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

NucPred

Fetching P15381 from www.uniprot.org...

The NucPred score for your sequence is 0.76 (see score help below)

   1  MLRALVQPATPAYQPLPSHLSAETESTCKGTVVHEAQLNHFYISPGGSNY    50
  51  GSPRPAHANMNANAAAGLAPEHIPTPGAALSWQAAIDAARQAKLMGSAGN   100
 101  ATISTVSSTQRKRQQYGKPKKQGSTTATRPPRALLCLTLKNPIRRACISI   150
 151  VEWKPFEIIILLTIFANCVALAIYIPFPEDDSNATNSNLERVEYLFLIIF   200
 201  TVEAFLKVIAYGLLFHPNAYLRNGWNLLDFIIVVVGLFSAILEQATKADG   250
 251  ANALGGKGAGFDVKALRAFRVLRPLRLVSGVPSLQVVLNSIIKAMVPLLH   300
 301  IALLVLFVIIIYAIIGLELFMGKMHKTCYNQEGVADVPAEDDPSPCALET   350
 351  GHGRQCQNGTVCKPGWDGPKHGITNFDNFAFAMLTVFQCITMEGWTDVLY   400
 401  WMQDAMGYELPWVYFVSLVIFGSFFVLNLVLGVLSGEFSKEREKAKARGD   450
 451  FQKLREKQQLEEDLKGYLDWITQAEDIDPENEDEGMDEEKPRNMSMPTSE   500
 501  TESVNTENVAGGDIEGENCGARLAHRISKSKFSRYWRRWNRFCRRKCRAA   550
 551  VKSNVFYWLVIFLVFLNTLTIASEHYNQPHWLTEVQDTANKALLALFTAE   600
 601  MLLKMYSLGLQAYFVSLFNRFDCFIVCGGILETILVETKVMSPLGISVLR   650
 651  CVRLLRIFKITRYWNSLSNLVASLLNSVRSIASLLLLLFLFIIIFSLLGM   700
 701  QLFGGKFNFDEMQTRRSTFDNFPQSLLTVFQILTGEDWNSVMYDGIMAYG   750
 751  GPSFPGMLVCIYFIILFICGNYILLNVFLAIAVDNLADAESLTSAQKEEE   800
 801  EEKERKKLARTASPEKKQEVVGKPALEEAKEEKIELKSITADGESPPTTK   850
 851  INMDDLQPNESEDKSPYPNPETTGEEDEEEPEMPVGPRPRPLSELHLKEK   900
 901  AVPMPEASAFFIFSPNNRFRLQCHRIVNDTIFTNLILFFILLSSISLAAE   950
 951  DPVQHTSFRNHILFYFDIVFTTIFTIEIALKMTAYGAFLHKGSFCRNYFN  1000
1001  ILDLLVVSVSLISFGIQSSAINVVKILRVLRVLRPLRAINRAKGLKHVVQ  1050
1051  CVFVAIRTIGNIVIVTTLLQFMFACIGVQLFKGKLYTCSDSSKQTEAECK  1100
1101  GNYITYKDGEVDHPIIQPRSWENSKFDFDNVLAAMMALFTVSTFEGWPEL  1150
1151  LYRSIDSHTEDKGPIYNYRVEISIFFIIYIIIIAFFMMNIFVGFVIVTFQ  1200
1201  EQGEQEYKNCELDKNQRQCVEYALKARPLRRYIPKNQHQYKVWYVVNSTY  1250
1251  FEYLMFVLILLNTICLAMQHYGQSCLFKIAMNILNMLFTGLFTVEMILKL  1300
1301  IAFKPKGYFSDPWNVFDFLIVIGSIIDVILSETNPAEHTQCSPSMNAEEN  1350
1351  SRISITFFRLFRVMRLVKLLSRGEGIRTLLWTFIKSFQALPYVALLIVML  1400
1401  FFIYAVIGMQVFGKIALNDTTEINRNNNFQTFPQAVLLLFRCATGEAWQD  1450
1451  IMLACMPGKKCAPESEPHNSTEGETPCGSSFAVFYFISFYMLCAFLIINL  1500
1501  FVAVIMDNFDYLTRDWSILGPHHLDEFKRIWAEYDPEAKGRIKHLDVVTL  1550
1551  LRRIQPPLGFGKLCPHRVACKRLVSMNMPLNSDGTVMFNATLFALVRTAL  1600
1601  RIKTEGNLEQANEELRAIIKKIWKRTSMKLLDQVVPPAGDDEVTVGKFYA  1650
1651  TFLIQEYFRKFKKRKEQGLVGKPSQRNALSLQAGLRTLHDIGPEIRRAIS  1700
1701  GDLTAEEELDKAMKEAVSAASEDDIFRRAGGLFGNHVSYYQSDSRSAFPQ  1750
1751  TFTTQRPLHISKAGNNQGDTESPSHEKLVDSTFTPSSYSSTGSNANINNA  1800
1801  NNTALGRLPRPAGYPSTVSTVEGHGSPLSPAVRAQEAAWKLSSKRCHSQE  1850
1851  SQIAMACQEGASQDDNYDVRIGEDAECCSEPSLLSTEMLSYQDDENRQLA  1900
1901  PPEEEKRDIRLSPKKGFLRSASLGRRASFHLECLKRQKNQGGDISQKTVL  1950
1951  PLHLVHHQALAVAGLSPLLQRSHSPTSLPRPCATPPATPGSRGWPPQPIP  2000
2001  TLRLEGADSSEKLNSSFPSIHCGSWSGENSPCRGDSSAARRARPVSLTVP  2050
2051  SQAGAQGRQFHGSASSLVEAVLISEGLGQFAQDPKFIEVTTQELADACDL  2100
2101  TIEEMENAADDILSGGARQSPNGTLLPFVNRRDPGRDRAGQNEQDASGAC  2150
2151  APGCGQSEEALADRRAGVSSL                               2171

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.