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

NucPred

Fetching Q64430 from www.uniprot.org...

The NucPred score for your sequence is 0.17 (see score help below)

   1  MEPSVDANSITITVEGMTCISCVRTIEQQIGKVNGVHHIKVSLEEKSATI    50
  51  IYDPKLQTPKTLQEAIDDMGFDALLHNANPLPVLTNTVFLTVTAPLTLPW   100
 101  DHIQSTLLKTKGVTGVKISPQQRSAVVTIIPSVVSASQIVELVPDLSLDM   150
 151  GTQEKKSGACEEHSTPQAGEVMLKMKVEGMTCHSCTSTIEGKVGKLQGVQ   200
 201  RIKVSLDNQEATIVFQPHLITAEEIKKQIEAVGFPAFIKKQPKYLKLGAI   250
 251  DVERLKNTPVKSSEGSQQKSPSYPSDSTTMFTIEGMHCKSCVSNIESALS   300
 301  TLQYVSSIVVSLENRSAIVKYNASLVTPEMLRKAIEAISPGQYRVSIASE   350
 351  VESTASSPSSSSLQKMPLNIVSQPLTQEAVININGMTCNSCVQSIEGVIS   400
 401  KKPGVKSIHVSLANSTGTIEFDPLLTSPETLREAIEDMGFDAALPDMKEP   450
 451  LVVIAQPSLETPLLPSSNELENVMTSVQNKCYIQVSGMTCASCVANIERN   500
 501  LRREEGIYSVLVALMAGKAEVRYNPAVIQPRVIAEFIRELGFGAMVMENA   550
 551  GEGNGILELVVRGMTCASCVHKIESTLTKHKGIFYCSVALATNKAHIKYD   600
 601  PEIIGPRDIIHTIGSLGFEASLVKKDRSANHLDHKREIKQWRGSFLVSLF   650
 651  FCIPVMGLMVYMMVMDHHLATLHHNQNMSNEEMINMHSAMFLERQILPGL   700
 701  SIMNLLSLLLCLPVQFCGGWYFYIQAYKALKHKTANMDVLIVLATTIAFA   750
 751  YSLVILLVAMFERAKVNPITFFDTPPMLFVFIALGRWLEHIAKGKTSEAL   800
 801  AKLISLQATEATIVTLNSENLLLSEEQVDVELVQRGDIIKVVPGGKFPVD   850
 851  GRVIEGHSMVDESLITGEAMPVAKKPGSTVIAGSINQNGSLLIRATHVGA   900
 901  DTTLSQIVKLVEEAQTSKAPIQQFADKLSGYFVPFIVLVSIVTLLVWIII   950
 951  GFQNFEIVETYFPGYNRSISRTETIIRFAFQASITVLCIACPCSLGLATP  1000
1001  TAVMVGTGVGAQNGILIKGGEPLEMAHKVKVVVFDKTGTITHGTPVVNQV  1050
1051  KVLVESNKISRNKILAIVGTAESNSEHPLGAAVTKYCKKELDTETLGTCT  1100
1101  DFQVVPGCGISCKVTNIEGLLHKSNLKIEENNIKNASLVQIDAINEQSST  1150
1151  SSSMIIDAHLSNAVNTQQYKVLIGNREWMIRNGLVISNDVDESMIEHERR  1200
1201  GRTAVLVTIDDELCGLIAIADTVKPEAELAVHILKSMGLEVVLMTGDNSK  1250
1251  TARSIASQVGITKVFAEVLPSHKVAKVKQLQEEGKRVAMVGDGINDSPAL  1300
1301  AMANVGIAIGTGTDVAIEAADVVLIRNDLLDVVASIDLSRKTVKRIRINF  1350
1351  VFALIYNLVGIPIAAGVFLPIGLVLQPWMGSAAMAASSVSVVLSSLFLKL  1400
1401  YRKPTYDNYELHPRSHTGQRSPSEISVHVGIDDTSRNSPRLGLLDRIVNY  1450
1451  SRASINSLLSDKRSLNSVVTSEPDKHSLLVGDFREDDDTTL           1491

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.