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

NucPred

Fetching P12227 from www.uniprot.org...

The NucPred score for your sequence is 0.87 (see score help below)

   1  RLVEVVQHIVVRRTDCGTIRGISVNTRNGMMPEIILIQTLIGRVVAENIY    50
  51  IGSRCIVVRNQDIGIGLINRFITFQTQPIFIRTPFTCRNTSWICRLCYGR   100
 101  SPIHGDLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEYVRA   150
 151  PSNGKIKLNEDLVHPTRTRHGYPAFICNIDLYVTIESDDIIHNVIIPPKS   200
 201  FLLVQNDQYVKSEQVIAEIRAGTYTFNLKERVRKHIYSDSEGEMHWSTDV   250
 251  YHASEFMYSNVHILPKTSHLWILSGKSCRSNTIHFLLRKDQDQITMDSLS   300
 301  NGKTNISNLLERNDQVKHKLFRFNTFGTKEKGISDYSIFNEIICTDHSYP   350
 351  AIFHDTFYFLAKRRRNRFLIPFPFQSIQERKNERMSPSGVSIEIPINGIF   400
 401  HRNSIFAYFDDPQYRRHSSGITKYRTIGIHSIFQKEDFIEYRGIKELKPK   450
 451  SQIQVDRFFFIPEEVHILPKSSSLMVRNNSLVGIGTPITFNIRSRVGGLV   500
 501  RLDKKKKKIELKIFSGNIHFPGEMDKISRHSAILIPPGTVKKKKCNKSKK   550
 551  IKNWIYVQWIATTKKKYFVLVRPVILYEIPDSNNFVKLFPQDLFQEKDNL   600
 601  ELKVVNYILYGNGKSIRGISDTRIQLVRTCLVFNWDDGKNSSSIEEAPAS   650
 651  FIEVRTNGLIEYFLRIDLVKSNTSYIRKRNEPSGFGLIGDNKSDRINPFF   700
 701  SIHSKGKIQQSLSQNHGTIRMLLNRNKECRSWIILSSSNCFQMRPFNNEK   750
 751  SHNGIKKDPIISINNNGPLGIALQVANFYSLYHLITHNQISIIKNLQLDK   800
 801  LTEIFQVIKYYLMDENDKICKPDLYSNIILNPFHLNWFFLHHFYCEKTFT   850
 851  RISLGQFICENICIAQMKNRPHLKLKSGQVIIVQMDSVIIRSANPYLATP   900
 901  GATIHGHYGEILSQGDILVTFIYEKSRSGDITQGLPKVEQILEIRSIDSI   950
 951  SMNLEKRIDAWNECITKIIGIPWGFLIGAELTIAQSRISLVNKIQKVYRS  1000
1001  QGVHIHNRHIEIIVRQITSKVLVSEDGMSNIFLPGELIGLLRAERTGRAL  1050
1051  EEAICYRALLLGVTKTSLNTQSFISEASFQETARVLAKAALRGRIDWLKG  1100
1101  LKENVVLGGMIPVGTGFKRIMHRSRSRQHNKITRKKKLFEVEIRNLLFHH  1150
1151  RKLLDFANFKEFM                                       1163

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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