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

NucPred

Fetching P14585 from www.uniprot.org...

The NucPred score for your sequence is 0.85 (see score help below)

   1  MRIPTICFLFLLISLSKSLHIGSCLGLICGRNGHCHAGPVNGTQTSYWCR    50
  51  CDEGFGGEYCEQQCDVSKCGADEKCVFDKDYRMETCVCKDCDINGNSLLK   100
 101  PSCPSGYGGDDCKTQGWCYPSVCMNGGQCIGAGNRAKCACPDGFKGERCE   150
 151  LDVNECEENKNACGNRSTCMNTLGTYICVCPQGFLPPDCLKPGNTSTVEF   200
 201  KQPVCFLEISADHPDGRSMYCQNGGFCDKASSKCQCPPGYHGSTCELLEK   250
 251  EDSCASNPCSHGVCISFSGGFQCICDDGYSGSYCQEGKDNCVNNKCEAGS   300
 301  KCINGVNSYFCDCPPERTGPYCEKMDCSAIPDICNHGTCIDSPLSEKAFE   350
 351  CQCEPGYEGILCEQDKNECLSENMCLNNGTCVNLPGSFRCDCARGFGGKW   400
 401  CDEPLNMCQDFHCENDGTCMHTSDHSPVCQCKNGFIGKRCEKECPIGFGG   450
 451  VRCDLRLEIGICSRQGGKCFNGGKCLSGFCVCPPDFTGNQCEVNRKNGKS   500
 501  SLSENLCLSDPCMNNATCIDVDAHIGYACICKQGFEGDICERHKDLCLEN   550
 551  PCSNGGVCHQHRESFSCDCPPGFYGNGCEQEKMFRCLKSTCQNGGVCINE   600
 601  EEKGRKCECSYGFSGARCEEKINLTGFTEKDSLLRSVCEKRKCSERANDG   650
 651  NCDADCNYAACKFDGGDCSGKREPFSKCRYGNMCADFFANGVCNQACNNE   700
 701  ECLYDGMDCLPAVVRCPVKIREHCASRFANGICDPECNTNGCGFDGGDCD   750
 751  NETNATIITNIRITVQMDPKEFQVTGGQSLMEISSALRVTVRIQRDEEGP   800
 801  LVFQWNGESEMDRVKMNERQLTEQHVLSTSISRKIKRSATNIGVVVYLEV   850
 851  QENCDTGKCLYKDAQSVVDSISARLAKKGIDSFGIPISEALVAEPRKSGN   900
 901  NTGFLSWNALLLIGAGCLIVMVVLMLGALPGNRTRKRRMINASVWMPPME   950
 951  NEEKNRKNHQSITSSQHSLLEASYDGYIKRQRNELQHYSLYPNPQGYGNG  1000
1001  NDFLGDFNHTNLQIPTEPEPESPIKLHTEAAGSYAITEPITRESVNIIDP  1050
1051  RHNRTVLHWIASNSSAEKSEDLIVHEAKECIAAGADVNAMDCDENTPLML  1100
1101  AVLARRRRLVAYLMKAGADPTIYNKSERSALHQAAANRDFGMMVYMLNST  1150
1151  KLKGDIEELDRNGMTALMIVAHNEGRDQVASAKLLVEKGAKVDYDGAARK  1200
1201  DSEKYKGRTALHYAAQVSNMPIVKYLVGEKGSNKDKQDEDGKTPIMLAAQ  1250
1251  EGRIEVVMYLIQQGASVEAVDATDHTARQLAQANNHHNIVDIFDRCRPER  1300
1301  EYSMDLHIQHTHQPQPSRKVTRAPKKQTSRSKKESASNSRDSTHLTPPPS  1350
1351  DGSTSTPSPQHFMNTTHTTPTSLNYLSPEYQTEAGSSEAFQPQCGAFGNG  1400
1401  EMWYTRASTSYTQMQNEPMTRYSEPAHYF                       1429

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.