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

NucPred

Fetching Q14980 from www.uniprot.org...

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

   1  MTLHATRGAALLSWVNSLHVADPVEAVLQLQDCSIFIKIIDRIHGTEEGQ    50
  51  QILKQPVSERLDFVCSFLQKNRKHPSSPECLVSAQKVLEGSELELAKMTM   100
 101  LLLYHSTMSSKSPRDWEQFEYKIQAELAVILKFVLDHEDGLNLNEDLENF   150
 151  LQKAPVPSTCSSTFPEELSPPSHQAKREIRFLELQKVASSSSGNNFLSGS   200
 201  PASPMGDILQTPQFQMRRLKKQLADERSNRDELELELAENRKLLTEKDAQ   250
 251  IAMMQQRIDRLALLNEKQAASPLEPKELEELRDKNESLTMRLHETLKQCQ   300
 301  DLKTEKSQMDRKINQLSEENGDLSFKLREFASHLQQLQDALNELTEEHSK   350
 351  ATQEWLEKQAQLEKELSAALQDKKCLEEKNEILQGKLSQLEEHLSQLQDN   400
 401  PPQEKGEVLGDVLQLETLKQEAATLAANNTQLQARVEMLETERGQQEAKL   450
 451  LAERGHFEEEKQQLSSLITDLQSSISNLSQAKEELEQASQAHGARLTAQV   500
 501  ASLTSELTTLNATIQQQDQELAGLKQQAKEKQAQLAQTLQQQEQASQGLR   550
 551  HQVEQLSSSLKQKEQQLKEVAEKQEATRQDHAQQLATAAEEREASLRERD   600
 601  AALKQLEALEKEKAAKLEILQQQLQVANEARDSAQTSVTQAQREKAELSR   650
 651  KVEELQACVETARQEQHEAQAQVAELELQLRSEQQKATEKERVAQEKDQL   700
 701  QEQLQALKESLKVTKGSLEEEKRRAADALEEQQRCISELKAETRSLVEQH   750
 751  KRERKELEEERAGRKGLEARLQQLGEAHQAETEVLRRELAEAMAAQHTAE   800
 801  SECEQLVKEVAAWRERYEDSQQEEAQYGAMFQEQLMTLKEECEKARQELQ   850
 851  EAKEKVAGIESHSELQISRQQNELAELHANLARALQQVQEKEVRAQKLAD   900
 901  DLSTLQEKMAATSKEVARLETLVRKAGEQQETASRELVKEPARAGDRQPE   950
 951  WLEEQQGRQFCSTQAALQAMEREAEQMGNELERLRAALMESQGQQQEERG  1000
1001  QQEREVARLTQERGRAQADLALEKAARAELEMRLQNALNEQRVEFATLQE  1050
1051  ALAHALTEKEGKDQELAKLRGLEAAQIKELEELRQTVKQLKEQLAKKEKE  1100
1101  HASGSGAQSEAAGRTEPTGPKLEALRAEVSKLEQQCQKQQEQADSLERSL  1150
1151  EAERASRAERDSALETLQGQLEEKAQELGHSQSALASAQRELAAFRTKVQ  1200
1201  DHSKAEDEWKAQVARGRQEAERKNSLISSLEEEVSILNRQVLEKEGESKE  1250
1251  LKRLVMAESEKSQKLEERLRLLQAETASNSARAAERSSALREEVQSLREE  1300
1301  AEKQRVASENLRQELTSQAERAEELGQELKAWQEKFFQKEQALSTLQLEH  1350
1351  TSTQALVSELLPAKHLCQQLQAEQAAAEKRHREELEQSKQAAGGLRAELL  1400
1401  RAQRELGELIPLRQKVAEQERTAQQLRAEKASYAEQLSMLKKAHGLLAEE  1450
1451  NRGLGERANLGRQFLEVELDQAREKYVQELAAVRADAETRLAEVQREAQS  1500
1501  TARELEVMTAKYEGAKVKVLEERQRFQEERQKLTAQVEQLEVFQREQTKQ  1550
1551  VEELSKKLADSDQASKVQQQKLKAVQAQGGESQQEAQRLQAQLNELQAQL  1600
1601  SQKEQAAEHYKLQMEKAKTHYDAKKQQNQELQEQLRSLEQLQKENKELRA  1650
1651  EAERLGHELQQAGLKTKEAEQTCRHLTAQVRSLEAQVAHADQQLRDLGKF  1700
1701  QVATDALKSREPQAKPQLDLSIDSLDLSCEEGTPLSITSKLPRTQPDGTS  1750
1751  VPGEPASPISQRLPPKVESLESLYFTPIPARSQAPLESSLDSLGDVFLDS  1800
1801  GRKTRSARRRTTQIINITMTKKLDVEEPDSANSSFYSTRSAPASQASLRA  1850
1851  TSSTQSLARLGSPDYGNSALLSLPGYRPTTRSSARRSQAGVSSGAPPGRN  1900
1901  SFYMGTCQDEPEQLDDWNRIAELQQRNRVCPPHLKTCYPLESRPSLSLGT  1950
1951  ITDEEMKTGDPQETLRRASMQPIQIAEGTGITTRQQRKRVSLEPHQGPGT  2000
2001  PESKKATSCFPRPMTPRDRHEGRKQSTTEAQKKAAPASTKQADRRQSMAF  2050
2051  SILNTPKKLGNSLLRRGASKKALSKASPNTRSGTRRSPRIATTTASAATA  2100
2101  AAIGATPRAKGKAKH                                     2115

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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