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

NucPred

Fetching O14490 from www.uniprot.org...

The NucPred score for your sequence is 0.92 (see score help below)

   1  MKGLSGSRSHHHGVTCDSACDSLSHHSDRKPYLLSPVEHHPADHPYYTQR    50
  51  NSFQAECVGPFSDPLASSTFPRRHYTSQQELKDECALVPRTLATKANRIP   100
 101  ANLLDQFERQLPLSRDGYHTLQYKRTAVEHRSDSPGRIRHLVHSVQKLFT   150
 151  KSHSLEGPSKGSVNGGKASPDEAQAARYGKRSKSKERRAEPKARPSTSPG   200
 201  WWSSDDNLDGDMCIYHAPSGVMTMGRCPDRSASQYFLEAYNTISEQAVKA   250
 251  SRSNNDVKCSTCANLPVSLDTPLLKKSAWSSTLTVSRAREVYQKASVNMD   300
 301  QAMVKSESCQQERSCQYLQVPQDEWTGYTPRGKDDEIPCRRMRSGSYIKA   350
 351  MGDEDSGDSDTSPKPSPKVAARRESYLKATQPSLTELTTLKISNEHSPKL   400
 401  QIRSHSYLRAVSEVSINRSLDSLDPAGLLTSPKFRSRNESYMRAMSTISQ   450
 451  VSEMEVNGQFESVCESVFSELESQAVEALDLPMPGCFRMRSHSYVRAIEK   500
 501  GCSQDDECVSLRSSSPPRTTTTVRTIQSSTVSSCITTYKKTPPPVPPRTT   550
 551  TKPFISITAQSSTESAQDAYMDGQGQRGDIISQSGLSNSTESLDSMKALT   600
 601  AAIEAANAQIHGPASQHMGNNTATVTTTTTIATVTTEDRKKDHFKKNRCL   650
 651  SIGIQVDDAEEPDKTGENKAPSKFQSVGVQVEEEKCFRRFTRSNSVTTAV   700
 701  QADLDFHDNLENSLESIEDNSCPGPMARQFSRDASTSTVSIQGSGNHYHA   750
 751  CAADDDFDTDFDPSILPPPDPWIDSITEDPLEAVQRSVCHRDGHWFLKLL   800
 801  QAERDRMEGWCQQMEREERENNLPEDILGKIRTAVGSAQLLMAQKFYQFR   850
 851  ELCEENLNPNAHPRPTSQDLAGFWDMLQLSIENISMKFDELHQLKANNWK   900
 901  QMDPLDKKERRAPPPVPKKPAKGPAPLIRERSLESSQRQEARKRLMAAKR   950
 951  AASVRQNSATESAESIEIYIPEAQTRL                          977

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.