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

NucPred

Fetching Q7G9P4 from www.uniprot.org...

The NucPred score for your sequence is 0.24 (see score help below)

   1  MDLEFAVNGERFKIDSVDPSTTLLEFLRLNTPFKSVKLGCGEGGCGACLV    50
  51  VLSKYDPELDQVKECCINSCLTLLCSVNGCSITTSEGLGNTKKGFHPIHK   100
 101  RFAGFHASQCGFCTPGMCISLYSSLANAENNSSKDFTVSEAEKSVSGNLC   150
 151  RCTGYRPIVDACKSFASDVDIEDLGLNSFWKKGESKEVMFKNLPPYNPKD   200
 201  HLVTFPEFLKKKEKVDNGSDHLKYRWTTPFSVAELHNIMEAANSGDSLKL   250
 251  VVGNTGTGYYKDEERFDRYIDISNIPEMSMIKKDEKGIEIGAAVTISNAI   300
 301  DALEKESKSSYVFKKMATHMEKIGNRSIRNSGSIGGNLVMAQSRKFPSDV   350
 351  TTLLLAVDASVYMLNGRKTEKVTLQEFLELSPVLDSKRVLLKVEIPSWTA   400
 401  PSGDDTEFLFESYRAAPRSIGNALPYLNAAFLALVSRQEASRKGVTVEKC   450
 451  FLAFGSYGGDHSIRAIEVETFLTGKLLSYSVLYEAVGLLKGIIVPGKDTL   500
 501  HSEYRKSLAVGYLFEFFYPLIESGHRICSLDSGNKHNNSHVDTVKSLPFL   550
 551  SSSQQVLESNEFKPIGEAVIKVGAALQASGEAVFVDDIPTLPDCLHGAFI   600
 601  YSTEPLAKIKSLSFRENVTPTGVFAVLTFKDIPQQGQNIGSKTLFGPGPL   650
 651  FADELTRCAGQRIALVVADTQKHADMAAKLAVVEYDTKNLEQPILTVEDA   700
 701  VKRSSFFEVHPMFYPEPVGDVIKGMEEAERKIISSELRLGSQYFFYMEPQ   750
 751  TALALPDEDNCVKVFSSSQAPEYVHSVIATCLGIQEHNVRVITRRVGGGF   800
 801  GGKAVKSMPVATACALGAYKLQRPVKMFLNRKTDMIMAGGRHPMKINYNV   850
 851  GFRSDGKLTALELTMLIDAGLEPDVSPIMPRNIMGPLRKYDWGALSFDVK   900
 901  VCKTNCLSRTAMRAPGEVQGSYIAESIIENVASSLQMDVDAVRKINLHTY   950
 951  DSLRKFYNHIAGDPDEYTLPLLWEKLEISSKFKERSEMVKEFNLCNVWRK  1000
1001  RGISRVPIVHQVMQRPTPGKVSILSDGSVVVEVGGIEIGQGLWTKVQQMV  1050
1051  AYGLGMVKCEGNEKLLDRIRVVQSDTLGMIQGGFTAGSTTSESSCEAVRL  1100
1101  CCVILVERLKPIMDQMMMEKSGSVTWNILIQQAYGQYINLSASTLYKPEY  1150
1151  SSMEYLNYGVGVSEVEVDLVTGKTEILRSDIIYDCGKSLNPAVDLGQTEG  1200
1201  AFVQGIGFFMMEEYTTDEKGLVVQQGTWDYKIPTVDTIPKHFNVEIVNTG  1250
1251  HHKNRVLSSKASGEPPLLLAASVHCATRSAIREARKHSLSSNFIDGSDSE  1300
1301  FELPVPATMPVVKSLCGLYSVEKYLQGKIKGQ                    1332

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.