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

NucPred

Fetching O35276 from www.uniprot.org...

The NucPred score for your sequence is 0.27 (see score help below)

   1  MDMFPLTWIFLALYFSGHKVRSQQDPPCGGRLNSKDAGYITSPGYPQDYP    50
  51  SHQNCEWVVYAPEPNQKIVLNFNPHFEIEKHDCKYDFIEIRDGDSESADL   100
 101  LGKHCGNIAPPTIISSGSVLYIKFTSDYARQGAGFSLRYEIFKTGSEDCS   150
 151  KNFTSPNGTIESPGFPEKYPHNLDCTFTILAKPRMEIILQFLTFDLEHDP   200
 201  LQVGEGDCKYDWLDIWDGIPHVGPLIGKYCGTKTPSKLRSSTGILSLTFH   250
 251  TDMAVAKDGFSARYYLVHQEPPENFQCNAPLGMESGRIANEQISASSTFS   300
 301  DGRWTPQQSRLHGDDNGWTPNVDSNKEYLQVDLRFLTMLTAIATQGAISR   350
 351  ETQKGYYVKSYKLEVSTNGEDWMVYRHGKNHKVFQANNDATELVLNKLHT   400
 401  PLLTRFIRIRPQTWHLGIALRLELFGCRVTDAPCSNMLGMLSGLIADTQI   450
 451  SASSTREYLWSPSAARLVSSRSGWFPRNPQAQPGEEWLQVDLGTPKTVKG   500
 501  VIIQGARGGDSITAMEARAFVRKFKVSYSLNGKDWEYIQDPRTQQPKLFE   550
 551  GNMHYDTPDIRRFEPVPAQYVRVYPERWSPAGIGMRLEVLGCDWTDSKPT   600
 601  VETLGPTVKSEETTTPYPMDEDATECGENCSFEDDKDLQLPSGFNCNFDF   650
 651  PEETCGWMYDRAKWLQSTWISSANPNDRTFPDDKNFLKLQSDGGREGQFG   700
 701  RLISPPVHLPRSPVCMEFQYQAMGGHGVALQVVREARQESKLLWVIREDQ   750
 751  GSEWKHGRIILPSYDMEYQIVFEGVIGKGRSGEISIDDIRISTDVPLENC   800
 801  MEPISAFAVDIPEIHGGEGYEDEIDDDYEGDWNNSSSTSGAGSPSSGKEK   850
 851  SWLYTLDPILITIIAMSSLGVLLGATCAGLLLYCTCSYSGLSSRSCTTLE   900
 901  NYNFELYDGLKHKVKINHQKCCSEA                            925

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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