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

NucPred

Fetching O97159 from www.uniprot.org...

The NucPred score for your sequence is 0.96 (see score help below)

   1  MASEEENDDNFQEEEEAQEDNAPAAELSNDSDAPLKPNNDEDDDYDPEDS    50
  51  RRKKKGKKRKTRKGEEKGRKKKKRKKNESEEDSDFVQHDEEVEYPSTSKR   100
 101  GRKRKEEKQAAKEKESASSGMPSVEDVCSAFSVCNVEIEYSEEELQSLTT   150
 151  YKAFMHHVRPILQKENPKIAAPKLVMLVAAKWREFCESNPHIQQEGGAAG   200
 201  SGGSAGQARSVTGDEPEEPRSSRSSRNEKPDDIYEEAVEEEEEEEEEEKK   250
 251  PRRKRSGRGKKGRRPSGKVPTLKIKLLGKRKRDSSDEEQDASGASERDSD   300
 301  LEFERMLQKSDDSADEKEAPVSSKADNSAPAAQDDGSGAPVVRKKAKTKI   350
 351  GNKFKKKNKLKKTKNFPEGEDGEHEHQDYCEVCQQGGEIILCDTCPRAYH   400
 401  LVCLEPELDEPPEGKWSCPHCEADGGAAEEEDDDEHQEFCRVCKDGGELL   450
 451  CCDSCPSAYHTFCLNPPLDTIPDGDWRCPRCSCPPLTGKAEKIITWRWAQ   500
 501  RSNDDGPSTSKGSKNSNSRVREYFIKWHNMSYWHCEWVPEVQLDVHHPLM   550
 551  IRSFQRKYDMEEPPKFEESLDEADTRYKRIQRHKDKVGMKANDDAEVLEE   600
 601  RFYKNGVKPEWLIVQRVINHRTARDGSTMYLVKWRELPYDKSTWEEEGDD   650
 651  IQGLRQAIDYYQDLRAVCTSETTQSRSKKSKKGRKSKLKVEDDEDRPVKH   700
 701  YTPPPEKPTTDLKKKYEDQPAFLEGTGMQLHPYQIEGINWLRYSWGQGID   750
 751  TILADEMGLGKTIQTVTFLYSLYKEGHCRGPFLVAVPLSTLVNWEREFEL   800
 801  WAPDFYCITYIGDKDSRAVIRENELSFEEGAIRGSKVSRLRTTQYKFNVL   850
 851  LTSYELISMDAACLGSIDWAVLVVDEAHRLKSNQSKFFRILNSYTIAYKL   900
 901  LLTGTPLQNNLEELFHLLNFLSRDKFNDLQAFQGEFADVSKEEQVKRLHE   950
 951  MLGPHMLRRLKTDVLKNMPSKSEFIVRVELSAMQKKFYKFILTKNYEALN  1000
1001  SKSGGGSCSLINIMMDLKKCCNHPYLFPSAAEEATTAAGGLYEINSLTKA  1050
1051  AGKLVLLSKMLKQLKAQNHRVLIFSQMTKMLDILEDFLEGEQYKYERIDG  1100
1101  GITGTLRQEAIDRFNAPGAQQFVFLLSTRAGGLGINLATADTVIIYDSDW  1150
1151  NPHNDIQAFSRAHRIGQANKVMIYRFVTRNSVEERVTQVAKRKMMLTHLV  1200
1201  VRPGMGGKGANFTKQELDDILRFGTEDLFKEDDKEEAIHYDDKAVAELLD  1250
1251  RTNRGIEEKESWANEYLSSFKVASYATKEEEEEEETEIIKQDAENSDPAY  1300
1301  WVKLLRHHYEQHQEDVGRSLGKGKRVRKQVNYTDGGVVAADTTRDDSNWQ  1350
1351  DNGSEYNSEYSAGSDEDGGDDDFDDQNGAERKAKRRLERRDDRPLPPLLA  1400
1401  RVGGNIEVLGFNARQRKSFLNAIMRYGMPPQDAFNSQWLVRDLRGKSERN  1450
1451  FKAYVSLFMRHLCEPGADNAETFADGVPREGLSRQHVLTRIGVMSLIRKK  1500
1501  VQEFEHINGYYSMPELILKPCEPVRSALKQDVAALEAPPTGGNVDKSATT  1550
1551  SNSVTPATSAAPSPAPASEKGEDKDKDSEKEKDKTSAEKSEVKQEQEAEE  1600
1601  DKKPGDVKQENPVEEAAGDTKPSDAEVKTEVAKTEPKEETKDPEVKEEPK  1650
1651  TEEKEKEKVDDKKPIPPTTVIDDDDDDVMIVKEDGELEKPSASSPKDQKA  1700
1701  VAAATSAATGATGKGAEDSLEVLKRKFMFNIADGGFTELHTLWLNEEKAA  1750
1751  VPGREYEIWHRRHDYWLLAGIVTHGYGRWQDIQNDIRFAIINEPFKMDVG  1800
1801  KGNFLEIKNKFLARRFKLLEQALVIEEQLRRAAYLNLAQDPSHPAMSLNA  1850
1851  RFAEVECLAESHQHLSKESLAGNKPANAVLHKVLNQLEELLSDMKSDVSR  1900
1901  LPATLARIPPVAQRLQMSERSILSRLAATAGNASNAAQLMAQFPAGFQGT  1950
1951  TLPAFTSGPAGNFANFRPQFSVPGQLSNNSGV                    1982

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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