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

NucPred

Fetching Q51UJ9 from www.uniprot.org...

The NucPred score for your sequence is 0.90 (see score help below)

   1  MATQVLIAHSGQRLQIDTSRLTTLDEFRSAVSRSTSIPQNCIIALVPPGK    50
  51  ALRPQAIQMEKEIFVYDSRMTQTGAPGSPFPVKLEIDLPKPYAITNPPND   100
 101  IIDTRSLESWQDLFRERRVWAHRLSEDCEGMEKEAHDQYEAMDNMLSCLD   150
 151  AAVANLESVVRATENKYEDLKKWAATEQTGYNDLVTRWEQNLGLARSIPI   200
 201  SAAMVRLMTGKDVTGAKGRPSKQATLEDLVDLDCARKEGRRAPTVLRKFN   250
 251  ARIADLEKAEGRLMQNFEELEAEFRRVISRSVMGHSQDATQLLQDIQALA   300
 301  GKVENDYRTTMDYSTSTRDLLQASKIAQTHTEKHLPSLHKRALEMDGMLR   350
 351  YAIKARNALALEQAEFMRSIADVSKLDMQVKSLINAIAEDEELATFDYLR   400
 401  LIHQVPYMYAAFTAEAIRRKEWFDKVKTDSTTLANEMALFQDEEAKRRRK   450
 451  WYKTIGDTSYGPESLSTDNNVPGLEVNLLGEDELWPSTSRKDLEEFLDLL   500
 501  QRQRADASIIGDVGKIIAELSNPTKQQFKRLKAFKNGSVHDSALGRSGLM   550
 551  IRGDDELLRSLQDDKTKLETKLRTAESRVRRLEDLLHRQGQASRPTLGNL   600
 601  FQNPSQQLPERSGSAQSVGSPGPIGDRRQSDEVGNQLVQRVAQLEKELQE   650
 651  EKERNAALERDAADRTTHTNDIKAQMDDVNATKKDLLENMEAQKREFLVE   700
 701  RKALDEEIRNLKARLEETEDEFHNIDESREHEKTSYDEKVQLLEAQLESL   750
 751  TKEKSDDALKAQGQVDFLRNETRLQRESNEALQAQIQASQDELGLLNKKL   800
 801  KTTNEAADVQLRALRELYTTFVKSAGIPEDVNDLADTVLNNAAETLAKVQ   850
 851  NLDADISIMRSNLALAQDVAKDLRAQQANALEKLAKEETTSMHLREQCDE   900
 901  HKAKVNALEGELADGRKQLDELRTQIAQGETGSESLRTRLEEEEKKIVRL   950
 951  TEDLASKQSQVGSLEEELRLFQERLQDSQSKLTTLTLRTETRNERTKDIS  1000
1001  QRLYSQNERLVRLLERLGFSVSRENGVMTIQKIPRAERSTMNLAASSTAD  1050
1051  AKSRIASEPADVELLYWMNATDVQGETEKYDKFMSTLGSFDVDAFADTVY  1100
1101  RRVKDVEHIARKLQRDVRGYREKTHALHKDAHDKIAFRNFKEGDLALFLP  1150
1151  TRNQTNGAWAAFNIGFPHYFLREQEHHRLSNREWLVARITRVQEKVVDLS  1200
1201  KSLDTTESINGTSGGAEDDNDNPFDLSDGLRWYLIDAQEDKPGAPSTPGL  1250
1251  GKTTVASTKVEAKGDMQTQPRSTPGGLAVLGGAKPSAVDGASKSLSKSLE  1300
1301  SRRSSTSSTRRPLPFAGALSRNAPGSETNSLRAVATTAPGDGAGSPSGPT  1350
1351  SPKPHLAHGEDQDVRLAALPEPQQQRVEVRNDSGGGAIDSLLGPT       1395

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.