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

NucPred

Fetching O95342 from www.uniprot.org...

The NucPred score for your sequence is 0.22 (see score help below)

   1  MSDSVILRSIKKFGEENDGFESDKSYNNDKKSRLQDEKKGDGVRVGFFQL    50
  51  FRFSSSTDIWLMFVGSLCAFLHGIAQPGVLLIFGTMTDVFIDYDVELQEL   100
 101  QIPGKACVNNTIVWTNSSLNQNMTNGTRCGLLNIESEMIKFASYYAGIAV   150
 151  AVLITGYIQICFWVIAAARQIQKMRKFYFRRIMRMEIGWFDCNSVGELNT   200
 201  RFSDDINKINDAIADQMALFIQRMTSTICGFLLGFFRGWKLTLVIISVSP   250
 251  LIGIGAATIGLSVSKFTDYELKAYAKAGVVADEVISSMRTVAAFGGEKRE   300
 301  VERYEKNLVFAQRWGIRKGIVMGFFTGFVWCLIFLCYALAFWYGSTLVLD   350
 351  EGEYTPGTLVQIFLSVIVGALNLGNASPCLEAFATGRAAATSIFETIDRK   400
 401  PIIDCMSEDGYKLDRIKGEIEFHNVTFHYPSRPEVKILNDLNMVIKPGEM   450
 451  TALVGPSGAGKSTALQLIQRFYDPCEGMVTVDGHDIRSLNIQWLRDQIGI   500
 501  VEQEPVLFSTTIAENIRYGREDATMEDIVQAAKEANAYNFIMDLPQQFDT   550
 551  LVGEGGGQMSGGQKQRVAIARALIRNPKILLLDMATSALDNESEAMVQEV   600
 601  LSKIQHGHTIISVAHRLSTVRAADTIIGFEHGTAVERGTHEELLERKGVY   650
 651  FTLVTLQSQGNQALNEEDIKDATEDDMLARTFSRGSYQDSLRASIRQRSK   700
 701  SQLSYLVHEPPLAVVDHKSTYEEDRKDKDIPVQEEVEPAPVRRILKFSAP   750
 751  EWPYMLVGSVGAAVNGTVTPLYAFLFSQILGTFSIPDKEEQRSQINGVCL   800
 801  LFVAMGCVSLFTQFLQGYAFAKSGELLTKRLRKFGFRAMLGQDIAWFDDL   850
 851  RNSPGALTTRLATDASQVQGAAGSQIGMIVNSFTNVTVAMIIAFSFSWKL   900
 901  SLVILCFFPFLALSGATQTRMLTGFASRDKQALEMVGQITNEALSNIRTV   950
 951  AGIGKERRFIEALETELEKPFKTAIQKANIYGFCFAFAQCIMFIANSASY  1000
1001  RYGGYLISNEGLHFSYVFRVISAVVLSATALGRAFSYTPSYAKAKISAAR  1050
1051  FFQLLDRQPPISVYNTAGEKWDNFQGKIDFVDCKFTYPSRPDSQVLNGLS  1100
1101  VSISPGQTLAFVGSSGCGKSTSIQLLERFYDPDQGKVMIDGHDSKKVNVQ  1150
1151  FLRSNIGIVSQEPVLFACSIMDNIKYGDNTKEIPMERVIAAAKQAQLHDF  1200
1201  VMSLPEKYETNVGSQGSQLSRGEKQRIAIARAIVRDPKILLLDEATSALD  1250
1251  TESEKTVQVALDKAREGRTCIVIAHRLSTIQNADIIAVMAQGVVIEKGTH  1300
1301  EELMAQKGAYYKLVTTGSPIS                               1321

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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