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

NucPred

Fetching Q96RV3 from www.uniprot.org...

The NucPred score for your sequence is 0.90 (see score help below)

   1  MGSQTLQILRQGVWAALSGGWYYDPHQATFVNALHLYLWLFLLGLPFTLY    50
  51  MALPSTMIIVAVYCPVIAAVFIVLKMVNYRLHRALDAGEVVDRTANEFTD   100
 101  QRTKAEQGNCSTRRKDSNGPSDPGGGIEMSEFIREATPPVGCSSRNSYAG   150
 151  LDPSNQIGSGSSRLGTAATIKGDTDTAKTSDDISLSLGQSSSLCKEGSEE   200
 201  QDLAADRKLFRLVSNDSFISIQPSLSSCGQDLPRDFSDKVNLPSHNHHHH   250
 251  VDQSLSSACDTEVASLVPLHSHSYRKDHRPRGVPRTSSSAVAFPDTSLND   300
 301  FPLYQQRRGLDPVSELESSKPLSGSKESLVENSGLSGEFQLAGDLKINTS   350
 351  QPPTKSGKSKPLKAEKSMDSLRSLSTRSSGSTESYCSGTDRDTNSTVSSY   400
 401  KSEQTSSTHIESILSEHEESPKAGTKSGRKKECCAGPEEKNSCASDKRTS   450
 451  SEKIAMEASTNSGVHEAKDPTPSDEMHNQRGLSTSASEEANKNPHANEFT   500
 501  SQGDRPPGNTAENKEEKSDKSAVSVDSKVRKDVGGKQKEGDVRPKSSSVI   550
 551  HRTASAHKSGRRRTGKKRASSFDSSRHRDYVCFRGVSGTKPHSAIFCHDE   600
 601  DSSDQSDLSRASSVQSAHQFSSDSSSSTTSHSCQSPEGRYSALKTKHTHK   650
 651  ERGTDSEHTHKAHLVPEGTSKKRATRRTSSTNSAKTRARVLSLDSGTVAC   700
 701  LNDSNRLMAPESIKPLTTSKSDLEAKEGEVLDELSLLGRASQLETVTRSR   750
 751  NSLPNQVAFPEGEEQDAVSGAAQASEEAVSFRRERSTFRRQAVRRRHNAG   800
 801  SNPTPPTLLIGSPLSLQDGQQGQQSTAQVKVQSRPPSQAAVLSASASLLV   850
 851  RNGSVHLEASHDNASAVGGSSLHDELGKFSSTLYETGGCDMSLVNFEPAA   900
 901  RRASNICDTDSHVSSSTSVRFYPHDVLSLPQIRLNRLLTIDTDLLEQQDI   950
 951  DLSPDLAATYGPTEEAAQKVKHYYRFWILPQLWIGINFDRLTLLALFDRN  1000
1001  REILENVLAVILAILVAFLGSILLIQGFFRDIWVFQFCLVIASCQYSLLK  1050
1051  SVQPDSSSPRHGHNRIIAYSRPVYFCICCGLIWLLDYGSRNLTATKFKLY  1100
1101  GITFTNPLVFISARDLVIVFTLCFPIVFFIGLLPQVNTFVMYLCEQLDIH  1150
1151  IFGGNATTSLLAALYSFICSIVAVALLYGLCYGALKDSWDGQHIPVLFSI  1200
1201  FCGLLVAVSYHLSRQSSDPSVLFSLVQSKIFPKTEEKNPEDPLSEVKDPL  1250
1251  PEKLRNSVSERLQSDLVVCIVIGVLYFAIHVSTVFTVLQPALKYVLYTLV  1300
1301  GFVGFVTHYVLPQVRKQLPWHCFSHPLLKTLEYNQYEVRNAATMMWFEKL  1350
1351  HVWLLFVEKNIIYPLIVLNELSSSAETIASPKKLNTELGALMITVAGLKL  1400
1401  LRSSFSSPTYQYVTVIFTVLFFKFDYEAFSETMLLDLFFMSILFNKLWEL  1450
1451  LYKLQFVYTYIAPWQITWGSAFHAFAQPFAVPHSAMLFIQAAVSAFFSTP  1500
1501  LNPFLGSAIFITSYVRPVKFWERDYNTKRVDHSNTRLASQLDRNPGSDDN  1550
1551  NLNSIFYEHLTRSLQHSLCGDLLLGRWGNYSTGDCFILASDYLNALVHLI  1600
1601  EIGNGLVTFQLRGLEFRGTYCQQREVEAITEGVEEDEGFCCCEPGHIPHM  1650
1651  LSFNAAFSQRWLAWEVIVTKYILEGYSITDNSAASMLQVFDLRKVLTTYY  1700
1701  VKGIIYYVTTSSKLEEWLANETMQEGLRLCADRNYVDVDPTFNPNIDEDY  1750
1751  DHRLAGISRESFCVIYLNWIEYCSSRRAKPVDVDKDSSLVTLCYGLCVLG  1800
1801  RRALGTASHHMSSNLESFLYGLHALFKGDFRISSIRDEWIFADMELLRKV  1850
1851  VVPGIRMSIKLHQDHFTSPDEYDDPTVLYEAIVSHEKNLVIAHEGDPAWR  1900
1901  SAVLANSPSLLALRHVMDDGTNEYKIIMLNRRYLSFRVIKVNKECVRGLW  1950
1951  AGQQQELVFLRNRNPERGSIQNAKQALRNMINSSCDQPIGYPIFVSPLTT  2000
2001  SYSDSHEQLKDILGGPISLGNIRNFIVSTWHRLRKGCGAGCNSGGNIEDS  2050
2051  DTGGGTSCTGNNATTANNPHSNVTQGSIGNPGQGSGTGLHPPVTSYPPTL  2100
2101  GTSHSSHSVQSGLVRQSPARASVASQSSYCYSSRHSSLRMSTTGFVPCRR  2150
2151  SSTSQISLRNLPSSIQSRLSMVNQMEPSGQSGLACVQHGLPSSSSSSQSI  2200
2201  PACKHHTLVGFLATEGGQSSATDAQPGNTLSPANNSHSRKAEVIYRVQIV  2250
2251  DPSQILEGINLSKRKELQWPDEGIRLKAGRNSWKDWSPQEGMEGHVIHRW  2300
2301  VPCSRDPGTRSHIDKAVLLVQIDDKYVTVIETGVLELGAEV           2341

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.