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

NucPred

Fetching P35500 from www.uniprot.org...

The NucPred score for your sequence is 0.33 (see score help below)

   1  MTEDSDSISEEERSLFRPFTRESLVQIEQRIAAEHEKQKELERKRAEGEV    50
  51  PQYGRKKKQKEIRYDDEDEDEGPQPDPTLEQGVPIPVRLQGSFPPELAST   100
 101  PLEDIDPYYSNVLTFVVVSKGKDIFRFSASKAMWMLDPFNPIRRVAIYIL   150
 151  VHPLFSLFIITTILVNCILMIMPTTPTVESTEVIFTGIYTFESAVKVMAR   200
 201  GFILCPFTYLRDAWNWLDFVVIALAYVTMGIDLGNLAALRTFRVLRALKT   250
 251  VAIVPGLKTIVGAVIESVKNLRDVIILTMFSLSVFALMGLQIYMGVLTQK   300
 301  CIKKFPLDGSWGNLTDENWDYHNRNSSNWYSEDEGISFPLCGNISGAGQC   350
 351  DDDYVCLQGFGPNPNYGYTSFDSFGWAFLSAFRLMTQDFWEDLYQLVLRA   400
 401  AGPWHMLFFIVIIFLGSFYLVNLILAIVAMSYDELQKKAEEEEAAEEEAI   450
 451  REAEEAAAAKAAKLEERANAQAQAAADAAAAEEAALHPEMAKSPTYSCIS   500
 501  YELFVGGEKGNDDNNKEKMSIRSVEVESESVSVIQRQPAPTTAHQATKVR   550
 551  KVSTTSLSLPGSPFNIRRGSRSSHKYTIRNGRGRFGIPGSDRKPLVLSTY   600
 601  QDAQQHLPYADDSNAVTPMSEENGAIIVPVYYGNLGSRHSSYTSHQSRIS   650
 651  YTSHGDLLGGMAVMGVSTMTKESKLRNRNTRNQSVGATNGGTTCLDTNHK   700
 701  LDHRDYEIGLECTDEAGKIKHHDNPFIEPVQTQTVVDMKDVMVLNDIIEQ   750
 751  AAGRHSRASDRGVSVYYFPTEDDDEDGPTFKDKALEVILKGIDVFCVWDC   800
 801  CWVWLKFQEWVSLIVFDPFVELFITLCIVVNTMFMAMDHHDMNKEMERVL   850
 851  KSGNYFFTATFAIEATMKLMAMSPKYYFQEGWNIFDFIIVALSLLELGLE   900
 901  GVQGLSVLRSFRLLRVFKLAKSWPTLNLLISIMGRTMGALGNLTFVLCII   950
 951  IFIFAVMGMQLFGKNYHDHKDRFPDGDLPRWNFTDFMHSFMIVFRVLCGE  1000
1001  WIESMWDCMYVGDVSCIPFFLATVVIGNLVVLNLFLALLLSNFGSSSLSA  1050
1051  PTADNDTNKIAEAFNRIGRFKSWVKRNIADCFKLIRNKLTNQISDQPSGE  1100
1101  RTNQISWIWSEGKGVCRCISAEHGDNELELGHDEILADGLIKKGIKEQTQ  1150
1151  LEVAIGDGMEFTIHGDMKNNKPKKSKYLNNATDDDTASINSYGSHKNRPF  1200
1201  KDESHKGSAETMEGEEKRDASKEDLGLDEELDEEGECEEGPLDGDIIIHA  1250
1251  HDEDILDEYPADCCPDSYYKKFPILAGDDDSPFWQGWGNLRLKTFQLIEN  1300
1301  KYFETAVITMILMSSLALALEDVHLPQRPILQDILYYMDRIFTVIFFLEM  1350
1351  LIKWLALGFKVYFTNAWCWLDFVIVMVSLINFVASLVGAGGIQAFKTMRT  1400
1401  LRALRPLRAMSRMQGMRVVVNALVQAIPSIFNVLLVCLIFWLIFAIMGVQ  1450
1451  LFAGKYFKCEDMNGTKLSHEIIPNRNACESENYTWVNSAMNFDHVGNAYL  1500
1501  CLFQVATFKGWIQIMNDAIDSREVDKQPIRETNIYMYLYFVFFIIFGSFF  1550
1551  TLNLFIGVIIDNFNEQKKKAGGSLEMFMTEDQKKYYNAMKKMGSKKPLKA  1600
1601  IPRPRWRPQAIVFEIVTDKKFDIIIMLFIGLNMFTMTLDRYDASDTYNAV  1650
1651  LDYLNAIFVVIFSSECLLKIFALRYHYFIEPWNLFDVVVVILSILGLVLS  1700
1701  DIIEKYFVSPTLLRVVRVAKVGRVLRLVKGAKGIRTLLFALAMSLPALFN  1750
1751  ICLLLFLVMFIFAIFGMSFFMHVKEKSGINDVYNFKTFGQSMILLFQMST  1800
1801  SAGWDGVLDAIINEEACDPPDNDKGYPGNCGSATVGITFLLSYLVISFLI  1850
1851  VINMYIAVILENYSQATEDVQEGLTDDDYDMYYEIWQQFDPEGTQYIRYD  1900
1901  QLSEFLDVLEPPLQIHKPNKYKIISMDIPICRGDLMYCVDILDALTKDFF  1950
1951  ARKGNPIEETGEIGEIAARPDTEGYEPVSSTLWRQREEYCARLIQHAWRK  2000
2001  HKARGEGGGSFEPDTDHGDGGDPDAGDPAPDEATDGDAPAGGDGSVNGTA  2050
2051  EGAADADESNVNSPGEDAAAAAAAAAAAAAAGTTTAGSPGAGSAGRQTAV  2100
2101  LVESDGFVTKNGHKVVIHSRSPSITSRTADV                     2131

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.