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

NucPred

Fetching Q6ENI2 from www.uniprot.org...

The NucPred score for your sequence is 0.93 (see score help below)

   1  MAERANLVFQNKEIDGTAMKRLISRLIDHFGMGYTSHILDQIKTLGFHQA    50
  51  TTTSISLGIEDLLTIPSKGWLVQDAEQQSFLLEKHYYYGAVHAVEKLRQS   100
 101  VEIWYATSEYLKHEMNSNFRITDPSNPVYLMSFSGARGNASQVHQLVGMR   150
 151  GLMADPQGQMIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTADAG   200
 201  YLTRRLVEVVQHIIVRRRDCGTIQAISVSPQNGMTEKLFVQTLIGRVLAN   250
 251  DIYIGSRCIATRNQDIGIGLVNRFITTFRAQPFRAQPIYIRTPFTCRSTS   300
 301  WICQLCYGRSSTHGDLVELGEAVGVIAGQSIGEPGTQLTLRTFHTGGVFT   350
 351  GGTADLVRSPSNGKIQFNGDLVHPTRTRHGQPAFLCYIDLHITIQSQDIL   400
 401  HSVTIPSKSLILVQNDQYVESEQVIAEIRAGTSALHFKEKVQKHIYSESD   450
 451  GEMHWSTDVYHAPEYQYGNLRRLPKTSHLWILSVSMCRSSIASFSLHKDQ   500
 501  DQMNTYSFSVDGRYIFGLSMADDEVRHRLLDTFGKKDREILDYSTPDRIM   550
 551  SNGHWNFVYPSILQNNFDLLAKKRRNRFAIPLQYHQEQEKEPISCFGISI   600
 601  EIPFMGVLRRNTIVAYFDDPRYKKDKKGSGIVKFRYRTLEDEYRTREKDS   650
 651  ENEYGSPENEYRTREEECKTLEDEYRTREEEYETLEDEYGIPENEYETLE   700
 701  DEYGILEDEYRTREEESEDEYGSPENKYRPREDKYGTLEEDSEDEHGTLE   750
 751  EDSEEDSEDEYGNPEEDSVLKKGVLIEHRGTKEFSLKYQKEVDRFFFILQ   800
 801  ELHILPRSSSLKVLDNSIIGVDTQLTKNTRSRLGGLVRVKRKKSHTELKI   850
 851  FSGDIHFPEEADKILGGSLIPLEREKKDSKESKKRENWVYVQWKKILKSK   900
 901  EKYFVLVRPAVAYEMNEGRNLATLFPQDLLQEEGNLQLRLVNFISHENSK   950
 951  LTQRIYHTNSQFVRTCLVLNWEQEEKEEARASLVEIRANGLIRDFLRIGL  1000
1001  IKSTISYTRKRYDSRSAGLILHNRLDRTNTNSFYSKAKIQSLSQHQEAIG  1050
1051  TLLNRNKEYQSLMVLSASNCSRIGFFKNSKNPNGVKESNPRIPIPKFFGL  1100
1101  FRNFSGLLGTIAPSISNFSSSYYLLTYNQILLKKHLLLDNLKQNFKVLQG  1150
1151  LKHSLINENQRTSNFDSNIMLDPFQLNWHFLPHDSWEETSAKIHLGQFIC  1200
1201  ENVCLFKSHIKKSGQIFIVNIDSFVIRAAKPYLATTGATVHGHYGEILYK  1250
1251  GDRLVTFIYEKARSSDITQGLPKVEQIFEARSIDSLSPNLERRIEDWNER  1300
1301  IPRILGGPWGFLIGAELTIAQSRISLVNKIQKVYRSQGVQIHNRHIEIII  1350
1351  RQVTSKVRVSEDGMSNVFSPGELIGLLRAERAGRALDESIYYRAILLGIT  1400
1401  RVSLNTQSFISEASFQETARVLAKAALRGRIDWLKGLKENVVLGGIIPVG  1450
1451  TGFQKFVHRYPQDKNLYFEIQKKKLFASEMRDILFLHTELVSSDSDVTNN  1500
1501  FYETSESPFTPFI                                       1513

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.