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

NucPred

Fetching Q9TU34 from www.uniprot.org...

The NucPred score for your sequence is 0.75 (see score help below)

   1  MSDKMSSFLHIGDICSLYAEGSTNGFISTLGLVDDRCVVQPETGDLNNPP    50
  51  KKFRDCLFKLCPMNRYSAQKQFWKAAKPGANSTTDAVLLNKLHHAADLEK   100
 101  KQNETENRKLLGTVIQYGNVIQLLHLKSNKYLTVNKRLPALLEKNAMRVT   150
 151  LDEAGNEGSWFYIQPFYKLRSIGDSVVIGDKVVLNPVNAGQPLHASSHQL   200
 201  VDNPGCNEVNSVNCNTSWKIVLFMKWSDNKDDILKGGDVVRLFHAEQEKF   250
 251  LTCDEHRKKQHVFLRTTGRQSATSATSSKALWEVEVVQHDPCRGGAGYWN   300
 301  SLFRFKHLATGHYLAAEVDPDFEEECLEFQPSVDPDQDASRSRLRNAQEK   350
 351  MVYSLVSVPEGNDISSIFELDPTTLRGGDSLVPRNSYVRLRHLCTNTWVH   400
 401  STNIPIDKEEEKPVMLKIGTSPVKEDKEAFAIVPVSPAEVRDLDFANDAS   450
 451  KVLGSIAGKLEKGTITQNERRSVTKLLEDLVYFVTGGTNSGQDVLEVVFS   500
 501  KPNRERQKLMREQNILKQIFKLLQAPFTDCGDGPMLRLEELGDQRHAPFR   550
 551  HICRLCYRVLRHSQQDYRKNQEYIAKQFGFMQKQIGYDVLAEDTITALLH   600
 601  NNRKLLEKHITAAEIDTFVSLVRKNREPRFLDYLSDLCVSMNKSIPVTQE   650
 651  LICKAVLNPTNADILIETKLVLSRFEFEGVSTGENALEAGEDEEEVWVFW   700
 701  RDSNKEVRSKSVRELAQDAKEGQKEDRDVLGYYRYQLNLFARMCLDRQYL   750
 751  AINEISGQLDVDLILRCMSDENLPSDLRASFCRLMLHMHVDRDPQEQVTP   800
 801  VKYARLWSEIPSEIAIDDYDSSGTSKDEIKERFAQTMEFVEEYLRDVVCQ   850
 851  RFPFSDKEKNKLTFEVVNLARNLIYFGFYNFSDLLRLTKILLAILDCVHV   900
 901  TTIFPISKMAKGEENKGSNVMRSIHGVGELMTQVVLRGGGFLPMTPTATA   950
 951  PEGNVKQAEPEKEDIMVMDTKLKIIEILQFILNVRLDYRISCLLCIFKRE  1000
1001  FDESNSQTSETSSGNSSQEGPSNVPGALDFEHIEEQAEGIFGGSEETTPL  1050
1051  DLDDHGGRTFLRVLLHLTMHDYPPLVSGALQLLFRHFSQRQEVLQAFKQV  1100
1101  QLLVTSQDVDNYKQIKQDLDQLRSIVEKSELWVYKGQGPDEAMDGASGEN  1150
1151  EHKKTEEGNNKSQQHESTSSYNYRVVKEILIRLSKLCVQESASVRKSRKQ  1200
1201  QQRLLRNMGAHAVVLELLQIPYEKAEDTMMQEIMRLAHEFLQNFCAGNHP  1250
1251  NQALLHKHINLFLNPGILEAVTMQHIFMNNFQLCSEINERVVQHFVHCIE  1300
1301  THGRNVQYIKFLQTIVKAEGKFIKKCQDMVMAELVNSGEDVLVFYNDRAS  1350
1351  FQTLIQMMRSERDRMDENSPLMYHIHLVELLAVCTEGKNVYTEIKCNSLL  1400
1401  PLDDIVRVVTHEDCIPEVKIAYINFLNHCYVDPEVEMKEIYTSNHMWKLF  1450
1451  ENFLVDICRACNNTSDRKHADSILEKYVTEIVMSIVTTFFSSPFSDQSTT  1500
1501  LQTRQPVFVQLLQGVFRVYHCNWLMPSQKASVESCIRVLSDVAKSRAIAI  1550
1551  PVDLDSQVNNLFLKSHNLVQKTAMNWRLTARNAARRDSVLPVSRDYRNII  1600
1601  ERLQDIVSALEDRLRPLVQAELSVLVDVLHRPELLFPENTDARRKCESGG  1650
1651  FICKLIKHTKQLLEENEEKLCIKVLQTLREMMTKDRGYGEKGEALRQILV  1700
1701  NRYYGNIRPSGRRESLTSFGNGPLSPGGPSKPGGGGGGSGSSPMSRGEMS  1750
1751  LAEVQCHLDKEGASNLVIDLIMNASSDRVFHESILLAIALLEGGNTTIQH  1800
1801  SFFCRLTEDKKSEKFFKVFYDRMKVAQQEIKATVTVNTSDLGNKKKDDEV  1850
1851  DRDAPSRKKAKEPATQITEEVRDQLLEASAATRKAFTTFRREADPDDHYQ  1900
1901  SGEGAQAAADKSKDDLEMSAVITIMQPILRFLQLLCENHNRDLQNFLRCQ  1950
1951  NNKTNYNLVCETLQFLDCICGSTTGGLGLLGLYINEKNVALINQTLESLT  2000
2001  EYCQGPCHENQNCIATHESNGIDIITALILNDINPLGKKRMDLVLELKNN  2050
2051  ASKLLLAIMESRHDSENAERILYNMRPKELVEVIKKAYMQGEVEFEDGEN  2100
2101  GEDGAASPRNVGHNIYILAHQLARHNKELQTMLKPGGQVDGDETLDFYAQ  2150
2151  PTGPNEIVRLDRTMEQIVFPVPSICEFLTKESKLRIYYTTERDEQGSKIN  2200
2201  DFFLRSEDLFNEMNWQKKLRAQPVLYWCARNMSFWSSISFNLAVLMNLLV  2250
2251  AFFYPFKGVRGGTLEPHWSGLLWTAMLISLAIVIALPKPHGIRALIASTI  2300
2301  LRLIFSVGLQPTLFLLGAFNVCNKIIFLMSFVGNCGTFTRGYRAMVLDVE  2350
2351  FLYHLLXLLICAMGLFVHEFFYSLLLFDLVYREETLLNVIKSVTRNGRSI  2400
2401  ILMAVLALILVYLFSIVGYLFFKDDFILEVDRLPNETSLPEASESLASEF  2450
2451  LYSDVCRVETGENCSSPAPKEELVPAEETEQDKEHTCETLLMCIVTVLSH  2500
2501  GLRSGGGVGDVLRKPSKEEPLFAARVIYDLLFFFMVIIIVLNLIFGVIID  2550
2551  TFADLRSEKQKKEEILKTTCFICGLERDKFDNKTVTFEEHIKEEHNMWHY  2600
2601  LCFIVLVKVKDSTEYTGPESYVAEMIKERNLDWFPRMRAMSLVSSDSEGE  2650
2651  QNELRNLQEKLESTMKLVTNLSGLLSELKDQMTDQRKQKQRMGLLGHPPH  2700
2701  INVNPQQPA                                           2709

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.