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

NucPred

Fetching Q6CXH8 from www.uniprot.org...

The NucPred score for your sequence is 0.64 (see score help below)

   1  MTQDSEVLLWHTVLQRHRNYVHSCIGDFTLDRSSLATAEADTTSVKGPRS    50
  51  SKKRKELQLCLATQDCVELYDVSNGTLDALGKWPIAATILSMTKLNMDRC   100
 101  SHTILVLITDSGNLTFWQFERDSVSGKVYVRTLANEPISRSGIRRFVPQY   150
 151  QMVSDPQSRCVFFSGIERSKMCVLADWQRGKLVVGSPIEIQRSDRITLAS   200
 201  AACDVSFDNPVNAAIEVESGTNDYYLSFYTMDLGLNTLLLRKEHLLEDKS   250
 251  INFVMQCPNLQQYKIKTRPNDETDQDSVNPFVICGYDGYLTLIDLEGFYE   300
 301  VSVQLPVRKTVSSTNIINGTIHKLKKDFFILMQSNHGDMYKVGIIPDEET   350
 351  KAPVLEIAYFDTLPTSEDIHIFKSGALFNVSEFGTSYLTQFESLGEDLEK   400
 401  ITSYTPGRRSFIETESTLKNLSILDSLTSLNPLTSFHASNSTPLTILAAA   450
 451  NQTENLVKLTSAVDFEELISTTLPRIPSKLWTVRIPKNETHSLIFLSMET   500
 501  STTILKIHEGTVEDFGGDSNPFILNKPSLFVGAMVQRSIIQVTRDCLLQI   550
 551  IEMHDGPYTKKLEWYPPAGVGIVTAFCNETQLVVALTNHEICYFEIIEDS   600
 601  LNELQDRVEMDSTVNSIALLAGQKSGYCVLGCEDSSLQILNLQSKHPDFF   650
 651  TICAIQSLISKPHSLLFMRDTSDLKIHVGMKSGVYLSSKLNINDGTVFDV   700
 701  RTRFVGTKPVQVNLLDNIDINHKDDDDDEPGENDSKIDDFKKKISDFTPL   750
 751  VVLNSSISWVTYEIDDKITLRPLKTDEGITLKHINAFITDDIKRNGCCSI   800
 801  TSKGQLLIGKLDNFLSWSNWFNEKKYTLVNDELKNAGNEEEDEDEDEDED   850
 851  EDASEKYEIVGYQSQRILSDTTDNSLSYVISKTANKETSLSAIRDDKLLA   900
 901  TNNGNTVVIIAKEVFNAVCSCNFGTNVKYIVISTESGKFIVIQIRVKNNV   950
 951  LETQYIHETMVHSKVNAMVSFGDKLACCILGNVVLFGLGKKQLLRKSITE  1000
1001  MPPYITQVTALDQWDGTMLAVGDIRESVTIFKYDIDNNSFIGVADDIVKR  1050
1051  HVTTVKFIDVSSVIGGDRFGNCWVLRVNYESDTRVASNIKACQYTLETLC  1100
1101  HMYMNDTPMKFEIVNHMNMSDRPAILWIGLQGTIGCFVPLITRKEQQLYQ  1150
1151  SFQSTYAELDVLHFQDNNKPEEVDLEETEGALDEAYHTTKNTDHQDYVEG  1200
1201  VISRVGRDFLSYRSSYAPSKNIIDGETLEQLTTYLPSDQRWIASKMKHAD  1250
1251  SGKLDIFNKYINEMRTNYV                                 1269

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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