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

NucPred

Fetching P97479 from www.uniprot.org...

The NucPred score for your sequence is 0.95 (see score help below)

   1  MVILQKGDYVWMDLKSGQEFDVPIGAVVKLCDSGQIQVVDDEDNEHWISP    50
  51  QNATHIKPMHPTSVHGVEDMIRLGDLNEAGILRNLLIRYRDHLIYTYTGS   100
 101  ILVAVNPYQLLSIYSPEHIRQYTNKKIGEMPPHIFAIADNCYFNMKRNNR   150
 151  DQCCIISGESGAGKTESTKLILQFLAAISGQHSWIEQQVLEATPILEAFG   200
 201  NAKTIRNDNSSRFGKYIDIHFNKRGAIEGAKIEQYLLEKSRVCRQAPDER   250
 251  NYHVFYCMLEGMNEEEKKKLGLGQAADYNYLAMGNCITCEGRVDSQEYAN   300
 301  IRSAMKVLMFTDTENWEISKLLAAILHMGNLQYEARTFENLDACEVLFSP   350
 351  SLATAASLLEVNPPDLMSCLTSRTLITRGETVSTPLSREQALDVRDAFVK   400
 401  GIYGRLFVWIVEKINAAIYKPPPLEVKNSRRSIGLLDIFGFENFTVNSFE   450
 451  QLCINFANEHLQQFFVRHVFKLEQEEYDLESIDWLHIEFTDNQEALDMIA   500
 501  NRPMNVISLIDEESKFPKGTDATMLHKLNSQHKLNANYVPPKNSHETQFG   550
 551  INHFAGVVYYESQGFLEKNRDTLHGDIIQLVHSSRNKFIKQIFQADVAMG   600
 601  AETRKRSPTLSSQFKRSLELLMRTLGACQPFFVRCIKPNEFKKPMLFDRH   650
 651  LCVRQLRYSGMMETIRIRHAGYPIRYSFVEFVERYRVLLPGVKPAYKQGD   700
 701  LRGTCQRMAEAVLGTHDDWQIGKTKIFLKDHHDMLLEVERDKAITDRVIL   750
 751  LQKVIRGFKDRSNFLRLKSAATLIQRHWRGHHCRKNYELIRLGFLRLQAL   800
 801  HRSRKLHKQYRLARQRIIEFQARCRAYLVRKAFRHRLWAVITVQAYARGM   850
 851  IARRLHRRLRVEYQRRLEAERMRLAEEEKLRKEMSAKKAKEEAERKHQER   900
 901  LAQLAREDAERELKEKEEARRKKELLEQMEKARHEPINHSDMVDKMFGFL   950
 951  GTSGSLPGQEGQAPSGFEDLERGRREMVEEDVDAALPLPDEDEEDLSEYK  1000
1001  FAKFAATYFQGTTTHSYTRRPLKQPLLYHDDEGDQLAALAVWITILRFMG  1050
1051  DLPEPKYHTAMSDGSEKIPVMTKIYETLGKKTYKRELQALQGEGETQLPE  1100
1101  GQKKTSVRHKLVHLTLKKKSKLTEEVTKRLNDGESTVQGNSMLEDRPTSN  1150
1151  LEKLHFIIGNGILRPALRDEIYCQISKQLTHNPSKSSYARGWILVSLCVG  1200
1201  CFAPSEKFVKYLRNFIHGGPPGYAPYCEERLRRTFVNGTRTQPPSWLELQ  1250
1251  ATKSKKPIMLPVTFMDGTTKTLLTDSATTARELCNALADKISLKDRFGFS  1300
1301  LYIALFDKVSSLGSGSDHVMDAISQCEQYAKEQGAQERNAPWRLFFRKEV  1350
1351  FTPWHNPSEDNVATNLIYQQVVRGVKFGEYRCEKEDDLAELASQQYFVDY  1400
1401  GSEMILERLLSLVPTYIPDREITPLKNLEKWAQLAIAAHKKGIYAQRRTD  1450
1451  SQKVKEDVVNYARFKWPLLFSRFYEAYKFSGPPLPKSDVIVAVNWTGVYF  1500
1501  VDEQEQVLLELSFPEIMAVSSSRECRVLLSLGCSDLGCATCQSGRAGLTP  1550
1551  AGPCSPCWSCRGTKMMAPSFTLATIKGDEYTFTSSNAEDIRDLVVTFLEG  1600
1601  LRKRSKYVVALQDNPNPAGEESGFLSFAKGDLIILDHDTGEQVMNSGWAN  1650
1651  GINERTKQRGDFPTDCVYVMPTVTLPPREIVALVTMTPDQRQDVVRLLQL  1700
1701  RTAEPEVRAKPYTLEEFSYDYFRPPPKHTLSRVMVSKARGKDRLWSHTRE  1750
1751  PLKQALLKKILGSEELSQEACMAFVAVLKYMGDYPSKRMRSVNELTDQIF  1800
1801  EWALKAEPLKDEAYVQILKQLTDNHIRYSEERGWELLWLCTGLFPPSNIL  1850
1851  LPHVQRFLQSRKHCPLAIDCLQRLQKALRNGSRKYPPHLVEVEAIQHKTT  1900
1901  QIFHKVYFPDDTDEAFEVESSTKAKDFCQNIASRLLLKSSEGFSLFVKIA  1950
1951  DKVISVPENDFFFDFVRHLTDWIKKARPIKDGIVPSLTYQVFFMKKLWTT  2000
2001  TVPGKDPMADSIFHYYQELPKYLRGYHKCTREEVLQLGALIYRVKFEEDK  2050
2051  SYFPSIPKLLRELVPQDLIRQVSPDDWKRSIVAYFNKHAGKSKEEAKLAF  2100
2101  LKLIFKWPTFGSAFFEVKQTTEPNFPEILLIAINKYGVSLIDPRTKDILT  2150
2151  THPFTKISNWSSGNTYFHITIGNLVRGSKLLCETSLGYKMDDLLTSYISQ  2200
2201  MLTAMSKQRNSRSGR                                     2215

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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