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

NucPred

Fetching Q7SBU6 from www.uniprot.org...

The NucPred score for your sequence is 0.85 (see score help below)

   1  MTEVGPADRRKLLHSKRAEANSIVTSRKRKLRELYAVATDEDGFPNHDLN    50
  51  DLDTRPASPGEAKFLFDCEILQGRRLAERLLPVFQRPRFDTLQHIATADE   100
 101  SSLGHGPHVVQQVQPSPLIHPNHTIPKNVQHNGLPSPAPPASSIRHEPER   150
 151  TVPYNQVPNGAAGPQEALKAFAPRQEFQKLAPVQGSAVKTADGPSGESKP   200
 201  PAKETPVLLAPAAPHGNGRWNGIINNAPQGRVLPTPQTVAPPATAPTSTT   250
 251  KTANLGEGRAGPKDDTVSRGDAEEKARPKPTITSVNQLLSNGDSIRYPDT   300
 301  LSSPSSTVQSAPTPLGNEASASTSPDNEASQSFDKPVSRPEQELRRATTD   350
 351  NKGVGQFTGPSVAVPELRPQPQQPGVYANGAPEVPISSAPSVRPAASGAE   400
 401  AQLLQESAATRTSQVIGKAGVAGPHGAHSTGGLQTQHPSAVNGEVRNMMN   450
 451  GDIPGKHVASQASVSTGVAVTKAALPEVAKQGPLPQGPESRNNRADVGPT   500
 501  PMDLDRIPTAQAPKPIPSVHAVQEKAPSQESARQPQPSSTAPSTTPPSAQ   550
 551  PAVSLEKTVPGIQINAPPETETETQARTSQSSHPDTESAVADEEGDMPPG   600
 601  LLTHRLKSLSTRLRERRRKSVPTVVFGKQYRKPRFSDDTALIVNKPKPPG   650
 651  HIPSEDYFVTLFIESFARTSSWMKPLEKLLHSAHKTVSTSDQTLSILDHQ   700
 701  ACKILRRVYHLQQHDKWSLRQPVRCLEPARPASHQDLLIKEMKWMRTDFR   750
 751  EERKWKRAVARNLAYACAEWYYSSPADRKLLQVDAKIPPVRAVDNADTSM   800
 801  ADAPETGESLVPELDHSDSPVGNDEEVPELPITTIAPATIFALQDDEVVF   850
 851  ELQPSRTADLLLENLPMYGSPLKVPKFDWIIPDYDPDAKWKRPAVPLSKY   900
 901  VEGEMVLDVKPQPQKRSRFQFQGEDEEEEEEYVFGAQPDKGAKLPPTSTD   950
 951  VALFAPEMKLTRDRLHAGHQFRPPSEHPMPVQSFFESRIASQWTLAEDDQ  1000
1001  LRALVREYSYNWSLISSMISSRSSFPSAVERRTPWECFERWVNLEGLPSD  1050
1051  FAKTPYFKAYQARIDAAGRTILQHNQNAAQGQQVGPNGAVAPIPRKRPTN  1100
1101  TMRVERRRNQKHLALFDAMRKLAKKREAAAQKQQAQATMTAMRKTNEQQR  1150
1151  QQPQQQLHLQAKTPQEYSLMRAARDQQIAEKMAHLAARQHEIIQKRLLTQ  1200
1201  RQAQLAATPGVAQVPQTAAQLAAANSLNNAAARLNIPGQMAVTAQKLAPG  1250
1251  RVPMQAPAGIPTVPAQLAASGLVPPLPVAAIPQAQLQAMQAQHRLPMVNP  1300
1301  TPDINLVMQARRIQDQQRAVAVQLQQQQHQQHQHQQHPQQPQQQGQVQQQ  1350
1351  VVSQQQQQQHQPQQQQQPQQQQQLQQQQPQQQQPQHQQVQTPQPAQQQPQ  1400
1401  QPQVTQQPPPVPQVQINGVQGSPTPMRPVVNSLNNGVYMSSVSAQAMMAS  1450
1451  FNAANSVAGMVTSPGAGLSMPMLPAGSPRGPQIPAQQLPYTHIHTRLKEF  1500
1501  ETHFRNKNPGATQDQIRQMATEHLGRLIVQTQQHAMNAAAGGVGHSLGTV  1550
1551  ATTTSPHQYAQLLRAQQQAQAQQAQAQQQAPQPAQSQLTPAQLAQAQAAA  1600
1601  AQKQKQAAAAAAQAKVLAQAQMQTQTPAHQPHQPQAQPHVQAQAMAAAQL  1650
1651  QAQVQLQAQAAAQKQAAQAHPQAQSQGQGQPPQQTQRAHQVQQVQGQQAH  1700
1701  QLPQGSQSQQIQQQVQQSPQARQQSQQPQMVRQPVQQAQQPQQLQQPQQS  1750
1751  QKTPQMQPQQQVQTPHQQAQKAQQSQQAQLAQQQQHQQQQQQQQHGQAQS  1800
1801  QGQIQGQGQAPGQGQAPGQGHAQGQVQGQVQGQVQGQVQGQVQGQVQGQV  1850
1851  QGQAPGQVQPQHAQHSRHTPNSQHAQHTQQAQHARNAQQAHHTQQVQQAQ  1900
1901  HVQQPQGLQGQRHGQVHGNGQQLHQQHQHQQQQPQQAQQTQQQRQQVHPA  1950
1951  PQLPQAQPPQHSHQAQAQHPQTQQAQAPQAQAQQPQPPQQAQAQQVQQPQ  2000
2001  QAKLTQQAQQAQQAQGQQAQGQQAQGQQAQSQQARAQQAQVQQAQVQQAQ  2050
2051  VQQAQAQQAQAQQAQAQQAQAQAQAQSHGQMQPQTQPQQQPQPQPQSQPQ  2100
2101  AHQPQQASQQVQHGLVGQQGQQNRQGQQGQQSHQVQQAQQPQVQQAQQPV  2150
2151  ATPQSASQTSQNSQPAQQAGMAQQQQGQGSGSAAPAPTK             2189

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.