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

NucPred

Fetching Q62136 from www.uniprot.org...

The NucPred score for your sequence is 0.84 (see score help below)

   1  MPLPFGLKLKRTRRYTVSSKSCLVARIQLLNNEFVEFTLSVESTGQESLE    50
  51  AVAQRLELREVTYFSLWYYNKQNQRRWVDLEKPLKKQLDKHALEPTVYFG   100
 101  VLFYVPSVSQLQQEITRYQYYLQLKKDILEGNLPCTLEHAIQLAGLAVQA   150
 151  DFGDFDQYESQDFLQKFALLPVAWLQDEKVLEEAAQKVALLHQKYRGLTA   200
 201  PEAELLYMQEVERMDGYGEESYPAKDSQGSDISIGACLDGIFVKHKNGRP   250
 251  PVVFRWHDIANMSHNKSFFALELANKEETIQFQTEDMETAKYVWRLCVAR   300
 301  HKFYRLNQCSLQTQAATLNSVRRDSSSRMSLPKPQPYAMPPPPQLHYNGH   350
 351  YTEPFASSQDNIFVPNKNGFYCHSQTSLDRTQIDLSGRIRNGSVYSAHST   400
 401  NSLNTLQPYLQPSPMSSNPSITGSDVMRPDSLPSHRHSALIPPSYRPTPD   450
 451  YETVMKQLNRGMVHADRHSHSLRNLNIGSSYAYSRPDALVYSQPEIREHP   500
 501  HLTSPQSAHYPFNLNYSFHSQSPYPYPAERRPVVGAVSVPELTNVQLQAQ   550
 551  DYPAPNIMRTQVYRPPPPYPYPRPANSTPDLSRHLYISSSNPDLITRRVH   600
 601  HSVQTFQEDSLPVAHSLQEVSEPLTAARHAHLQKRNSIEIAGLTHGFEGL   650
 651  RLKERTVSASAADVAPRTFSAGSQSSVFSDKMKQEGTEEQEGGRYSHKKS   700
 701  LSDATMLIDSSEEDEDLEEDSSREQAISAVSEPRLTAAFSQELNYPCASA   750
 751  TPITGPLHIFEPKPHVTEPEKRAKDISPVHLVVETHRPRRDGLLTPSMSE   800
 801  SDLTTSGRYRARRDSVKKRPVSDLLSGKKSAVEGLPPLGGMKKTRADAKK   850
 851  IGPLKLAALNGLSLSRLPLPDEGKEVSTRATNDERCKVLEQRLEQGMVFT   900
 901  EYERILKKRLVDGECSTARLPENAERNRFQDVLPYDDARVELVPTKENNT   950
 951  GYINASHIKVSVSGIEWDYIATQGPLQNTCQDFWQMVWEQGVAIIAMVTA  1000
1001  EEEGGREKSFRYWPRLGSRHNTVTYGRFKITTRFRTDSGCYATTGLKMKH  1050
1051  LLTGQERTVWHLQYTDWPEHGCPEDLKGFLSYLEEIQSVRRHTNSTSEPK  1100
1101  SHNPPLLVHCSAGVGRTGVVILSEIMVACLEHNEVLDIPRVLDMLRQQRM  1150
1151  MLVQTLGQYTFVYRVLIQFLKSSRLI                          1176

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.