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

NucPred

Fetching P07207 from www.uniprot.org...

The NucPred score for your sequence is 0.80 (see score help below)

   1  MQSQRSRRRSRAPNTWICFWINKMHAVASLPASLPLLLLTLAFANLPNTV    50
  51  RGTDTALVAASCTSVGCQNGGTCVTQLNGKTYCACDSHYVGDYCEHRNPC   100
 101  NSMRCQNGGTCQVTFRNGRPGISCKCPLGFDESLCEIAVPNACDHVTCLN   150
 151  GGTCQLKTLEEYTCACANGYTGERCETKNLCASSPCRNGATCTALAGSSS   200
 201  FTCSCPPGFTGDTCSYDIEECQSNPCKYGGTCVNTHGSYQCMCPTGYTGK   250
 251  DCDTKYKPCSPSPCQNGGICRSNGLSYECKCPKGFEGKNCEQNYDDCLGH   300
 301  LCQNGGTCIDGISDYTCRCPPNFTGRFCQDDVDECAQRDHPVCQNGATCT   350
 351  NTHGSYSCICVNGWAGLDCSNNTDDCKQAACFYGATCIDGVGSFYCQCTK   400
 401  GKTGLLCHLDDACTSNPCHADAICDTSPINGSYACSCATGYKGVDCSEDI   450
 451  DECDQGSPCEHNGICVNTPGSYRCNCSQGFTGPRCETNINECESHPCQNE   500
 501  GSCLDDPGTFRCVCMPGFTGTQCEIDIDECQSNPCLNDGTCHDKINGFKC   550
 551  SCALGFTGARCQINIDDCQSQPCRNRGICHDSIAGYSCECPPGYTGTSCE   600
 601  ININDCDSNPCHRGKCIDDVNSFKCLCDPGYTGYICQKQINECESNPCQF   650
 651  DGHCQDRVGSYYCQCQAGTSGKNCEVNVNECHSNPCNNGATCIDGINSYK   700
 701  CQCVPGFTGQHCEKNVDECISSPCANNGVCIDQVNGYKCECPRGFYDAHC   750
 751  LSDVDECASNPCVNEGRCEDGINEFICHCPPGYTGKRCELDIDECSSNPC   800
 801  QHGGTCYDKLNAFSCQCMPGYTGQKCETNIDDCVTNPCGNGGTCIDKVNG   850
 851  YKCVCKVPFTGRDCESKMDPCASNRCKNEAKCTPSSNFLDFSCTCKLGYT   900
 901  GRYCDEDIDECSLSSPCRNGASCLNVPGSYRCLCTKGYEGRDCAINTDDC   950
 951  ASFPCQNGGTCLDGIGDYSCLCVDGFDGKHCETDINECLSQPCQNGATCS  1000
1001  QYVNSYTCTCPLGFSGINCQTNDEDCTESSCLNGGSCIDGINGYNCSCLA  1050
1051  GYSGANCQYKLNKCDSNPCLNGATCHEQNNEYTCHCPSGFTGKQCSEYVD  1100
1101  WCGQSPCENGATCSQMKHQFSCKCSAGWTGKLCDVQTISCQDAADRKGLS  1150
1151  LRQLCNNGTCKDYGNSHVCYCSQGYAGSYCQKEIDECQSQPCQNGGTCRD  1200
1201  LIGAYECQCRQGFQGQNCELNIDDCAPNPCQNGGTCHDRVMNFSCSCPPG  1250
1251  TMGIICEINKDDCKPGACHNNGSCIDRVGGFECVCQPGFVGARCEGDINE  1300
1301  CLSNPCSNAGTLDCVQLVNNYHCNCRPGHMGRHCEHKVDFCAQSPCQNGG  1350
1351  NCNIRQSGHHCICNNGFYGKNCELSGQDCDSNPCRVGNCVVADEGFGYRC  1400
1401  ECPRGTLGEHCEIDTLDECSPNPCAQGAACEDLLGDYECLCPSKWKGKRC  1450
1451  DIYDANYPGWNGGSGSGNDRYAADLEQQRAMCDKRGCTEKQGNGICDSDC  1500
1501  NTYACNFDGNDCSLGINPWANCTANECWNKFKNGKCNEECNNAACHYDGH  1550
1551  DCERKLKSCDSLFDAYCQKHYGDGFCDYGCNNAECSWDGLDCENKTQSPV  1600
1601  LAEGAMSVVMLMNVEAFREIQAQFLRNMSHMLRTTVRLKKDALGHDIIIN  1650
1651  WKDNVRVPEIEDTDFARKNKILYTQQVHQTGIQIYLEIDNRKCTECFTHA  1700
1701  VEAAEFLAATAAKHQLRNDFQIHSVRGIKNPGDEDNGEPPANVKYVITGI  1750
1751  ILVIIALAFFGMVLSTQRKRAHGVTWFPEGFRAPAAVMSRRRRDPHGQEM  1800
1801  RNLNKQVAMQSQGVGQPGAHWSDDESDMPLPKRQRSDPVSGVGLGNNGGY  1850
1851  ASDHTMVSEYEEADQRVWSQAHLDVVDVRAIMTPPAHQDGGKHDVDARGP  1900
1901  CGLTPLMIAAVRGGGLDTGEDIENNEDSTAQVISDLLAQGAELNATMDKT  1950
1951  GETSLHLAARFARADAAKRLLDAGADANCQDNTGRTPLHAAVAADAMGVF  2000
2001  QILLRNRATNLNARMHDGTTPLILAARLAIEGMVEDLITADADINAADNS  2050
2051  GKTALHWAAAVNNTEAVNILLMHHANRDAQDDKDETPLFLAAREGSYEAC  2100
2101  KALLDNFANREITDHMDRLPRDVASERLHHDIVRLLDEHVPRSPQMLSMT  2150
2151  PQAMIGSPPPGQQQPQLITQPTVISAGNGGNNGNGNASGKQSNQTAKQKA  2200
2201  AKKAKLIEGSPDNGLDATGSLRRKASSKKTSAASKKAANLNGLNPGQLTG  2250
2251  GVSGVPGVPPTNSAAQAAAAAAAAVAAMSHELEGSPVGVGMGGNLPSPYD  2300
2301  TSSMYSNAMAAPLANGNPNTGAKQPPSYEDCIKNAQSMQSLQGNGLDMIK  2350
2351  LDNYAYSMGSPFQQELLNGQGLGMNGNGQRNGVGPGVLPGGLCGMGGLSG  2400
2401  AGNGNSHEQGLSPPYSNQSPPHSVQSSLALSPHAYLGSPSPAKSRPSLPT  2450
2451  SPTHIQAMRHATQQKQFGGSNLNSLLGGANGGGVVGGGGGGGGGVGQGPQ  2500
2501  NSPVSLGIISPTGSDMGIMLAPPQSSKNSAIMQTISPQQQQQQQQQQQQQ  2550
2551  HQQQQQQQQQQQQQQQQQLGGLEFGSAGLDLNGFCGSPDSFHSGQMNPPS  2600
2601  IQSSMSGSSPSTNMLSPSSQHNQQAFYQYLTPSSQHSGGHTPQHLVQTLD  2650
2651  SYPTPSPESPGHWSSSSPRSNSDWSEGVQSPAANNLYISGGHQANKGSEA  2700
2701  IYI                                                 2703

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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