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

NucPred

Fetching P56786 from www.uniprot.org...

The NucPred score for your sequence is 1.00 (see score help below)

   1  MKGHQFKSWIFELREIVREIKNAHYFLDSWTQFNSVGSFIHIFFHQERFR    50
  51  KLLDPRIFSILLLRNSQGSTSNRYFTIKGVVLFVVAALLYRINNRNMVES   100
 101  KNLYLKGLLPIPMNSIGPRNDTSEESFGSCNINRLIVSLLYLTKGKKISE   150
 151  SCFRDPKESTWVLPITQKCIMPESNWSSRWWRNWIGKKRGFCCKISNETV   200
 201  AGIDISFKEKDIKYLEFLFVYYMDDPIRKGHDWELFDRLSPSKRRNIINL   250
 251  NSGQLFEILVKDWICYLMFAFREKIPIEVEGFCKQQGAGSTIQSNDIEHV   300
 301  SHLFSRNKWAISLQNCAQFHMWQFHQDLFVSWGKNPHESDFFRKISRENW   350
 351  IWLDNVWLVNKDRFFSKVRNVSSNIQYDSTRSSFVQVTDSSQLNGSSDQF   400
 401  IDPFDSISNEDSEYHYHTLINQREIQQLKERSILLDPSFIQTEGREIESD   450
 451  RFPKYLSGYSSMPRLFTEREKRMNNHLLPEESEEFLGNPTRAIRSFFSDR   500
 501  WSELHLGSNPTERSTRDQKLLKKEQDVSFVPSRRSENKEIVNIFKIITYL   550
 551  QNTVSIHPISSDLGCDMVPKDELDMDSSNKISFLNKNPFFDLFHLFHERK   600
 601  RGGYTLRHESEERFQEMADLFTLSITEPDLVYHKGFAFSIDSYGLDQRQF   650
 651  LKEVFNFRDESKKKSLLVLPPIFYEENESFYRRLRKIWVRISCGNYLEDQ   700
 701  KRVVFASNNIMEAVNQYRLIRNMIQIQFQYSPYGYIRNVLNRFFLMKRPD   750
 751  RNFEYGIQRDLIGNDTLNHRTIMKDTINQHLSNLKKSQKKWFDPLIFLSQ   800
 801  TERSINRDPNAYRYKWSNGSKNFQEHLEHFVSERKSRFQVVFDQLCINQY   850
 851  SIDWSEVIDKKDLSKSLRFFLSKLLRFFLSKLLLFLSKLLLFLSNSLPFF   900
 901  FVSFENIPIHRSEIHIYELKGPNDQLCNQLLESIGLQIVHLKKLKPFLLD   950
 951  DHNTSQKSKFLINGGTISPFLFNKIPKWMIDSFHTRKNRRKSFDNTDSAY  1000
1001  FSIVSHDQDNWLNPVKPFQRSSLISSFSKANRLRFLNNPHHFCFYCNKRF  1050
1051  PFYVEKARLNNSDFTFTYGQFLTILFIHNKTFSSCGGKKKHAFLERDTIS  1100
1101  PSSIESQVSNIFISNDFPQSGDERYNLYKSFHFPIRSDPLVRRAIYSIAD  1150
1151  ISGTPLIEGQRVNFERTYCQTLSDMNLSDSEEKSLHQYLNFNSNMGLIHT  1200
1201  PCSEKYLQRKKRSLCLKKCVDKGQMDRTFQRDSAFSTLSKWNLFQTYMPW  1250
1251  FFTSTGYKYLNLIFLDTFSDLLRILSSSQKFVSIFHDIMHGLDISWRILQ  1300
1301  KKLCLPQRNLISEISSKSLHNLLLSEEMIHRNNESSLISTHLRSPNVREV  1350
1351  LYSILFLLLVAGYIVRTHLLFVSRAYSELQTEFEKIKSLMIPSYMIELRK  1400
1401  LLDRYPTSELNSFWLKNLFLVALEQLGDCLEEIRGSGGNMLWGGDPAYGV  1450
1451  KSIRSKKKDLKINFIDIIDLISIIPNPINRITFSRNTRHLSHTSKEIYSL  1500
1501  IRKRKNVSGDWIDDKIESWVANSDSIDDKEREFLVQFSTLRAEKRIDQIL  1550
1551  LSLTHSDHLSKNDSGYQMIEQPGTIYLRYLVDIHKKYLMNYEFNTSCLAE  1600
1601  RRIFLAHYQTITYSQTSCGANSFHFPSHGKPFSLRLALSPSRSILVIGSI  1650
1651  GTGRSYLVKYLATNSYVPFITVFLNKFLDNKPKGFFIDDIDIDDSDDIDA  1700
1701  SNDIDRELDTELELLTMMNALTMDMMLEIDRFYITLQFELAKAMSPCIIW  1750
1751  IPNIHDLDVNESSYLALGLLVNSLSRDCERCSTRNILVIASTHIPQKVDP  1800
1801  ALIAPNKLNTCIKIRRLLIPQQRKHFFTLSYTRGFHLEKKMFHTNGFESI  1850
1851  TMGSSARDLVALTNEALSISITQKKSIIDTNTIRSALHRQTWDLRSQVRS  1900
1901  VQDHGILFYQIGRAVAQNVLISNCPIDPISIYMKKKSCNEGDSYLYKWYF  1950
1951  ELGTSMKKFTILLYLLSCSAGSVAQDLWSLPVPDEKNRITSYGFVENDSD  2000
2001  LVHGLLEVQGALVGSSRTEKDCSQFDNDRVTLLFRSEPRDPLYMMQDGSC  2050
2051  SIVDQRFLYEKYESEFEEGEGEGVLDPQQIEEDLFNHIVWAPRIWRPRGF  2100
2101  LFDCIERPNELGFPYSAGSFRGKRIIYDEKYELQENDSEFLQSGTMQYQR  2150
2151  RDRSSKEQGFFRISQFIWDPADPLFFLFKDQPFVSVFSHREFFADEEMSK  2200
2201  GLLTSQTDPPTSIYKRWFIKNTQEKHFELLIQRQRWLRTNSSLSNGFFRS  2250
2251  NTRSESYQYLSNLFISNGTLLDRMTKTLLKKRWLFSDEMKIGFM        2294

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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