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

NucPred

Fetching P35458 from www.uniprot.org...

The NucPred score for your sequence is 0.86 (see score help below)

   1  MAQSRRHPHGRASSAGPRMSTEASSKPLKVGSRVEVIGKGHRGTVAYVGA    50
  51  TLXATGKWVGVILDEAKGKNDGTVQGRKYFTCEENHGIFVRQSQIQVFED   100
 101  GADTTSPETPESAALKVPKRHSRXAAKGSKLRGAKPKKTTARRPKPTRTP   150
 151  TSAPSSGTAGPSGSASASGGEMSSSEPSTPAQTPLVAPVIPSPSLTSPVA   200
 201  PMVPSPTKEEENLRSQVRDLEEKLETLKIKRNEDKAKLKELEKYKIQLEQ   250
 251  VQEWKSKMQEQQADLQRRLKEAKKEAKDALEAKERYMEEMADTADAIEMA   300
 301  TLDKEMAEERAESLQQEVDSLKEKVEYLTMDLEILKHEIEEKGSDGAASS   350
 351  YQVKQLEEQNARLKEALVRMRDLSASEKQEHVKLQKQMEKKNTELESLRQ   400
 401  QREKLQEEVKQAEKTVDELKEQVDAALGAEEMVETLTERNLDLEEKVREL   450
 451  RETVGDLEAMNEMNDELQENARETELELREQLDLAAARVREAEKRVEAAQ   500
 501  ETVADYQQTIKKYRELTAHLQDVNRELMSQQEASAEKQQQPPPEIFDFKI   550
 551  KFAETKAHAKAIEMELRQMEVQQANRHVSLLTSFMPDSFLRHGGDHDCIL   600
 601  VLLLIPRLICKADVISKQAQEKFELNENCTARAGLRGAAGEQLSFAAGLV   650
 651  YSLSLLQATLHKYEQALNKCSVEVYKKVGMLYPEMSVHERSLDFLIELLH   700
 701  KDQLDETVNVEPLTKAIKYYQHLYSIHLAEQAEDCTMQLADHIKFTQSAL   750
 751  DCMGVEVCRLRAFLQAGQEASDLAILLKDLETSCSDIRQFCKKIRRRMPG   800
 801  TDAPGIPAALGFGQQVSDTLLDCRKHLTWVVAVLQEVAAAGAQLIAPLAE   850
 851  NGAAGGEAGGLGLQSQRADLQRSGHQPLRVPAPVLQHPHCHHEQDATAMQ   900
 901  EGEYDADRPQSKPTPPAELRAAALRAEITDAEGLGLKLEDRETVIKELKK   950
 951  SLKIKGEELSEANVRLSLLEKKLDSASKDADDRVEKIQTKLDETQTLLKK  1000
1001  KEKEFEETMDALQADIDQLESEKVELKQRLNNQSKRTIEGLRGAPASGVA  1050
1051  SIVSGIAGEEQQRGVGAGQAAGGSAGPVQVKDSPLLLQQIEALQLSIRHL  1100
1101  KNENNRLKGAQMKLELAGLKPLQVAKVSLPQSKQGEGPATLTLYRKSTQL  1150
1151  LETLYQMSTNAKVVDTKQTKSGRSGARLLEQTARLWAMKGSIEALRTRPC  1200
1201  GRWCSSSRARASPPASACSPPRPS                            1224

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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