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

NucPred

Fetching Q86SQ0 from www.uniprot.org...

The NucPred score for your sequence is 0.98 (see score help below)

   1  MEEHSYIQKELDLQNGSLEEDSVVHSVENDSQNMMESLSPKKYSSSLRFK    50
  51  ANGDYSGSYLTLSQPVPAKRSPSPLGTSVRSSPSLAKIQGSKQFSYDGTD   100
 101  KNIPMKPPTPLLNTTSSLSGYPLGRADFDHYTGRDSERALRLSEKPPYSK   150
 151  YSSRHKSHDNVYSLGGLEGRKASGSLLAMWNGSSLSDAGPPPISRSGAAS   200
 201  MPSSPKQARKMSIQDSLALQPKLTRHKELASENINLRTRKYSSSSLSHMG   250
 251  AYSRSLPRLYRATENQLTPLSLPPRNSLGNSKRTKLGEKDLPHSVIDNDN   300
 301  YLNFSSLSSGALPYKTSASEGNPYVSSTLSVPASPRVARKMLLASTSSCA   350
 351  SDDFDQASYVGTNPSHSLLAGESDRVFATRRNFSCGSVEFDEADLESLRQ   400
 401  ASGTPQPALRERKSSISSISGRDDLMDYHRRQREERLREQEMERLERQRL   450
 451  ETILSLCAEYTKPDSRLSTGTTVEDVQKINKELEKLQLSDEESVFEEALM   500
 501  SPDTRYRCHRKDSLPDADLASCGSLSQSSASFFTPRSTRNDELLSDLTRT   550
 551  PPPPSSTFPKASSESSYLSILPKTPEGISEEQRSQELAAMEETRIVILNN   600
 601  LEELKQKIKDINDQMDESFRELDMECALLDGEQKSETTELMKEKEILDHL   650
 651  NRKIAELEKNIVGEKTKEKVKLDAEREKLERLQELYSEQKTQLDNCPESM   700
 701  REQLQQQLKRDADLLDVESKHFEDLEFQQLEHESRLDEEKENLTQQLLRE   750
 751  VAEYQRNIVSRKEKISALKKQANHIVQQAQREQDHFVKEKNNLIMMLQRE   800
 801  KENLCNLEKKYSSLSGGKGFPVNPNTLKEGYISVNEINEPCGNSTNLSPS   850
 851  TQFPADADAVATEPATAVLASQPQSKEHFRSLEERKKQHKEGLYLSDTLP   900
 901  RKKTTSSISPHFSSATMGRSITPKAHLPLGQSNSCGSVLPPSLAAMAKDS   950
 951  ESRRMLRGYNHQQMSEGHRQKSEFYNRTASESNVYLNSFHYPDHSYKDQA  1000
1001  FDTLSLDSSDSMETSISACSPDNISSASTSNIARIEEMERLLKQAHAEKT  1050
1051  RLLESREREMEAKKRALEEEKRRREILEKRLQEETSQRQKLIEKEVKIRE  1100
1101  RQRAQARPLTRYLPVRKEDFDLRSHVETAGHNIDTCYHVSITEKTCRGFL  1150
1151  IKMGGKIKTWKKRWFVFDRNKRTFSYYADKHETKLKGVIYFQAIEEVYYD  1200
1201  HLKNANKSPNPLLTFSVKTHDRIYYMVAPSPEAMRIWMDVIVTGAEGYTH  1250
1251  FLL                                                 1253

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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