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

NucPred

Fetching Q29131 from www.uniprot.org...

The NucPred score for your sequence is 0.61 (see score help below)

   1  METKGYHSRPEGLDMERRWGQVSQPVDRPSLGPAERTEENNYMEIVNVSC    50
  51  VSGAIPNNSTQGSSKEKQELLPCLQQDNTQSGILTSEIKTELEPKELSAT   100
 101  VAESMGLYMDSVREADYAFEQHAQQGSLSPAKIYQNVEQLMKFYKENGHR   150
 151  SSTLSNVSRPSRSFLPDPGSAVNGGVMRAMVKSPILCHEKSPSVCSPLNM   200
 201  TSSVCSPAGINSVSSTTVRFGSFPVHSPITQGTPLTCSPTVDNRGSRSHS   250
 251  PAHASNVGSPLSSPLSSMKSPISSPPSHCSVKSPVSSPNNVTLRSCVSSP   300
 301  ANINNSRCSVSSPSKANNRSTLSSPAASTVGSICSPNAFSYPASGASVGS   350
 351  SATRDVIPSPDTHEKGAHEVPFPKTEEVENAISNGVTGQLNIVQYIKPEP   400
 401  DGAFSSSCLGGNSKIHSDSPFSSVPIKQESTKHSCSGASFKGNPTVNPFP   450
 451  FMDGSYFSFMDDKDYYSLSGILGPPVPGFEGNCEGTGFPMGIKQEPDYGI   500
 501  YYPEASIPSSAIVGVNSGGQSFHYRIGAQGTISLSRSARDQSFQHLSSFP   550
 551  PVNTLVESWKSHGDLSARKIDGYPVLEYIPENVSSSTLRSVSTGSSRPSK   600
 601  ICLVCGDGASGCHYGVVTCGSCKVFFKRAVEGQHNYLCAGRNDCIIDKIR   650
 651  RKNCPACRLQKCLQAGMNLGARKSKKLGKLKGLHEEQPQQPPPPQSPEEG   700
 701  TTYIAPAKEPSVNTALVPQLSSISRALTPSPVMVLENIEPEIVYAGYDSS   750
 751  KPDTAENLLSTLNRLAGKQMIQVVKWAKVLPGFKNLPLEDQITLIQYSRM   800
 801  CLSSFALSWRSYKHTNSQFFYFAPDLVFNEEKMHQSAMYELCQGMHQISL   850
 851  QFVRLQFTFEEYTFMEVLLLLSTIPKDGLKSQAAFEEMRANYIKELRKMV   900
 901  TKCPNNSGQSWQGFYQLTKFLDSMHDLVSDLLEFCFYTFRELQALKVEFP   950
 951  AMLVEIISDQLPKVESGNAKPLYFHRK                          977

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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