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

NucPred

Fetching Q6P4L9 from www.uniprot.org...

The NucPred score for your sequence is 0.91 (see score help below)

   1  MESLDSMLTDPLELGPCVESNGTGIMEECMLGGTRVSLPEDLLEDPDLFF    50
  51  EVVSRDTWKNVLSDSQREHLKQFLPVFPDDNANQQEKIIQSLFRGDNFRF   100
 101  GNPLHIAQKLFRDGHFNPEVVKYRQLCLKSQYKRYLTSQQQYFHKLLKQI   150
 151  LASRKELLDLARKNGPDQVLKKKPSSLRNTPEERETRAQCRYLKILREVK   200
 201  DECGDGTLSSEEEDLSSWLPESPTHCPSVAVPLRVIPTLSTQDMKTADKQ   250
 251  EFTNHDLKLLLRRHREKRKRQSDHPDLITDNLSMNDIMTRVNAGRKGSLA   300
 301  ALFDLATMKKRVKEKDDKKKKKLKTIKTEVEDYPDMPDEADIMPAVLPPE   350
 351  TPQVTLTAVKEEPLEDVKPPLPFNEISACFFCLLLDILTMEGPCSLPLLE   400
 401  DKVSDWQSLPASTLNSWFSVAPNWCDLVHPALIYLSGECKVASSSFTPFV   450
 451  EFREKTQQWKCVVSSSDSEKELVAHFHLWLETKDQIYSKENEDCIDASTP   500
 501  IPRVRTDYIVRPSSGEEKHVFQEQERHRYIQPHKAFTFRMHGFESVVGPV   550
 551  KGVFDKETSLNKAREHSLLRSDRPAYVTILSLVRDAAARLPNGEGTRAEI   600
 601  CELLKDSQFLAPDVTSAQVNTVVSGALDRLHYEKDPCVKYDIGRKLWIYL   650
 651  HRDRSEEEFERIHQAQAAAAKAKKALQQKPKPPTKMKSGSKECSLKLCGT   700
 701  PEPAQLSLTESSMPPTPGTPGTPTPPALPSTPMSPSTSATVNKIVASTIT   750
 751  ETQKSSQSVLLVSSPAMPQLSTLLSPAVTSQSTSVTPTSGRAATISSSTG   800
 801  VPQVRIVTATTGVPTTQSAAVVTQPLSPVISHIRLPVTTTPTKALAQTQV   850
 851  VTVPVKNQTTIGASRLGASVTTQGSVTVNTLNSSAGLASKSVVSSPGASG   900
 901  PAILQSITGQSIIKQVALSGQLGVKSQPSSSLPLSSTNFRIQGKDVLRLP   950
 951  PSSITTDAKGQTILRITPDMMATLAKSQVTAVKLSQELFSAAPVSTTGKG  1000
1001  LLHVTSSPSSPSPPAPSTIKLTPEMKPAETSSSSFRLMPALGISVAEQKG  1050
1051  KVVTAGESKPATTIRIVQGLGVMPPKVSATQSITVSAKPVTVPSSTIVNP  1100
1101  VHSASNVSLPTVNSTAVKTAPTGIVVGTGAATVRQIPVTTTQQGKLPARI  1150
1151  TVPLSVLSQPMKGKGVVTAPIIKGNLGANISGLGRNIILTTVPAGTKLIA  1200
1201  GNKPVSFLTAQQLQQLQQQGQATQVRIQTVPASHLPQGTSPASSKAVSTV  1250
1251  VVTTTPTTKPTQEPQ                                     1265

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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