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

NucPred

Fetching Q61830 from www.uniprot.org...

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

   1  MRLLLLLAFISVIPVSVQLLDARQFLIYNEDHKRCVDALSAISVQTATCN    50
  51  PEAESQKFRWVSDSQIMSVAFKLCLGVPSKTDWASVTLYACDSKSEYQKW   100
 101  ECKNDTLFGIKGTELYFNYGNRQEKNIKLYKGSGLWSRWKVYGTTDDLCS   150
 151  RGYEAMYSLLGNANGAVCAFPFKFENKWYADCTSAGRSDGWLWCGTTTDY   200
 201  DKDKLFGFCPLHFEGSERLWNKDPLTGILYQINSKSALTWHQARASCKQQ   250
 251  NADLLSVTEIHEQMYLTGLTSSLSSGLWIGLNSLSVRSGWQWAGGSPFRY   300
 301  LNWLPGSPSSEPGKSCVSLNPGKNAKWENLECVQKLGYICKKGNNTLNPF   350
 351  IIPSASDVPTGCPNQWWPYAGHCYRIHREEKKIQKYALQACRKEGGDLAS   400
 401  IHSIEEFDFIFSQLGYEPNDELWIGLNDIKIQMYFEWSDGTPVTFTKWLP   450
 451  GEPSHENNRQEDCVVMKGKDGYWADRACEQPLGYICKMVSQSHAVVPEGA   500
 501  DKGCRKGWKRHGFYCYLIGSTLSTFTDANHTCTNEKAYLTTVEDRYEQAF   550
 551  LTSLVGLRPEKYFWTGLSDVQNKGTFRWTVDEQVQFTHWNADMPGRKAGC   600
 601  VAMKTGVAGGLWDVLSCEEKAKFVCKHWAEGVTRPPEPTTTPEPKCPENW   650
 651  GTTSKTSMCFKLYAKGKHEKKTWFESRDFCKAIGGELASIKSKDEQQVIW   700
 701  RLITSSGSYHELFWLGLTYGSPSEGFTWSDGSPVSYENWAYGEPNNYQNV   750
 751  EYCGELKGDPGMSWNDINCEHLNNWICQIQKGKTLLPEPTPAPQDNPPVT   800
 801  ADGWVIYKDYQYYFSKEKETMDNARAFCKKNFGDLATIKSESEKKFLWKY   850
 851  INKNGGQSPYFIGMLISMDKKFIWMDGSKVDFVAWATGEPNFANDDENCV   900
 901  TMYTNSGFWNDINCGYPNNFICQRHNSSINATAMPTTPTTPGGCKEGWHL   950
 951  YKNKCFKIFGFANEEKKSWQDARQACKGLKGNLVSIENAQEQAFVTYHMR  1000
1001  DSTFNAWTGLNDINAEHMFLWTAGQGVHYTNWGKGYPGGRRSSLSYEDAD  1050
1051  CVVVIGGNSREAGTWMDDTCDSKQGYICQTQTDPSLPVSPTTTPKDGFVT  1100
1101  YGKSSYSLMKLKLPWHEAETYCKDHTSLLASILDPYSNAFAWMKMHPFNV  1150
1151  PIWIALNSNLTNNEYTWTDRWRVRYTNWGADEPKLKSACVYMDVDGYWRT  1200
1201  SYCNESFYFLCKKSDEIPATEPPQLPGKCPESEQTAWIPFYGHCYYFESS  1250
1251  FTRSWGQASLECLRMGASLVSIETAAESSFLSYRVEPLKSKTNFWIGMFR  1300
1301  NVEGKWLWLNDNPVSFVNWKTGDPSGERNDCVVLASSSGLWNNIHCSSYK  1350
1351  GFICKMPKIIDPVTTHSSITTKADQRKMDPQPKGSSKAAGVVTVVLLIVI  1400
1401  GAGVAAYFFYKKRHALHIPQEATFENTLYFNSNLSPGTSDTKDLMGNIEQ  1450
1451  NEHAII                                              1456

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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