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  MSNRPNNNPGGSLRRSQRNTAGAQPQDDSIGGRSCSSSSAVIVPQPEDPD    50
  51  RANTSERQKTGQVPKKDNSRGVKRSASPDYNRTNSPSSAKKPKALQHTES   100
 101  PSETNKPHSKSKKRHLDQEQQLKSAQSPSTSKAHTRKSGATGGSRSQKRK   150
 151  RTESSCVKSGSGSESTGAEERSAKPTKLASKSATSAKAGCSTITDSSSAA   200
 201  STSSSSSAVASASSTVPPGARVKQGKDQNKARRSRSASSPSPRRSSREKE   250
 251  QSKTGGSSKFDWAARFSPKVSLPKTKLSLPGSSKSETSKPGPSGLQAKLA   300
 301  SLRKSTKKRSESPPAELPSLRRSTRQKTTGSCASTSRRGSGLGKRGAAEA   350
 351  RRQEKMADPESNQEAVNSSAARTDEAPQGAAGAVGMTTSGESESDDSEMG   400
 401  RLQALLEARGLPPHLFGPLGPRMSQLFHRTIGSGASSKAQQLLQGLQASD   450
 451  ESQQLQAVIEMCQLLVMGNEETLGGFPVKSVVPALITLLQMEHNFDIMNH   500
 501  ACRALTYMMEALPRSSAVVVDAIPVFLEKLQVIQCIDVAEQALTALEMLS   550
 551  RRHSKAILQAGGLADCLLYLEFFSINAQRNALAIAANCCQSITPDEFHFV   600
 601  ADSLPLLTQRLTHQDKKSVESTCLCFARLVDNFQHEENLLQQVASKDLLT   650
 651  NVQQLLVVTPPILSSGMFIMVVRMFSLMCSNCPTLAVQLMKQNIAETLHF   700
 701  LLCGASNGSCQEQIDLVPRSPQELYELTSLICELMPCLPKEGIFAVDTML   750
 751  KKGNAQNTDGAIWQWRDDRGLWHPYNRIDSRIIEQINEDTGTARAIQRKP   800
 801  NPLANSNTSGYSESKKDDARAQLMKEDPELAKSFIKTLFGVLYEVYSSSA   850
 851  GPAVRHKCLRAILRIIYFADAELLKDVLKNHAVSSHIASMLSSQDLKIVV   900
 901  GALQMAEILMQKLPDIFSVYFRREGVMHQVKHLAESESLLTSPPKACTNG   950
 951  SGSMGSTTSVSSGTATAATHAAADLGSPSLQHSRDDSLDLSPQGRLSDVL  1000
1001  KRKRLPKRGPRRPKYSPPRDDDKVDNQAKSPTTTQSPKSSFLASLNPKTW  1050
1051  GRLSTQSNSNNIEPARTAGGSGLARAASKDTISNNREKIKGWIKEQAHKF  1100
1101  VERYFSSENMDGSNPALNVLQRLCAATEQLNLQVDGGAECLVEIRSIVSE  1150
1151  SDVSSFEIQHSGFVKQLLLYLTSKSEKDAVSREIRLKRFLHVFFSSPLPG  1200
1201  EEPIGRVEPVGNAPLLALVHKMNNCLSQMEQFPVKVHDFPSGNGTGGSFS  1250
1251  LNRGSQALKFFNTHQLKCQLQRHPDCANVKQWKGGPVKIDPLALVQAIER  1300
1301  YLVVRGYGRVREDDEDSDDDGSDEEIDESLAAQFLNSGNVRHRLQFYIGE  1350
1351  HLLPYNMTVYQAVRQFSIQAEDERESTDDESNPLGRAGIWTKTHTIWYKP  1400
1401  VREDEESNKDCVGGKRGRAQTAPTKTSPRNAKKHDELWHDGVCPSVSNPL  1450
1451  EVYLIPTPPENITFEDPSLDVILLLRVLHAISRYWYYLYDNAMCKEIIPT  1500
1501  SEFINSKLTAKANRQLQDPLVIMTGNIPTWLTELGKTCPFFFPFDTRQML  1550
1551  FYVTAFDRDRAMQRLLDTNPEINQSDSQDSRVAPRLDRKKRTVNREELLK  1600
1601  QAESVMQDLGSSRAMLEIQYENEVGTGLGPTLEFYALVSQELQRADLGLW  1650
1651  RGEEVTLSNPKGSQEGTKYIQNLQGLFALPFGRTAKPAHIAKVKMKFRFL  1700
1701  GKLMAKAIMDFRLVDLPLGLPFYKWMLRQETSLTSHDLFDIDPVVARSVY  1750
1751  HLEDIVRQKKRLEQDKSQTKESLQYALETLTMNGCSVEDLGLDFTLPGFP  1800
1801  NIELKKGGKDIPVTIHNLEEYLRLVIFWALNEGVSRQFDSFRDGFESVFP  1850
1851  LSHLQYFYPEELDQLLCGSKADTWDAKTLMECCRPDHGYTHDSRAVKFLF  1900
1901  EILSSFDNEQQRLFLQFVTGSPRLPVGGFRSLNPPLTIVRKTFESTENPD  1950
1951  DFLPSVMTCVNYLKLPDYSSIEIMREKLLIAAREGQQSFHLS          1992

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.)

Go back to the NucPred Home Page.