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

NucPred

Fetching P79114 from www.uniprot.org...

The NucPred score for your sequence is 0.97 (see score help below)

   1  MDNFFPEGTRVWLRENGQHFPSTVNSCAEGVVVFQTDYGQVFTYKQSTIT    50
  51  HQKVMPMQPTDEEGVDDMATLTELHGGAIMHNLYQRYKRNQIYTYIGSII   100
 101  ASVNPYKTITGLYSRDAVDRYSRCHLGELPPHVFAIANECYRCLWKRHDN   150
 151  QCVLISGESGAGKTESTKLILKFLSAISQQSVDLSSKEKTSSVEQAILES   200
 201  SPIMEAFGNAKTVYNNNSSRFGKFVQLNIGQKGNIQGGRIVDYLLEKNRV   250
 251  VRQNPGERNYHIFYALLAGLGHEEREEFYLSVPENYHYLNQSGCVTDRTI   300
 301  SDQESFREVIMAMEVMQFSKEEVREVLRLLAGILHLGNIEFITAGGAQVS   350
 351  FKTALGRSAELLGLDPAQLTDALTQRSMFLRGEEILTPLNVQQAADSRDS   400
 401  LAMALYARCFEWVIKKINSRIKGKDDFKSIGILDIFGFENFEVNHFEQFN   450
 451  INYANEKLQEYFNKHIFSLEQLEYSREGLVWEDIDWIDNGECLDLIEKKL   500
 501  GLLALINEESHFPQATDSTLLEKLHNQHANNHFYVKPRVAVNNFGVKHYA   550
 551  GEVQYDVRGILEKNRDTFRDDLLNLLRESRFDFIYDLFEHVSSRNNQDTL   600
 601  KCGSKHRRPTVSSQFKDSLHSLMATLSASNPFFVRCIKPNMQKMPDQFDQ   650
 651  AVVVNQLRYSGMLETVRIRKAGYAVRRPFQDFYKRYKVLMRNVALPEDIR   700
 701  GKCTALLQLYDASNSEWQLGKTKVFLRESLEQKLEKRQEEEVTRAAMVIR   750
 751  AHVLGYLARKQYKKVLDCVVIIQKNYRAFLLRRRFLHLKKAAVVFQKQLR   800
 801  GQIARRVYRQLLAEKRAEEEKRKREEEEKRKREEEERERERERREAELRA   850
 851  QQEEAARKQRELEALQQESQRAAELSRELEKQKENKQVEEILRLEKEIED   900
 901  LQRMKERQELSLTEASLQKLQQLRDEELRRLEDEACRAAQEFLESLNFDE   950
 951  IDECVRNIERSLSVGSGCTGEQGAGAEKPSFNFSQPYPEEEEVDEGFEAD  1000
1001  DDAFKDSPNPSEHGHSDQRTSGIRTSDESSEEDPYMNDTVVPTSPSADST  1050
1051  VLLAPSEHDSSAGEPTYCLPQTPGALPAPEGDYDYDQDDYEDGAITSGSS  1100
1101  VTFSNSCSSQWSPDYRCSVGTYNSSGAYRFSSEGAQSSFEDSEEDFDSRF  1150
1151  DTDDELSYRRDSVYSCVTLPYFHSFLYMKGGLMNSWKRRWCVLKDETFLW  1200
1201  FRSKQEALKQGWLHKKGGGSSTLSRRNWKKRWFVLRQAKLMYFENDSEEK  1250
1251  LKGTVEVRAAKEIIDNTSKENGIDIIMADRTFHLIAESPEDASQWFSVLS  1300
1301  QVHASTDQEIREMHDEQANPQNAVGTLDVGLIDSVCASDSPDRPNSFVII  1350
1351  TANRVLHCNADTPEEMHHWITLLQRSKGDTRVEGQEFIVRGWLHKEVKNS  1400
1401  PKMSSLKLKKRWFVLTHNSLDYYKSSEKNALKLGTLVLNSLCSVVPPDEK  1450
1451  IFKETGYWNVTVYGRKHCYRLYTKLLNEATRWSSAIQNVTDTKAPIDTPT  1500
1501  QQLIQDIKENCLNSDVVEQIYKRNPILRHTHHPLHSPLLPLPYGDINLNL  1550
1551  LKDKGYTTLQDEAIKIFNSLQQLESMSDPIPIIQGILQTGHDLRPLRDEL  1600
1601  YCQLIKQTNKVPHPGSVGNLCSWQILTCLSCTFLPSRGILKYLKFHLRRI  1650
1651  REQFPGTEMEKYALFIYESLKKTKCREFVPSRDEIEALIHRQEMTSTVHC  1700
1701  HGGGSCKITVNSHTTAGEVVEKLIRGLAMEDSRNMFALFEYNGHVDKAIE  1750
1751  SRTIVADVLAKFEKLAATSEVGEQPWKFYFKLYCFLDTDNVPKDSVEFAF  1800
1801  MFEQAHEAVIHGHYPAPEENLQVLAALRLQYLQGDYAPHAPVPPLEEVYS  1850
1851  LQRLKARISQSTKSFTPGERLEKRRTSFLEGTLRRSFRTGSAIRQKAEEE  1900
1901  QMVDMWVKEEVCSARASILDKWKKFQGMSQEQAMAKYMALIKEWPGYGST  1950
1951  LFDVECKEGGFPQDLWLGVSADAVSVYKRGEGRPLEVFQYEHILSFGAPL  2000
2001  ANTYKIVVDERELLFETSEVVDVAKLMKAYISMIVKKRYSTSRSVSSQGS  2050
2051  SR                                                  2052

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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