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

NucPred

Fetching Q5SVZ6 from www.uniprot.org...

The NucPred score for your sequence is 0.91 (see score help below)

   1  MKEPLLGGECDKAVASQLGLLDEIKTEPDNAQEYCHRQQSRTQENELKIN    50
  51  AVFSESASQLTAGIQLSLASSGVNKMLPSVSTTAIQVSCAGCKKILQKGQ   100
 101  TAYQRKGSAQLFCSIPCITEYISSASSPVPSKRTCSNCSKDILNPKDVIS   150
 151  VQLEDTTSCKTFCSLSCLSSYEEKRKPFVTICTNSILTKCSMCQKTAIIQ   200
 201  YEVKYQNVKHNLCSNACLSKFHSANNFIMNCCENCGTYCYTSSSLSHILQ   250
 251  MEGQSHYFNSSKSITAYKQKPAKPLISVPCKPLKPSDEMIETTSDLGKTE   300
 301  LFCSINCFSAYSKAKMESSSVSVVSVVHDTSTELLSPKKDTTPVISNIVS   350
 351  LADTDVALPIMNTDVLQDTVSSVTATADVIVDLSKSSPSEPSNAVASSST   400
 401  EQPSVSPSSSVFSQHAIGSSTEVQKDNMKSMKISDELCHPKCTSKVQKVK   450
 451  GKSRSIKKSCCADFECLENSKKDVAFCYSCQLFCQKYFSCGRESFATHGT   500
 501  SNWKKTLEKFRKHEKSEMHLKSLEFWREYQFCDGAVSDDLSIHSKQIEGN   550
 551  KKYLKLIIENILFLGKQCLPLRGNDQSVSSVNKGNFLELLEMRAKDKGEE   600
 601  TFRLMNSQVDFYNSTQIQSDIIEIIKTEMLQDIVNEINDSSAFSIICDET   650
 651  INSAMKEQLSICVRYPQKSSKAILIKERFLGFVDTEEMTGTHLHRTIKTY   700
 701  LQQIGVDMDKIHGQAYDSTTNLKIKFNKIAAEFKKEEPRALYIHCYAHFL   750
 751  DLSIIRFCKEVKELRSALKTLSSLFNTICMSGEMLANFRNIYRLSQNKTC   800
 801  KKHISQSCWTVHDRTLLSVIDSLPEIIETLEVIASHSSNTSFADELSHLL   850
 851  TLVSKFEFVFCLKFLYRVLSVTGILSKELQNKTIDIFSLSSKIEAILECL   900
 901  SSERNDVYFKTIWDGTEEICQKITCKGFKVEKPSLQKRRKIQKSVDLGNS   950
 951  DNMFFPTSTEEQYKINIYYQGLDTILQNLKLCFSEFDYCKIKQISELLFK  1000
1001  WNEPLNETTAKHVQEFYKLDEDIIPELRFYRHYAKLNFVIDDSCINFVSL  1050
1051  GCLFIQHGLHSNIPCLSKLLYIALSWPITSASTENSFSTLPRLKTYLCNT  1100
1101  MGQEKLTGPALMAVEQELVNKLMEPERLNEIVEKFISQMKEI          1142

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.)

Go back to the NucPred Home Page.