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

NucPred

Fetching Q5HZN1 from www.uniprot.org...

The NucPred score for your sequence is 0.83 (see score help below)

   1  MVLTQQENLSVLVGQRFVCLLGKDLQVDPDTVSKWPWKSGIVRAASHKDL    50
  51  HCPEIKIFVEYDDESWENRTWLELYGPTVKMFLVEHNLVLADHASPSNPS   100
 101  VSVQCPAMVYKVLVGKFSLGSTACLQFLGEKDKVFLSKELVKPVRDRETL   150
 151  KQFMQDNKTFNKAFQELIRKSVDESRLLQAARNIISMPINVYSMDPSMQW   200
 201  FSGTITNVRTASRALEIKCEQLPSLKIIDPALLHVVLVHNYGDQNDKSKK   250
 251  PRASKRKSQDTESEDQTEVKQTRNEEVPSKDVTQKTSFLTYRRDDGKTLV   300
 301  VVDNPKATTNNLFNYMTPATEDQQKVQQSLSSKQSVPVGFGETLLGCAAT   350
 351  TPGIQNAATPPPANSPPSFGAATPQGKGSQNLPGDTTVLNGDANREETNL   400
 401  FLSAAASQGNKRSMGFGIMESPSTFSSLSTMPSWSGQPNSENGLKSENLF   450
 451  AAFTKSSTVFPKGFEFSVKSFPEQKMLSVTDSPKTALQKTCVPQQEQNVI   500
 501  RKPENNHTSVKAIKPQEPPYTKSPNKTDGVTYPKSILLNPQKLKRLQQSG   550
 551  DCFVQDGSCNNIAPHLHKCRECRLDRFGRSREQRDSAVFCRFFHFRRLHF   600
 601  NKHGMLKEGGFLTPNKYDAEAINLWLPLASSVVDLDLDTAKYILANIGDH   650
 651  FCKLVMSEKEVMSSTDPSKQVAWKRAVRGVREMCDACDTTIFNLHWVCPK   700
 701  CGFGVCVDCYRMRKKSLSSGEEGNEMFSWLKCMKGQLHEPENLMPTQIVP   750
 751  GKALYDVCDIVHSVRGRWGIKSNCSCSNKHMRPVSKPVVKEEVKPSTPEP   800
 801  EPIKSLLAQPNVCTVPDPPAIPNKPPTPACSSPLSWLTNFPQTIVNKENK   850
 851  DNLFASTSKSEHKPLPSFASFGKPVSALQTFGSSILTPTTSNNSGFLRNL   900
 901  LNASTLKQETSDKSTPKILDDIFASLVQSRPLSDFDRKPQGLPIQPSLMG   950
 951  FNTPHYWLCDNRLLCLQDPNNKSNWNVFRECWKQGQPVMVSGVHNNLNSE  1000
1001  LWRPESFRREFGDQEADLVNCRTNDIITGATVGDFWDGFEDIPGRLKNDT  1050
1051  GESMVLKLKDWPPGEDFRDTMLSRFEDLMNNIPLPEYTRREGKLNLAARL  1100
1101  PTYFVRPDLGPKMYNAYGLITPEDRKYGTTNLHLDVSDAANVMVYVGIPK  1150
1151  GEHDQDQEVLRTIQDGDADELTIKRFIEFKEKPGALWHIYAAKDTEKIRQ  1200
1201  FLKKVAEEEGHENPPDHDPIHDQSWYLDNILRKRLLQEHGVQGWAIVQFL  1250
1251  GDAVFIPAGAPHQVHNLYSCIKVAEDFVSPEHVKHCFCLTQEFRYLSHTH  1300
1301  TNHEDKLQVKNVIYHAVKDSIAILKANESSLGKL                  1334

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.