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

NucPred

Fetching O95425 from www.uniprot.org...

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

   1  MKRKERIARRLEGIENDTQPILLQSCTGLVTHRLLEEDTPRYMRASDPAS    50
  51  PHIGRSNEEEETSDSSLEKQTRSKYCTETSGVHGDSPYGSGTMDTHSLES   100
 101  KAERIARYKAERRRQLAEKYGLTLDPEADSEYLSRYTKSRKEPDAVEKRG   150
 151  GKSDKQEESSRDASSLYPGTETMGLRTCAGESKDYALHVGDGSSDPEVLL   200
 201  NIENQRRGQELSATRQAHDLSPAAESSSTFSFSGRDSSFTEVPRSPKHAH   250
 251  SSSLQQAASRSPSFGDPQLSPEARPSTGKPKHEWFLQKDSEGDTPSLINW   300
 301  PSRVKVREKLVKEESARNSPELASESVTQRRHQPAPVHYVSFQSEHSAFD   350
 351  RVPSKAAGSTRQPIRGYVQPADTGHTAKLVTPETPENASECSWVASATQN   400
 401  VPKPPSLTVLEGDGRDSPVLHVCESKAEEEEGEGEGEEKEEDVCFTEALE   450
 451  QSKKTLLALEGDGLVRSPEDPSRNEDFGKPAVSTVTLEHQKELENVAQPP   500
 501  QAPHQPTERTGRSEMVLYIQSEPVSQDAKPTGHNREASKKRKVRTRSLSD   550
 551  FTGPPQLQALKYKDPASRRELELPSSKTEGPYGEISMLDTKVSVAQLRSA   600
 601  FLASANACRRPELKSRVERSAEGPGLPTGVERERGSRKPRRYFSPGESRK   650
 651  TSERFRTQPITSAERKESDRCTSHSETPTVDDEEKVDERAKLSVAAKRLL   700
 701  FREMEKSFDEQNVPKRRSRNTAVEQRLRRLQDRSLTQPITTEEVVIAATE   750
 751  PIPASCSGGTHPVMARLPSPTVARSAVQPARLQASAHQKALAKDQTNEGK   800
 801  ELAEQGEPDSSTLSLAEKLALFNKLSQPVSKAISTRNRIDTRQRRMNARY   850
 851  QTQPVTLGEVEQVQSGKLIPFSPAVNTSVSTVASTVAPMYAGDLRTKPPL   900
 901  DHNASATDYKFSSSIENSDSPVRSILKSQAWQPLVEGSENKGMLREYGET   950
 951  ESKRALTGRDSGMEKYGSFEEAEASYPILNRAREGDSHKESKYAVPRRGS  1000
1001  LERANPPITHLGDEPKEFSMAKMNAQGNLDLRDRLPFEEKVEVENVMKRK  1050
1051  FSLRAAEFGEPTSEQTGTAAGKTIAQTTAPVSWKPQDSSEQPQEKLCKNP  1100
1101  CAMFAAGEIKTPTGEGLLDSPSKTMSIKERLALLKKSGEEDWRNRLSRRQ  1150
1151  EGGKAPASSLHTQEAGRSLIKKRVTESRESQMTIEERKQLITVREEAWKT  1200
1201  RGRGAANDSTQFTVAGRMVKKGLASPTAITPVASPICGKTRGTTPVSKPL  1250
1251  EDIEARPDMQLESDLKLDRLETFLRRLNNKVGGMHETVLTVTGKSVKEVM  1300
1301  KPDDDETFAKFYRSVDYNMPRSPVEMDEDFDVIFDPYAPKLTSSVAEHKR  1350
1351  AVRPKRRVQASKNPLKMLAAREDLLQEYTEQRLNVAFMESKRMKVEKMSS  1400
1401  NSNFSEVTLAGLASKENFSNVSLRSVNLTEQNSNNSAVPYKRLMLLQIKG  1450
1451  RRHVQTRLVEPRASALNSGDCFLLLSPHCCFLWVGEFANVIEKAKASELA  1500
1501  TLIQTKRELGCRATYIQTIEEGINTHTHAAKDFWKLLGGQTSYQSAGDPK  1550
1551  EDELYEAAIIETNCIYRLMDDKLVPDDDYWGKIPKCSLLQPKEVLVFDFG  1600
1601  SEVYVWHGKEVTLAQRKIAFQLAKHLWNGTFDYENCDINPLDPGECNPLI  1650
1651  PRKGQGRPDWAIFGRLTEHNETILFKEKFLDWTELKRSNEKNPGELAQHK  1700
1701  EDPRTDVKAYDVTRMVSMPQTTAGTILDGVNVGRGYGLVEGHDRRQFEIT  1750
1751  SVSVDVWHILEFDYSRLPKQSIGQFHEGDAYVVKWKFMVSTAVGSRQKGE  1800
1801  HSVRAAGKEKCVYFFWQGRHSTVSEKGTSALMTVELDEERGAQVQVLQGK  1850
1851  EPPCFLQCFQGGMVVHSGRREEEEENVQSEWRLYCVRGEVPVEGNLLEVA  1900
1901  CHCSSLRSRTSMVVLNVNKALIYLWHGCKAQAHTKEVGRTAANKIKEQCP  1950
1951  LEAGLHSSSKVTIHECDEGSEPLGFWDALGRRDRKAYDCMLQDPGSFNFA  2000
2001  PRLFILSSSSGDFAATEFVYPARAPSVVSSMPFLQEDLYSAPQPALFLVD  2050
2051  NHHEVYLWQGWWPIENKITGSARIRWASDRKSAMETVLQYCKGKNLKKPA  2100
2101  PKSYLIHAGLEPLTFTNMFPSWEHREDIAEITEMDTEVSNQITLVEDVLA  2150
2151  KLCKTIYPLADLLARPLPEGVDPLKLEIYLTDEDFEFALDMTRDEYNALP  2200
2201  AWKQVNLKKAKGLF                                      2214

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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