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

NucPred

Fetching Q751J3 from www.uniprot.org...

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

   1  MEQYVASAINLLSSPKLKERSQALTDVAAIVKDNPDTLTSKSVGALVQSL    50
  51  IDILDAETRKFDELCRRRPEAGARVELAQGRLNSVVAVLRLVLETIPDRL   100
 101  RAKQFRGLVLSLPELLGWAIREQVHDMLQPLSACLQALTECHTFKLKVDD   150
 151  GQWRTLVRASAEDLVALFGINCTHKSIAKLAGALTSLIRMDAVGFKDVCE   200
 201  ELLLIPVRYYQNTDKETANMRSILQLCNLLVLKGHLIKFHGVQYLIHCTM   250
 251  QHLLQFTLPGTDYILEEIAVFTLFSAELMIHEVPYIPGDLESGRYFGKEV   300
 301  LSELYQQFIVHLLENYRPQKLQLKDLEYRLLLDRRQWYQLDDFQISPHAS   350
 351  HIEWLQLQGISNMLCSYYAFQHRHPVMDISQVKRRRLSDTYNSFLLNSQY   400
 401  GISFATSCIDSNPVSSQLLGLQLAACVTSFHECPKYQLEELLDAILRRFE   450
 451  NANLVGWCCLAMLPLCSQLDLVISETVLQKLLKLTLPLLKIPTLSAVASA   500
 501  LISKLLDYQQRTLTGSNMLQQCYDLYELSDIIGPAVVSNESFRLWQSLHI   550
 551  YGGDFRGKDGSSAADRIANWLFAKLNTVSPLDESQNSFPHFLGWLAGCQL   600
 601  KDAYEVNRAIHVNSYCLEWEYTSVERTFLLSIETSRRLSRNRTTPLQNMN   650
 651  YESSSISELFYRILDKITSQDDIEAYGWMCFGLQLIHHIRELTYLVEYVN   700
 701  DLKKAICLRLGKMNFGNSQILLSCIRQTTSLPSCDILPLFFTEREIANII   750
 751  YTYKELKLTEVPEGPAEDDFAGPAKARHKLYPLNHLYAGKQGFEIDYVVS   800
 801  FIIMCSDYETNGDAAEKVIELFLQLARSLPTNLIFQALPTLITYIGSNDR   850
 851  ENISEDTLLALTEFTGSSLLTNEYNTSTLSITYLSLFLKSISRYWLSDTH   900
 901  MPSLTADCNDILEWIFSRLGDSSCIGCEAIMAILDMTLHMLKNYNRSNSK   950
 951  FTFDKQHLFHVLTTCLGRLPKFYICKVVHELNSYVVRLGLKNQSIIFSEF  1000
1001  AGLFDPPQRDAETAAYYSLTLAGLGTISHMHLSNAILHVLPNLQHKHVSQ  1050
1051  YALSFLKSVAGFHKLSGIRALFHLCRFEILDIWSNKCAGLRDFSPIWNTA  1100
1101  IFQFESFEQFINEYKHEVAAYYFAKLSPYHYLKSTLVNDDKELPQLLEIS  1150
1151  LQYAIPLAYIPGGIGDAIFDICADQWSATNHTNVLKQQYLLIFDRLLHFA  1200
1201  DLTVFMEYFESLQKVYTNSELIHKMKKYTYNLHPKHLLSYSLRTALKVIH  1250
1251  SKVLLGKLSIQELRFLLTLNLQYLQESTLPDDRSQILRKIQIILVAYEQQ  1300
1301  LEDASSVSDLLEILTDYLDDPLLGNEVGALIGSIVALGFNVKYTESLFLC  1350
1351  IFAKLLPQLHEAKTANLSILLNDISNTLTINNSNIIHGKWWHACIDALAG  1400
1401  TSLFENTIYHDDSLLDTELLDHRALNLYSEILSFLPPFTGFPPNFVPKER  1450
1451  VLRHLISQTTTFKLHDNFLLWKGHYIGMYHKFHGTIPQLAPNGPNQKLSI  1500
1501  DKLVKNYGLLNGIFELLEAIEKTTHARIKFICQCINAVSLSHKDSLSTFT  1550
1551  ADTQQFFGQLSSKSVPLDLALFFYMFPISNPSESMETFCRLHYPALTSDY  1600
1601  SSWLVKLTMFALDMLGRYIPVVKCFEVLATAITSRVEQLLNYWLLLLLYC  1650
1651  DPNNGIRLLCTLISNIGLLKSTKEGILKIKYMLNLLLIVRSFHKLGYKEF  1700
1701  DTIYDRISLQDAYKVAAEVGEKYIACLLFEEFHMPNLARLDVTYMKEIYK  1750
1751  QFDDVDMIYGIPTTASLASAIELINQTQATSLKSFMMNNGNFDAQYATHF  1800
1801  TGNIGNLVNSASNNGFTGLAYALQNISSSKNTSATYNWCIELDKWDLPTP  1850
1851  DILDSTAKSIYSIIKKTDINTGTAEAAFKSTMLNALQFLEKTGVNEDNVS  1900
1901  QLGSIVTMVQLYNNNAEKLVKSLHAQDRKILKVKDFNDYYMDIKVRHVFL  1950
1951  DHLIDSHKNRLSEEQSICLRFASICELSHLSEVARGASDFQRSLDAVLLL  2000
2001  EKSVLALPTNSSVEHYGLFKTFARRMSTIQSAKMLWSQNETVMSIDMLKD  2050
2051  LLHTPLSSNLIARARKQPFFQQMAILDINVKAQLVQWLSHSRQDVPERIF  2100
2101  KNYIGTSLQDIENYGDNPSRTEIVHTFGKFCYDQAKRFSETNEVDIMARR  2150
2151  VSKNKEELAALYQLYHDRSLPERERKEAKRHYARLLVRNQQETETYNQLR  2200
2201  DQRELFVTNALLFFTQTLQYDDLYDGEVIDQFCGLWFEYSNDDNVSGKLL  2250
2251  SNLQNIPEYKLLPWINQMASKLADDESPFQKTLRAAMVRILLKLPYDSLY  2300
2301  VLIGMSLTGSRQNAKDSGSQSRLVAVESLLKEVSKHDYGSYATKYLLPVR  2350
2351  EFCEMSVSLASQKFAQNTRKIHLNNLKIGTYWLKELKGRKLPLPTAQSRV  2400
2401  SDRCGNSVSRSYITQVDPDVRIASSGLSLPKIVTFTLSDGTRHRALLKAG  2450
2451  NDDLRQDAIMEQVFKQVNKILTSNKRTRKLKLRIRTYEVIPLGPQAGIIE  2500
2501  FAPNSKSLHEILAGYHKDDTISLEQARKAMKAVQGKSKEQRIAVYVKITE  2550
2551  SVKPVLRNFFYETFLDPEEWLLAKATYTKGVVTNSIVGHILGLGDRHLNN  2600
2601  ILLDKFTGEPIHIDLGVAFDQGKLLPLPELVPFRLTRDIVDGFGVMGVEG  2650
2651  LFRKNCEKVYGLLRKERERVMCVLNVLKWDPLYSWKMTPLRRQKLQGKLV  2700
2701  DGDSPSDSLVTSLPDSSDNDESRRALKGVEDKLLGNGLSVEATVQELVHR  2750
2751  ATDVSNLAVIFMGWSPFY                                  2768

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.