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

NucPred

Fetching Q9P5N0 from www.uniprot.org...

The NucPred score for your sequence is 0.61 (see score help below)

   1  MITANKGLSLVLLIPNLFALVSGGLQYVFDVRRRIFRPHFSQFWTIWMKF    50
  51  FSIALVIITQIYVGYKTKNIGWNFFSVVTYCFVLFLQFAEQSTLRVPMAS   100
 101  LLIFWLLKVVTSLLILLFSPYIAITSMARLLTLITLFCSLVCFISEVYVP   150
 151  PCNRVWYSDDTNEVEEKGIRPSEVRYANIFSKLSFSWISSFIKFGYTNYL   200
 201  KESDVWLLPPDERSGNLIIGFEDWWIYHSKNKRRSLFLWKLLFFNHWKLV   250
 251  ALITITKLIQDVLAFVQPTLIQKTILFISSYTSPNPESPSRGFIIAILVL   300
 301  VANFLQTLLLQQYNQLIMLLGMRWKTELLASIYRKSLLLSSSARQNRSIG   350
 351  DIINYMAVDTQKISDLPIYLFIIVSGPFQIALALSNLYHLMGYSAFTGVA   400
 401  ASVILFPCNIIVANVYKKFQSILMKNKDSRSKLMTEIINNIRSIKLYAWE   450
 451  TPFLQKLLHIRNTKELSMLKKIGFITAIGDFAWIFTTIIVTTVAFGAFII   500
 501  FHGKTQALTADIVFPAVSLFNLLQFPLAMLPTVISSLLEASVSVSRIYEF   550
 551  LIAQELDYNGVQRFPATEIPHEICLEIKSGTFSWSKKTLKQQVTPTLRQI   600
 601  NFVAKNGELTCIFGKVGAGKSSLLEACMGNMYKNSGSVFQCGSLAYAAQQ   650
 651  PWIFDATIRENILFGSEFDPELYEKTIHACCLKRDFEIFTEGDQTEVGQK   700
 701  GASLSGGQKSRISLARAIYSQADIYLLDDVLSSVDQHVSRDLIKNLFGPE   750
 751  GFLRTHCVVLTTNSLNVLKEADSIYILSNGKIVEKGNYEHLFVSTNSELK   800
 801  QQLSEFNDEKDTQPLPEHTTSYPSTQISLAPSIHVEGLETYSSSERKDSS   850
 851  NKYKSRKRNPIRQKVTEDDKGKCVAQTDELVQRGKVKWHVYWMYFKSCSI   900
 901  GLILLYFFFIISGIMMNVATNVWLKHWSEENGKSSSELNPSPYFYLGIYL   950
 951  FFGFLSCAFISSSSLTMTVLCGIRSGRYLHDSMLKTILRAPMGFFETTSS  1000
1001  GRILNRFSNDVYKVDEVVSLTFMFFFRNSIQVLFILGVICYSAPLSLLLI  1050
1051  VPLFFLYLYNRAYYVRTSRELKRLDNVTRSPLYAHVQESLSGLSTIRAYG  1100
1101  MQETFVEENDLRIDTNHRVWFMFFSSSRWQAIRVECIGDLIIFCTAFYGI  1150
1151  LSAIKGSPNPGLVGFSLSYAIQITQGLSFIVQQSVDAENNTVSVERILEY  1200
1201  INVKSEAPEIIPENRPPCEWPTDGAVSFNHYSAKYREDLSFALNNINIEI  1250
1251  SPREKIGIVGRTGAGKSTLAMALFRIIEPTEGKIEIDNEDITKFGLYDLR  1300
1301  SRLSIIPQESQIFEGNIRENLDPNHRLTDKKIWEVLEIASLKNCISQLED  1350
1351  GLYSRVAEGGANFSSGQRQLICLARVLLTSTRILLLDEATASVHAETDAI  1400
1401  VQQTIRKRFKDRTILTVAHRINTVMDSDRILVLDHGKVVEFDATKKLLEN  1450
1451  KDSMFYSLAKESGLI                                     1465

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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