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

NucPred

Fetching Q92614 from www.uniprot.org...

The NucPred score for your sequence is 0.97 (see score help below)

   1  MFNLMKKDKDKDGGRKEKKEKKEKKERMSAAELRSLEEMSLRRGFFNLNR    50
  51  SSKRESKTRLEISNPIPIKVASGSDLHLTDIDSDSNRGSVILDSGHLSTA   100
 101  SSSDDLKGEEGSFRGSVLQRAAKFGSLAKQNSQMIVKRFSFSQRSRDESA   150
 151  SETSTPSEHSAAPSPQVEVRTLEGQLVQHPGPGIPRPGHRSRAPELVTKK   200
 201  FPVDLRLPPVVPLPPPTLRELELQRRPTGDFGFSLRRTTMLDRGPEGQAC   250
 251  RRVVHFAEPGAGTKDLALGLVPGDRLVEINGHNVESKSRDEIVEMIRQSG   300
 301  DSVRLKVQPIPELSELSRSWLRSGEGPRREPSDAKTEEQIAAEEAWNETE   350
 351  KVWLVHRDGFSLASQLKSEELNLPEGKVRVKLDHDGAILDVDEDDVEKAN   400
 401  APSCDRLEDLASLVYLNESSVLHTLRQRYGASLLHTYAGPSLLVLGPRGA   450
 451  PAVYSEKVMHMFKGCRREDMAPHIYAVAQTAYRAMLMSRQDQSIILLGSS   500
 501  GSGKTTSCQHLVQYLATIAGISGNKVFSVEKWQALYTLLEAFGNSPTIIN   550
 551  GNATRFSQILSLDFDQAGQVASASIQTMLLEKLRVARRPASEATFNVFYY   600
 601  LLACGDGTLRTELHLNHLAENNVFGIVPLAKPEEKQKAAQQFSKLQAAMK   650
 651  VLGISPDEQKACWFILAAIYHLGAAGATKEAAEAGRKQFARHEWAQKAAY   700
 701  LLGCSLEELSSAIFKHQHKGGTLQRSTSFRQGPEESGLGDGTGPKLSALE   750
 751  CLEGMAAGLYSELFTLLVSLVNRALKSSQHSLCSMMIVDTPGFQNPEQGG   800
 801  SARGASFEELCHNYTQDRLQRLFHERTFVQELERYKEENIELAFDDLEPP   850
 851  TDDSVAAVDQASHQSLVRSLARTDEARGLLWLLEEEALVPGASEDTLLER   900
 901  LFSYYGPQEGDKKGQSPLLHSSKPHHFLLGHSHGTNWVEYNVTGWLNYTK   950
 951  QNPATQNAPRLLQDSQKKIISNLFLGRAGSATVLSGSIAGLEGGSQLALR  1000
1001  RATSMRKTFTTGMAAVKKKSLCIQMKLQVDALIDTIKKSKLHFVHCFLPV  1050
1051  AEGWAGEPRSASSRRVSSSSELDLPSGDHCEAGLLQLDVPLLRTQLRGSR  1100
1101  LLDAMRMYRQGYPDHMVFSEFRRRFDVLAPHLTKKHGRNYIVVDERRAVE  1150
1151  ELLECLDLEKSSCCMGLSRVFFRAGTLARLEEQRDEQTSRNLTLFQAACR  1200
1201  GYLARQHFKKRKIQDLAIRCVQKNIKKNKGVKDWPWWKLFTTVRPLIEVQ  1250
1251  LSEEQIRNKDEEIQQLRSKLEKAEKERNELRLNSDRLESRISELTSELTD  1300
1301  ERNTGESASQLLDAETAERLRAEKEMKELQTQYDALKKQMEVMEMEVMEA  1350
1351  RLIRAAEINGEVDDDDAGGEWRLKYERAVREVDFTKKRLQQEFEDKLEVE  1400
1401  QQNKRQLERRLGDLQADSEESQRALQQLKKKCQRLTAELQDTKLHLEGQQ  1450
1451  VRNHELEKKQRRFDSELSQAHEEAQREKLQREKLQREKDMLLAEAFSLKQ  1500
1501  QLEEKDMDIAGFTQKVVSLEAELQDISSQESKDEASLAKVKKQLRDLEAK  1550
1551  VKDQEEELDEQAGTIQMLEQAKLRLEMEMERMRQTHSKEMESRDEEVEEA  1600
1601  RQSCQKKLKQMEVQLEEEYEDKQKVLREKRELEGKLATLSDQVNRRDFES  1650
1651  EKRLRKDLKRTKALLADAQLMLDHLKNSAPSKREIAQLKNQLEESEFTCA  1700
1701  AAVKARKAMEVEIEDLHLQIDDIAKAKTALEEQLSRLQREKNEIQNRLEE  1750
1751  DQEDMNELMKKHKAAVAQASRDLAQINDLQAQLEEANKEKQELQEKLQAL  1800
1801  QSQVEFLEQSMVDKSLVSRQEAKIRELETRLEFERTQVKRLESLASRLKE  1850
1851  NMEKLTEERDQRIAAENREKEQNKRLQRQLRDTKEEMGELARKEAEASRK  1900
1901  KHELEMDLESLEAANQSLQADLKLAFKRIGDLQAAIEDEMESDENEDLIN  1950
1951  SLQDMVTKYQKRKNKLEGDSDVDSELEDRVDGVKSWLSKNKGPSKAASDD  2000
2001  GSLKSSSPTSYWKSLAPDRSDDEHDPLDNTSRPRYSHSYLSDSDTEAKLT  2050
2051  ETNA                                                2054

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.