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

NucPred

Fetching O00562 from www.uniprot.org...

The NucPred score for your sequence is 0.60 (see score help below)

   1  MLIKEYHILLPMSLDEYQVAQLYMIQKKSREESSGEGSGVEILANRPYTD    50
  51  GPGGSGQYTHKVYHVGSHIPGWFRALLPKAALQVEEESWNAYPYTRTRYT   100
 101  CPFVEKFSIEIETYYLPDGGQQPNVFNLSGAERRQRILDTIDIVRDAVAP   150
 151  GEYKAEEDPRLYHSVKTGRGPLSDDWARTAAQTGPLMCAYKLCKVEFRYW   200
 201  GMQAKIEQFIHDVGLRRVMLRAHRQAWCWQDEWTELSMADIRALEEETAR   250
 251  MLAQRMAKCNTGSEGSEAQPPGKPSTEARSAASNTGTPDGPEAPPGPDAS   300
 301  PDASFGKQWSSSSRSSYSSQHGGAVSPQSLSEWRMQNIARDSENSSEEEF   350
 351  FDAHEGFSDSEEVFPKEMTKWNSNDFIDAFASPVEAEGTPEPGAEAAKGI   400
 401  EDGAQAPRDSEGLDGAGELGAEACAVHALFLILHSGNILDSGPGDANSKQ   450
 451  ADVQTLSSAFEAVTRIHFPEALGHVALRLVPCPPICAAAYALVSNLSPYS   500
 501  HDGDSLSRSQDHIPLAALPLLATSSSRYQGAVATVIARTNQAYSAFLRSP   550
 551  EGAGFCGQVALIGDGVGGILGFDALCHSANAGTGSRGSSRRGSMNNELLS   600
 601  PEFGPVRDPLADGVEGLGRGSPEPSALPPQRIPSDMASPEPEGSQNSLQA   650
 651  APATTSSWEPRRASTAFCPPAASSEAPDGPSSTARLDFKVSGFFLFGSPL   700
 701  GLVLALRKTVMPALEAAQMRPACEQIYNLFHAADPCASRLEPLLAPKFQA   750
 751  IAPLTVPRYQKFPLGDGSSLLLADTLQTHSSLFLEELEMLVPSTPTSTSG   800
 801  AFWKGSELATDPPAQPAAPSTTSEVVKILERWWGTKRIDYSLYCPEALTA   850
 851  FPTVTLPHLFHASYWESADVVAFILRQVIEKERPQLAECEEPSIYSPAFP   900
 901  REKWQRKRTQVKIRNVTSNHRASDTVVCEGRPQVLSGRFMYGPLDVVTLT   950
 951  GEKVDVYIMTQPLSGKWIHFGTEVTNSSGRLTFPVPPERALGIGVYPVRM  1000
1001  VVRGDHTYAECCLTVVARGTEAVVFSIDGSFTASVSIMGSDPKVRAGAVD  1050
1051  VVRHWQDSGYLIVYVTGRPDMQKHRVVAWLSQHNFPHGVVSFCDGLTHDP  1100
1101  LRQKAMFLQSLVQEVELNIVAGYGSPKDVAVYAALGLSPSQTYIVGRAVR  1150
1151  KLQAQCQFLSDGYVAHLGQLEAGSHSHASSGPPRAALGKSSYGVAAPVDF  1200
1201  LRKQSQLLRSRGPSQAEREGPGTPPTTLARGKARSISLKLDSEE        1244

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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