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

NucPred

Fetching Q8N4C6 from www.uniprot.org...

The NucPred score for your sequence is 0.89 (see score help below)

   1  MDEVEQDQHEARLKELFDSFDTTGTGSLGQEELTDLCHMLSLEEVAPVLQ    50
  51  QTLLQDNLLGRVHFDQFKEALILILSRTLSNEEHFQEPDCSLEAQPKYVR   100
 101  GGKRYGRRSLPEFQESVEEFPEVTVIEPLDEEARPSHIPAGDCSEHWKTQ   150
 151  RSEEYEAEGQLRFWNPDDLNASQSGSSPPQDWIEEKLQEVCEDLGITRDG   200
 201  HLNRKKLVSICEQYGLQNVDGEMLEEVFHNLDPDGTMSVEDFFYGLFKNG   250
 251  KSLTPSASTPYRQLKRHLSMQSFDESGRRTTTSSAMTSTIGFRVFSCLDD   300
 301  GMGHASVERILDTWQEEGIENSQEILKALDFSLDGNINLTELTLALENEL   350
 351  LVTKNSIHQAALASFKAEIRHLLERVDQVVREKEKLRSDLDKAEKLKSLM   400
 401  ASEVDDHHAAIERRNEYNLRKLDEEYKERIAALKNELRKEREQILQQAGK   450
 451  QRLELEQEIEKAKTEENYIRDRLALSLKENSRLENELLENAEKLAEYENL   500
 501  TNKLQRNLENVLAEKFGDLDPSSAEFFLQEERLTQMRNEYERQCRVLQDQ   550
 551  VDELQSELEEYRAQGRVLRLPLKNSPSEEVEANSGGIEPEHGLGSEECNP   600
 601  LNMSIEAELVIEQMKEQHHRDICCLRLELEDKVRHYEKQLDETVVSCKKA   650
 651  QENMKQRHENETHTLEKQISDLKNEIAELQGQAAVLKEAHHEATCRHEEE   700
 701  KKQLQVKLEEEKTHLQEKLRLQHEMELKARLTQAQASFEREREGLQSSAW   750
 751  TEEKVRGLTQELEQFHQEQLTSLVEKHTLEKEELRKELLEKHQRELQEGR   800
 801  EKMETECNRRTSQIEAQFQSDCQKVTERCESALQSLEGRYRQELKDLQEQ   850
 851  QREEKSQWEFEKDELTQECAEAQELLKETLKREKTTSLVLTQEREMLEKT   900
 901  YKEHLNSMVVERQQLLQDLEDLRNVSETQQSLLSDQILELKSSHKRELRE   950
 951  REEVLCQAGASEQLASQRLERLEMEHDQERQEMMSKLLAMENIHKATCET  1000
1001  ADRERAEMSTEISRLQSKIKEMQQATSPLSMLQSGCQVIGEEEVEGDGAL  1050
1051  SLLQQGEQLLEENGDVLLSLQRAHEQAVKENVKMATEISRLQQRLQKLEP  1100
1101  GLVMSSCLDEPATEFFGNTAEQTEQFLQQNRTKQVEGVTRRHVLSDLEDD  1150
1151  EVRDLGSTGTSSVQRQEVKIEESEASVEGFSELENSEETRTESWELKNQI  1200
1201  SQLQEQLMMLCADCDRASEKKQDLLFDVSVLKKKLKMLERIPEASPKYKL  1250
1251  LYEDVSRENDCLQEELRMMETRYDEALENNKELTAEVFRLQDELKKMEEV  1300
1301  TETFLSLEKSYDEVKIENEGLNVLVLRLQGKIEKLQESVVQRCDCCLWEA  1350
1351  SLENLEIEPDGNILQLNQTLEECVPRVRSVHHVIEECKQENQYLEGNTQL  1400
1401  LEKVKAHEIAWLHGTIQTHQERPRVQNQVILEENTTLLGFQDKHFQHQAT  1450
1451  IAELELEKTKLQELTRKLKERVTILVKQKDVLSHGEKEEELKAMMHDLQI  1500
1501  TCSEMQQKVELLRYESEKLQQENSILRNEITTLNEEDSISNLKLGTLNGS  1550
1551  QEEMWQKTETVKQENAAVQKMVENLKKQISELKIKNQQLDLENTELSQKN  1600
1601  SQNQEKLQELNQRLTEMLCQKEKEPGNSALEEREQEKFNLKEELERCKVQ  1650
1651  SSTLVSSLEAELSEVKIQTHIVQQENHLLKDELEKMKQLHRCPDLSDFQQ  1700
1701  KISSVLSYNEKLLKEKEALSEELNSCVDKLAKSSLLEHRIATMKQEQKSW  1750
1751  EHQSASLKSQLVASQEKVQNLEDTVQNVNLQMSRMKSDLRVTQQEKEALK  1800
1801  QEVMSLHKQLQNAGGKSWAPEIATHPSGLHNQQKRLSWDKLDHLMNEEQQ  1850
1851  LLWQENERLQTMVQNTKAELTHSREKVRQLESNLLPKHQKHLNPSGTMNP  1900
1901  TEQEKLSLKRECDQFQKEQSPANRKVSQMNSLEQELETIHLENEGLKKKQ  1950
1951  VKLDEQLMEMQHLRSTATPSPSPHAWDLQLLQQQACPMVPREQFLQLQRQ  2000
2001  LLQAERINQHLQEELENRTSETNTPQGNQEQLVTVMEERMIEVEQKLKLV  2050
2051  KRLLQEKVNQLKEQVSLPGHLCSPTSHSSFNSSFTSLYCH            2090

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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