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

NucPred

Fetching Q8BZH4 from www.uniprot.org...

The NucPred score for your sequence is 0.62 (see score help below)

   1  MADTDLFMECEEEELEPWQKISDVIEDSVVEDYNSVDKTTSVSVSQQPVS    50
  51  APVPIAAHASVAGHLSTSTTVSNSGAQNSDSTKKTLVTLIANNNAGNTLV   100
 101  QQGGQPLILTQNPAPGLGTMVTQPVLRPVQVMQNANHVTSSPVASQPIFI   150
 151  TTQGFPVRNVRPVQNAMNQVGIVLNVQQGQTVRPITLVPAPGTQFVKPTV   200
 201  GVPQVFSQMTPVRPGSTMPVRPTTNTFTTVIPATLTIRSTVPQSQSQQTK   250
 251  STPSTSTTPTATQPTSLGQLAGQPPGQSNQTSNPKLAPSFPSPPAVSIAS   300
 301  FVTVKRPGVTGENSNEVAKLVNTLNTVPSLGQSPGPVVVSNNSSAQRTSG   350
 351  PESSVKVTSSIPVFDLQDGGRKICPRCNAQFRVTEALRGHMCYCCPEMVE   400
 401  YQKKGKSLDAEPSVPSAAKPSSPEKTAPVTSTPSSTPIPALSPPTKVPEP   450
 451  NENAGDAVQTKLIMLVDDFYYGRDGGKAAQLTSFPKVATSFRCPHCTKRL   500
 501  KNNIRFMNHMKHHVELDQQNGEVDGHTICQHCYRQFSTPFQLQCHLENVH   550
 551  SPYESTTKCKICEWAFESEPLFLQHMKDTHKPGEMPYVCQVCQYRSSLYS   600
 601  EVDVHFRMIHEDTRHLLCPYCLKVFKNGNAFQQHYMRHQKRNVYHCNKCR   650
 651  LQFLFAKDKIEHKLQHHKTFRKPKQLEGLKPGTKVTIRASRGQPRTVPVS   700
 701  SNDAPSGTLQEAAALTSTDPLPVFLYPPVQRNIQKRAVRKMSVMGRQTCL   750
 751  ECSFEIPDFPNHFPTYVHCSLCRYSTCCSRAYANHMINNHVPRKSPKYLA   800
 801  LFKNSVSGIKLACTSCTFATSVGDAMAKHLVFNPSHRSSNILPRGLSWMS   850
 851  HLRPGQASERVFDWSMKNTYLPPPLVPNKAATVKPVGVTPAEPQELAGPV   900
 901  LQALPSPASTATPPATPTHPQPSALPPSATEGTECLNVSEQEEGSPVTQD   950
 951  PEPASGGGGGSGVGKKEQLSVKKLRVVLFALCCNTEQAAEHFRNPQRRIR  1000
1001  RWLRRFQASQGENLEGKYLSFEAEEKLAEWVLIQREQQLPVNEETLFQKA  1050
1051  TKIGRSLEGGFKISYEWAVRFMLRHHLTPHARRAVAHTLPKHVAENAGLF  1100
1101  IEFVQRQIHNQDLPLSMIVAIDEISLFLDTEVLSSDDRKENALQTVGTGE  1150
1151  PWCDVVLAILADGTVLPTLVFFRGQANRFANVPDSILLEAKDSGYSDDEI  1200
1201  MELWSTRVWKKHTACQHSKSMLVMDCHRTHLSEEVLALLSASSTLPAVVP  1250
1251  AGCSSKIQPLDVCIKRTVKNFLHKKWKEQAREMADAACDSDVLLQLVLVW  1300
1301  LGEVLGVIGDSPELVQRSFLVASVLPGPDGNVNSPTRNADMQEELIASLE  1350
1351  EQLKLNGEQSEEHSASAPRPRSSPEETVEPESLHQLFEGESETESFYGFE  1400
1401  EADLDLMEI                                           1409

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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