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

NucPred

Fetching P70424 from www.uniprot.org...

The NucPred score for your sequence is 0.51 (see score help below)

   1  MELAAWCRWGFLLALLSPGAAGTQVCTGTDMKLRLPASPETHLDMLRHLY    50
  51  QGCQVVQGNLELTYLPANASLSFLQDIQEVQGYMLIAHNRVKHVPLQRLR   100
 101  IVRGTQLFEDKYALAVLDNRDPLDNVTTAAPGRTPEGLRELQLRSLTEIL   150
 151  KGGVLIRGNPQLCYQDMVLWKDVLRKNNQLAPVDMDTNRSRACPPCAPTC   200
 201  KDNHCWGESPEDCQILTGTICTSGCARCKGRLPTDCCHEQCAAGCTGPKH   250
 251  SDCLACLHFNHSGICELHCPALITYNTDTFESMLNPEGRYTFGASCVTTC   300
 301  PYNYLSTEVGSCTLVCPPNNQEVTAEDGTQRCEKCSKPCAGVCYGLGMEH   350
 351  LRGARAITSDNIQEFAGCKKIFGSLAFLPESFDGNPSSGVAPLKPEHLQV   400
 401  FETLEEITGYLYISAWPESFQDLSVFQNLRVIRGRILHDGAYSLTLQGLG   450
 451  IHSLGLRSLRELGSGLALIHRNTHLCFVNTVPWDQLFRNPHQALLHSGNR   500
 501  PEEACGLEGLVCNSLCARGHCWGPGPTQCVNCSQFLRGQECVEECRVWKG   550
 551  LPREYVRGKHCLPCHPECQPQNSSETCYGSEADQCEACAHYKDSSSCVAR   600
 601  CPSGVKPDLSYMPIWKYPDEEGICQPCPINCTHSCVDLDERGCPAEQRAS   650
 651  PVTFIIATVVGVLLFLIIVVVIGILIKRRRQKIRKYTMRRLLQETELVEP   700
 701  LTPSGAVPNQAQMRILKETELRKLKVLGSGAFGTVYKGIWIPDGENVKIP   750
 751  VAIKVLRENTSPKANKEILDEAYVMAGVGSPYVSRLLGICLTSTVQLVTQ   800
 801  LMPYGCLLDHVREHRGRLGSQDLLNWCVQIAKGMSYLEEVRLVHRDLAAR   850
 851  NVLVKSPNHVKITDFGLARLLDIDETEYHADGGKVPIKWMALESILRRRF   900
 901  THQSDVWSYGVTVWELMTFGAKPYDGIPAREIPDLLEKGERLPQPPICTI   950
 951  DVYMIMVKCWMIDSECRPRFRELVSEFSRMARDPQRFVVIQNEDLGPSSP  1000
1001  MDSTFYRSLLEDDDMGELVDAEEYLVPQQGFFSPDPALGTGSTAHRRHRS  1050
1051  SSARSGGGELTLGLEPSEEEPPRSPLAPSEGAGSDVFDGDLAVGVTKGLQ  1100
1101  SLSPHDLSPLQRYSEDPTLPLPPETDGYVAPLACSPQPEYVNQPEVRPQS  1150
1151  PLTPEGPPPPIRPAGATLERPKTLSPGKNGVVKDVFAFGGAVENPEYLAP  1200
1201  RAGTASQPHPSPAFSPAFDNLYYWDQNSSEQGPPPSTFEGTPTAENPEYL  1250
1251  GLDVPV                                              1256

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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