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

NucPred

Fetching Q7RYR4 from www.uniprot.org...

The NucPred score for your sequence is 0.36 (see score help below)

   1  MATTSNMFLYSLTIQPPTAVTQALLGQFSGTKEQQILTASGSRLTLLQPD    50
  51  PRQGKVNTLLSHDIFGIVRAIASFRLAGSHKDYIILATDSGRITIIEYLP   100
 101  KTNKFQRIHLETFGKSGVRRVIPGQYLAADPKGRACLISALEKNKLVYVL   150
 151  NRNSQAELTISSPLEAHKPGVLVLSLVALDVGYANPVFAALELDYTDADQ   200
 201  DPTGQAREEVETQLVYYELDLGLNHVVRKWSDTVDRTSSLLFQVPGGNDG   250
 251  PSGVLVCGEENVTYRHSNQEAFRVPIPRRSGATEDPQRKRVIVSGVMHKL   300
 301  KGSAGAFFFLLQTDDGDLFKVTIDMIEDSDGNPTGEVKRLKIKYFDTIPV   350
 351  ATSLCILKSGFLFAASEFGNHHFYQFEKLGDDDEELEFSSDDFPTDPTAS   400
 401  YNPVYFHPRPLENLVLVESIDSMNPQVDCKVANLTGEDAPQIYSVCGNGA   450
 451  RSTFRMLKHGLEVSEIVASELPGTPSAVWTTKLTKYDQYDAYIVLSFTNG   500
 501  TLVLSIGETVEEVSDSGFLTTAPTLAVQQMGEDGLIQVHPKGIRHIVQGR   550
 551  VNEWPAPQHRSIVAATANENQVVIALSSGEIVYFEMDSDGSLAEYDEKKE   600
 601  MSGTVTSLSVGQVPEGLKRSSFLAVGCDDCTVRILSLDPDSTLEMKSIQA   650
 651  LTAAPSALSIMSMEDSFGGSTLYLHIGLHSGVYLRTVLDEVTGELTDTRQ   700
 701  KFLGPKPTRLFQVSVQDQPCVLALSSRPWLGYTDPLTKGFMMTPLSYTEL   750
 751  EYGWNFSSEQCLEGMVGIHANYLRIFSIEKLGDNMIQKSIPLTYTPKHLV   800
 801  KHPEQPYFYTIESDNNTLPPELRAKLLEQQSNGDATVLPPEDFGYPRAKG   850
 851  RWASCISIIDPISEEPRVLQRIDLDNNEAAVSAAIVPFASQEGESFLVVG   900
 901  TGKDMVLDPRQFTEGYIHVYRFHEDGRDLEFIHKTRVEEPPLALIPFQGR   950
 951  LLAGVGKTLRIYDLGLKQLLRKAQADVTPTLIVSLQSQGNRIIVGDLQQG  1000
1001  ITYVVYKAEGNRLIPFADDTLNRWTTCTTMVDYESVAGGDKFGNIYIVRC  1050
1051  PERVSQETDEPGSEIHLMHARNYLHGTPNRLSLQVHFYTQDLPTSICKTS  1100
1101  LVVGGQDVLLWSGLQGTVGVFIPFVSREDVDFFQNLENHMRAEDPPLAGR  1150
1151  DHLIYRGYYTPVKGVIDGDLCERFSLLPNDKKQMIAGELDRSVREIERKI  1200
1201  SDIRTRSAF                                           1209

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.