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

NucPred

Fetching Q91Z80 from www.uniprot.org...

The NucPred score for your sequence is 0.88 (see score help below)

   1  DVSSEVEVLKALKSLFEHHKALDEKVRERLRAALERVTTLEEQLAGAHQQ    50
  51  VSALQQGAGIRDGVAEEEETVDLGPKRLWKDDTGRVEELQGLLEKQNYEL   100
 101  SQARERLVTLSATVTELEEDLGTARRDLIKSEELSGKHQRDLREALAQKE   150
 151  DMEERITTLEKRYLAAQREATSIHDLNDKLENELANKESLHRQCEEKARH   200
 201  LQELLEVAEQKLQQTMRKAETLPEVEAELSQRIAALTKAEERHGNIEEHL   250
 251  RQLEGQLEEKNQELARVRQREKMNEDHNKRLSDTVDRLLSESNERLQLHL   300
 301  KERMAALEEKGRLSEEIEKLRQEVDQLKGRGGPFVDGIHSRSHVGSTTDV   350
 351  RFSLSTAAHVPPGLHRRYTALREESAKDWKPAPLPGVLAATTTPALTVTL   400
 401  RSPMWTRMSLGAWWALRLMSSHLVAILDAQTLAMMLQEQLDAINQEIRMI   450
 451  QEEKESTELRAEEIETRVTSGSMEALNLTQLRKRGSIPTSLTALSLASAS   500
 501  PPLSGRSTPKLTSRSAAQDLDRMGVMTLPSDLRKHRRKLLSPVSREENRE   550
 551  DKATIKCETSPPSSPRTLRLEKLGHPTLSQEEGKSALEGQDSNPSSSNSS   600
 601  QDSLHKGAKRKGIKSSIGRLFGKKEKGRLIHLSRDATGHVLLTDSELSLQ   650
 651  EPMVPAKLGTQAEKDRRLKKKHQLLEDARRKGMPFAQWDGPTVVSWLELW   700
 701  VGMPAWYVAACRANVKSGAIMSALSDTEIQREIGISNALHRLKLRLAIQE   750
 751  MVSLTSPSAPPTSRTSSGNVWVTHEEMETLATSTKTDSEEGSWAQTLAYG   800
 801  DMNHEWIGNEWLPSLGLPQYRSYFMECLVDARMLDHLTKKDLRVHLKMVD   850
 851  SFHRTSLQYGIMCLKRLNYDRKELEKRREESQHEIKDVLVWTNDQVVHWV   900
 901  QSIGLRDYAGNLHESGVHGALLALDENFDHNTLALVLQIPTQNTQARQVM   950
 951  EREFNNLLALGTDRKLDDGEEKVFRRAPSWRKRFRPRDHHSGGMLGTSAE  1000
1001  TLPAGFRVSTLGPLQPPPAPPNKIMPEAHSHYLYGHMLSAFRD         1043

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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