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

NucPred

Fetching O75417 from www.uniprot.org...

The NucPred score for your sequence is 0.95 (see score help below)

   1  MNLLRRSGKRRRSESGSDSFSGSGGDSSASPQFLSGSVLSPPPGLGRCLK    50
  51  AAAAGECKPTVPDYERDKLLLANWGLPKAVLEKYHSFGVKKMFEWQAECL   100
 101  LLGQVLEGKNLVYSAPTSAGKTLVAELLILKRVLEMRKKALFILPFVSVA   150
 151  KEKKYYLQSLFQEVGIKVDGYMGSTSPSRHFSSLDIAVCTIERANGLINR   200
 201  LIEENKMDLLGMVVVDELHMLGDSHRGYLLELLLTKICYITRKSASCQAD   250
 251  LASSLSNAVQIVGMSATLPNLELVASWLNAELYHTDFRPVPLLESVKVGN   300
 301  SIYDSSMKLVREFEPMLQVKGDEDHVVSLCYETICDNHSVLLFCPSKKWC   350
 351  EKLADIIAREFYNLHHQAEGLVKPSECPPVILEQKELLEVMDQLRRLPSG   400
 401  LDSVLQKTVPWGVAFHHAGLTFEERDIIEGAFRQGLIRVLAATSTLSSGV   450
 451  NLPARRVIIRTPIFGGRPLDILTYKQMVGRAGRKGVDTVGESILICKNSE   500
 501  KSKGIALLQGSLKPVRSCLQRREGEEVTGSMIRAILEIIVGGVASTSQDM   550
 551  HTYAACTFLAASMKEGKQGIQRNQESVQLGAIEACVMWLLENEFIQSTEA   600
 601  SDGTEGKVYHPTHLGSATLSSSLSPADTLDIFADLQRAMKGFVLENDLHI   650
 651  LYLVTPMFEDWTTIDWYRFFCLWEKLPTSMKRVAELVGVEEGFLARCVKG   700
 701  KVVARTERQHRQMAIHKRFFTSLVLLDLISEVPLREINQKYGCNRGQIQS   750
 751  LQQSAAVYAGMITVFSNRLGWHNMELLLSQFQKRLTFGIQRELCDLVRVS   800
 801  LLNAQRARVLYASGFHTVADLARANIVEVEVILKNAVPFKSARKAVDEEE   850
 851  EAVEERRNMRTIWVTGRKGLTEREAAALIVEEARMILQQDLVEMGVQWNP   900
 901  CALLHSSTCSLTHSESEVKEHTFISQTKSSYKKLTSKNKSNTIFSDSYIK   950
 951  HSPNIVQDLNKSREHTSSFNCNFQNGNQEHQTCSIFRARKRASLDINKEK  1000
1001  PGASQNEGKTSDKKVVQTFSQKTKKAPLNFNSEKMSRSFRSWKRRKHLKR  1050
1051  SRDSSPLKDSGACRIHLQGQTLSNPSLCEDPFTLDEKKTEFRNSGPFAKN  1100
1101  VSLSGKEKDNKTSFPLQIKQNCSWNITLTNDNFVEHIVTGSQSKNVTCQA  1150
1151  TSVVSEKGRGVAVEAEKINEVLIQNGSKNQNVYMKHHDIHPINQYLRKQS  1200
1201  HEQTSTITKQKNIIERQMPCEAVSSYINRDSNVTINCERIKLNTEENKPS  1250
1251  HFQALGDDISRTVIPSEVLPSAGAFSKSEGQHENFLNISRLQEKTGTYTT  1300
1301  NKTKNNHVSDLGLVLCDFEDSFYLDTQSEKIIQQMATENAKLGAKDTNLA  1350
1351  AGIMQKSLVQQNSMNSFQKECHIPFPAEQHPLGATKIDHLDLKTVGTMKQ  1400
1401  SSDSHGVDILTPESPIFHSPILLEENGLFLKKNEVSVTDSQLNSFLQGYQ  1450
1451  TQETVKPVILLIPQKRTPTGVEGECLPVPETSLNMSDSLLFDSFSDDYLV  1500
1501  KEQLPDMQMKEPLPSEVTSNHFSDSLCLQEDLIKKSNVNENQDTHQQLTC  1550
1551  SNDESIIFSEMDSVQMVEALDNVDIFPVQEKNHTVVSPRALELSDPVLDE  1600
1601  HHQGDQDGGDQDERAEKSKLTGTRQNHSFIWSGASFDLSPGLQRILDKVS  1650
1651  SPLENEKLKSMTINFSSLNRKNTELNEEQEVISNLETKQVQGISFSSNNE  1700
1701  VKSKIEMLENNANHDETSSLLPRKESNIVDDNGLIPPTPIPTSASKLTFP  1750
1751  GILETPVNPWKTNNVLQPGESYLFGSPSDIKNHDLSPGSRNGFKDNSPIS  1800
1801  DTSFSLQLSQDGLQLTPASSSSESLSIIDVASDQNLFQTFIKEWRCKKRF  1850
1851  SISLACEKIRSLTSSKTATIGSRFKQASSPQEIPIRDDGFPIKGCDDTLV  1900
1901  VGLAVCWGGRDAYYFSLQKEQKHSEISASLVPPSLDPSLTLKDRMWYLQS  1950
1951  CLRKESDKECSVVIYDFIQSYKILLLSCGISLEQSYEDPKVACWLLDPDS  2000
2001  QEPTLHSIVTSFLPHELPLLEGMETSQGIQSLGLNAGSEHSGRYRASVES  2050
2051  ILIFNSMNQLNSLLQKENLQDVFRKVEMPSQYCLALLELNGIGFSTAECE  2100
2101  SQKHIMQAKLDAIETQAYQLAGHSFSFTSSDDIAEVLFLELKLPPNREMK  2150
2151  NQGSKKTLGSTRRGIDNGRKLRLGRQFSTSKDVLNKLKALHPLPGLILEW  2200
2201  RRITNAITKVVFPLQREKCLNPFLGMERIYPVSQSHTATGRITFTEPNIQ  2250
2251  NVPRDFEIKMPTLVGESPPSQAVGKGLLPMGRGKYKKGFSVNPRCQAQME  2300
2301  ERAADRGMPFSISMRHAFVPFPGGSILAADYSQLELRILAHLSHDRRLIQ  2350
2351  VLNTGADVFRSIAAEWKMIEPESVGDDLRQQAKQICYGIIYGMGAKSLGE  2400
2401  QMGIKENDAACYIDSFKSRYTGINQFMTETVKNCKRDGFVQTILGRRRYL  2450
2451  PGIKDNNPYRKAHAERQAINTIVQGSAADIVKIATVNIQKQLETFHSTFK  2500
2501  SHGHREGMLQSDQTGLSRKRKLQGMFCPIRGGFFILQLHDELLYEVAEED  2550
2551  VVQVAQIVKNEMESAVKLSVKLKVKVKIGASWGELKDFDV            2590

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.