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

NucPred

Fetching Q27675 from www.uniprot.org...

The NucPred score for your sequence is 0.16 (see score help below)

   1  MAMQIRPSLGGCLRHGGAGDHAARRLSRLRAAKVFVPTAVVCVLLCCAPW    50
  51  VMAEITNDAEREPVYILNAMYSTEAYTNEDAKALWTGMDMAFYNSHYKAA   100
 101  GGRPIKILHPDPDQDNLYDIAEVILHSLARQEKLLAVLGPYLDGRLTAAL   150
 151  SNADVVQSGLMLIAPFTGSSGVRTWSDSVYFTRAEPMVELKVVLMHIVNR   200
 201  LRARRVAFMRLTGMHFGGEELTYVQDTLTSLLRDPAVLYTVPYSESSVEV   250
 251  DEEAFDAMADTNPQVIIVWAAPVQQVIYFLEKVLTDPRTSSAYVISCSMI   300
 301  QRVVFDVYKRLLSAGSIKPQDGRILASATTSPVSGEGLKYMEVLKAQMSN   350
 351  YIENSGSFDYYPDDDSTETLGRKARSEAPLSRKYTVDEFFQAHPSIAKLM   400
 401  ALGWLSGTLVQQTLEQTDWIVNRSTYKAGLFNQNRFVIGGDYVLGDYGGP   450
 451  CEPLAQFLGASCYCNQGGHSSILTVLQNASWDIVPDSSFKYPQSECNSSK   500
 501  SQIVKAVSVLALLNQGYPKLIDAGMQLNEVLPHAFDDNLCKGYKVSSIFL   550
 551  RVETAKAQQLFDAEVSNYSVDIIAGPIFQALDVGEIFVLNPLYNHPQLRT   600
 601  EKRNYVYLMPTLEQQIYVMYSKIDALRTRTDVFEDTAVVLRGYSAQEVVE   650
 651  ISEILFKTAGTFNLPDPSVATISFTDSLRGLLSPRAINVVIGMKDGDSAH   700
 701  FANFLAKYTDVMVVVCFDELTMYYEELRATFSVQPTSVQARLMSFSSLPL   750
 751  WTDASAEAKARWPILGHFHKIFPDPINHTPSLLRDVIIAGFIQELVSTTT   800
 801  VAETKLLTNAVYINGGVTTYGFTLGNFEWGCTATTSGDSCVYKNYGASNI   850
 851  EILSIQRMLDPTVPQLSSPSTPTMEYRPRQRSHALTPAQRNGLIAGCVVG   900
 901  AVVLIATCTLLLYCCMDNRNNDAAPKDGDEPVTLLFTDIESSTALWAALP   950
 951  QLMSDAIAAHHRVIRQLVKKYGCYEVKTIGDSFMIACRSAHSAVSLACEI  1000
1001  QTKLLKHDWGTEALDRAYREFELARVDTLDDYEPPTARLSEEEYAALWCG  1050
1051  LRVRVGIHTGLTDIRYDEVTKGYDYYGDTSNMAARTEAVANGGQVVATEA  1100
1101  AWWALSNDERAGIAHTAMGPQGLRGVPFAVEMFQLNAVPGRRHAALRTEI  1150
1151  EAILPDDTATDTASSAAGALLSSVETMSDPAAGIAFVLASCFAPYPVAQR  1200
1201  VRELQPLLSKWGVGAPPRSRLVSEEDYCQGLMNRLAIRIATVSQARLRLT  1250
1251  REDAADGKFKLASSEALNPLAREGDSAAGGVRPRLPGSPVTSLPAGGSSS  1300
1301  MREWRVFTRLMNDTQHPSVTHLSQQRPSNLTSFTEAQDAAFPLNAHCGPE  1350
1351  SRVENSGADDEEIVIVRVSRNPHYARHAFE                      1380

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.