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

NucPred

Fetching Q7XWP1 from www.uniprot.org...

The NucPred score for your sequence is 0.29 (see score help below)

   1  MSYAAYKMMHWPTGVDHCAAGFVTHSPSDAAAFFTAATVGPGPEGDIDSA    50
  51  AAASRPRRLGPSPNLVVAAANVLEVYAVRAETAAEDGGGGTQPSSSSGAV   100
 101  LDGISGARLELVCYYRLHGNIESMTVLSDGAENRRATIALAFKDAKITCL   150
 151  EFDDAIHGLRTSSMHCFEGPEWQHLKRGRESFAWGPVIKADPLGRCGAAL   200
 201  AYGLQMIILKAAQVGHSLVGEDEPTCALSSTAVCIESSYLIDLRALDMNH   250
 251  VKDFAFVHGYIEPVLVILHEQEPTWAGRILSKHHTCMISAFSISMTLKQH   300
 301  PVIWSAANLPHDAYQLLAVPPPISGVLVICANSIHYHSQSTSCSLDLNNF   350
 351  SSHPDGSPEISKSNFQVELDAAKATWLSNDIVMFSTKAGEMLLLTVVYDG   400
 401  RVVQRLDLMKSKASVLSSAVTSIGNSFFFLGSRLGDSLLVQFSYCASKSV   450
 451  LQDLTNERSADIEGDLPFSKRLKRIPSDVLQDVTSVEELSFQNIIAPNSL   500
 501  ESAQKISYIVRDALINVGPLKDFSYGLRANADPNAMGNAKQSNYELVCCS   550
 551  GHGKNGSLSVLQQSIRPDLITEVELPSCRGIWTVYYKSYRGQMAEDNEYH   600
 601  AYLIISLENRTMVLETGDDLGEVTETVDYFVQASTIAAGNLFGRRRVIQV   650
 651  YGKGARVLDGSFMTQELNFTTHASESSSSEALGVACASIADPYVLLKMVD   700
 701  GSVQLLIGDYCTCTLSVNAPSIFISSSERIAACTLYRDRGPEPWLTKTRS   750
 751  DAWLSTGIAEAIDGNGTSSHDQSDIYCIICYESGKLEIFEVPSFRCVFSV   800
 801  ENFISGEALLVDKFSQLIYEDSTKERYDCTKASLKKEAGDSIRIVELAMH   850
 851  RWSGQFSRPFLFGLLNDGTLLCYHAFSYEASESNVKRVPLSPQGSADHHN   900
 901  ASDSRLRNLRFHRVSIDITSREDIPTLGRPRITTFNNVGGYEGLFLSGTR   950
 951  PAWVMVCRQRLRVHPQLCDGPIEAFTVLHNVNCSHGFIYVTSQGFLKICQ  1000
1001  LPSAYNYDSYWPVQKVPLHGTPHQVTYYAEQSLYPLIVSVPVVRPLNQVL  1050
1051  SSMADQESVHHMDNDVTSTDALHKTYTVDEFEVRILELEKPGGHWETKST  1100
1101  IPMQLFENALTVRIVTLHNTTTKENETLLAIGTAYVLGEDVAARGRVLLF  1150
1151  SFTKSENSQNLVTEVYSKESKGAVSAVASLQGHLLIASGPKITLNKWTGA  1200
1201  ELTAVAFYDAPLHVVSLNIVKNFVLFGDIHKSIYFLSWKEQGSQLSLLAK  1250
1251  DFGSLDCFATEFLIDGSTLSLVASDSDKNVQIFYYAPKMVESWKGQKLLS  1300
1301  RAEFHVGAHITKFLRLQMLPTQGLSSEKTNRFALLFGNLDGGIGCIAPID  1350
1351  ELTFRRLQSLQRKLVDAVPHVCGLNPRSFRQFHSNGKGHRPGPDNIIDFE  1400
1401  LLCSYEMLSLDEQLDVAQQIGTTRSQILSNFSDISLGTSFL           1441

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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