAGGSGLAR  1150
1151  AASKDTISNNREKIKGWIKEQAHKFVERYFSSENMDGSNPALNVLQRLCA  1200
1201  ATEQLNLQVDGGAECLVEIRSIVSESDVSSFEIQHSGFVKQLLLYLTSKS  1250
1251  EKDAVSREIRLKRFLHVFFSSPLPGEEPIGRVEPVGNAPLLALVHKMNNC  1300
1301  LSQMEQFPVKVHDFPSGNGTGGSFSLNRGSQALKFFNTHQLKCQLQRHPD  1350
1351  CANVKQWKGGPVKIDPLALVQAIERYLVVRGYGRVREDDEDSDDDGSDEE  1400
1401  IDESLAAQFLNSGNVRHRLQFYIGEHLLPYNMTVYQAVRQFSIQAEDERE  1450
1451  STDDESNPLGRAGIWTKTHTIWYKPVREDEESNKDCVGGKRGRAQTAPTK  1500
1501  TSPRNAKKHDELWHDGVCPSVSNPLEVYLIPTPPENITFEDPSLDVILLL  1550
1551  RVLHAISRYWYYLYDNAMCKEIIPTSEFINSKLTAKANRQLQDPLVIMTG  1600
1601  NIPTWLTELGKTCPFFFPFDTRQMLFYVTAFDRDRAMQRLLDTNPEINQS  1650
1651  DSQDSRVAPRLDRKKRTVNREELLKQAESVMQDLGSSRAMLEIQYENEVG  1700
1701  TGLGPTLEFYALVSQELQRADLGLWRGEEVTLSNPKGSQEGTKYIQNLQG  1750
1751  LFALPFGRTAKPAHIAKVKMKFRFLGKLMAKAIMDFRLVDLPLGLPFYKW  1800
1801  MLRQETSLTSHDLFDIDPVVARSVYHLEDIVRQKKRLEQDKSQTKESLQY  1850
1851  ALETLTMNGCSVEDLGLDFTLPGFPNIELKKGGKDIPVTIHNLEEYLRLV  1900
1901  IFWALNEGVSRQFDSFRDGFESVFPLSHLQYFYPEELDQLLCGSKADTWD  1950
1951  AKTLMECCRPDHGYTHDSRAVKFLFEILSSFDNEQQRLFLQFVTGSPRLP  2000
2001  VGGFRSLNPPLTIVRKTFESTENPDDFLPSVMTCVNYLKLPDYSSIEIMR  2050
2051  EKLLIAAREGQQSFHLS                                   2067

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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