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

NucPred

Fetching P17429 from www.uniprot.org...

The NucPred score for your sequence is 0.93 (see score help below)

   1  MSGLTLGGGSGRVRPTQAAAAFPTSHDFADPDRSSVARNANRPSRRFAAP    50
  51  PQLSDDFSLESPTDSAQVHDNLLQDALFPEWKANSPRGVDSPDEMQKKDP   100
 101  LATQIWKLYSRTKAQLPNQERMENLTWRMMALSLRRQERERAQQQARASS   150
 151  QKSPVPGMSGIAQLRLSDRVSNTPTTTADTVSDAMNLDDFIIPFSPSDHP   200
 201  SPSTTKASEATTGAIPIKARRDQSASEATPVPASFPHPAQDQRRESEFGY   250
 251  VPRRVRKTSIDERQFFNLQIPSRKRPAESSPHVPPVSTSMLAHDPDFSHA   300
 301  VPEYTLDTSHGLSLQNQMNAQQLANAQNHTSPNMAFALDTFNLGDDPILP   350
 351  SAGPYQQQFTFSPSESPMTSGNPFANLYAQTPIASSLNSTDFFSPPPSGY   400
 401  QSTASTPQPAYDGEHSKYFDMPVDARSQRRVVPAYITQRSSNLSASLQPR   450
 451  YMYNQGGSSQDITQQNAHMGAQSSSMQSPGFSIPQHVDPTQVLNPNEFNG   500
 501  NHAAMFSFGADSDVEDDDGNQFSAGGLAMPAEFGDDSISDMNSNMAWETS   550
 551  YPNSFQSLPAFAAQHRKHVTIGSADMMDTPSEWNQGGSLGRTHESAASVS   600
 601  EVRNRDQDPRRQKIARTSSTPNTAQLLRQSMQNQSSHTSPNTPPESGLNS   650
 651  AAPSRPASPGGTKNGEQNGPTTCTNCFTQTTPLWRRNPEGQPLCNACGLF   700
 701  LKLHGVVRPLSLKTDVIKKRNRNSANSLAVGSSRVSKKSARKNSVQQVTP   750
 751  TAPTSSRAQSNTTSESPPAMPGSSGRGSGVVPIAAAPPKSSSAATTSPGT   800
 801  NNGCGAVQVAPKRQRRLEKASDVDMAESPSSTSSGGRSKVVPLAPAMPPA   850
 851  AVNPANHSIAAGQGASQEWEWLTMSL                           876

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.