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

NucPred

Fetching Q3V4Z0 from www.uniprot.org...

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

   1  MKRHQFRFWIFELREILREIKNSPHFLDSWTKFDSVRSLIHIFFHQERLM    50
  51  KLFDPRIWSILLSRDSQGSTSNRYFIIKGLVLLVVAVLISRINNRNMVER   100
 101  KNLYLRGLLPIPMNSIGPGNETLEESFWSSDINRLIVLLLYLPKGKKTSE   150
 151  SCFMDPKESLWLFPINKINQKCIMPESNRGSRWWRNRIGKKRDSSCKIST   200
 201  KTVAGIEISSKEKDLKYLEFLFLSYTDDPIRKDRFFSKVQNVSSNIQYDS   250
 251  TRSIFVQVTDFSQSKGSSDQSRDHFDSISKEDSEYHTLIDQTEIPQLKGR   300
 301  SIPGDPSFLQTERTEIESDRFPKCLSGSSPMSPLFPEHEKQMIIHRLPEE   350
 351  IDEFLGNPTRSIRSFFSDRWSELHMGSNPTDRSTRDQKWLKKQQDVSFVS   400
 401  SRRSENKEMVDIFKIITYLQNTVSIHPISSDPGCDMVPKDEPDMDSSNKI   450
 451  SFLNKNPFFDLFHLFHDRNKGGYTLHHDFESEERFQEMADLFTLSITEPD   500
 501  LVYHRGFAFSIDSCGLDQKKLVNGKEKTKDESKKKSLLVLPPLFYEENAF   550
 551  FYRSIRKKPVWIHCGNDLFASNNIMEAVNQYRLIRNLIQIQYSAYGYIRN   600
 601  VLNRFFLMNRSDRNFEYGIQRDQIGNDTLNHITIMKYTINQHLSNLKKSQ   650
 651  KKWFDPLISRTERSMNRDPNAYRYKWSNGSKNFQEHLEHFVSEQKNRFQV   700
 701  VFDQLRINQYSINWSEAIDKQDLSKSLRFFLSKSLLFLSKPLRFFLSKSL   750
 751  PLFFVSIGNSPIHRSEIHIYELKGPNEPLCNQLLKSIGVQIIHLHKLKPD   800
 801  HDTSQRSKFLINGGTISPFLFNKIPKWMIDSFHTRKNRSKSFANTDSYFS   850
 851  MISHDRDNWLNPVKPFHRSSLISSFYKANQLRFLNNPHHFWFYCNKRFPF   900
 901  YVEKTRINNYDRTYGQFLNILFIRNKIFSLCVGKKKHLLPIYSQVSDIFI   950
 951  PNDFPQSGDETYNLYKSFRFPIRPDPFVRRALYSIADISGTPLTEEQIVN  1000
1001  FERTYCQPLSDMNLSDSEGKNLHQYLSFNSNIGLIHTPCSEKNLPYVKRK  1050
1051  KQSLYLRKKRSLYLKKCVEKGQMYRTSQQRDSAFSKWNLFQTYMPWFLTS  1100
1101  TGCKYLTSVLLDIFSDRLSILSSSPKLVSILNSIMHRSDISRLIKKWWTI  1150
1151  LPQWNLISEISSKCLQNLLLSEEMIHRNNESPVSMILTHLRSTNAREFLY  1200
1201  SILFLLLVAGYLVRTHLLFVSRVSNELQTELEKIKSLMIPSYMIELQKLL  1250
1251  YRYPTSTSKSESESESEYEYELNSFLLNNLFALEQLDWNIDLISIISNTI  1300
1301  TFSRNTRHLSRTSKEIYSLIRERKNVNSDWIEDRVESWVTINDLIDEDER  1350
1351  DLAVQFSTLTTEKRIDQILWSLTHSHPVSKNDLDYQIIEQPGLISLRYLV  1400
1401  DIHKKDLMNYEFNGSCLAEKRIFLANYRTITYSQTPSRGKPFSLRLDLSP  1450
1451  SRGILVIGSIGTGRSHLVKYLATNSYVPFITVFPDRGLSDRPIYCFMDED  1500
1501  TDPDEDYDYIDDDIDIDSDNFDTELETIADVVTMDNMLLKVIRFDILGQF  1550
1551  ELAKTMSPCIIWIPNIHDLYLNESNYLSLGLLTNFLSSLYGDCETTRNIL  1600
1601  VFASTHLPQLVDPVLIDPKKFNTCIKIRRLLSPQQRKHFFNLLYTRGFHS  1650
1651  ENKMFHANGFGSITMGSNARDLVALTNEVLSISITQKKSILETNTIRLAL  1700
1701  HRQTWDLRSHVRSVPDHGILFYQIGRAVAQNVLLSNCCTDPISIYMKKKS  1750
1751  CNEGFSYLYKWYYELGTSMKKLTILLYLLSCSAGSVAQDLWSPPGPDENS  1800
1801  WITSDRFVENDSDLVDSLLEIEGALVGSWLLRSEPRNPLDMMQKRSCSIF  1850
1851  KKDESEFAEGEGALALDPQEMLFYNQIVWAPRLWRPPCGKLFDCIEYSQE  1900
1901  DDDDWEFWQSGTKYYWMRDSEGGQGFWVSQLKKFLWNPEAADPFLFLFKD  1950
1951  QPFVSDSDFSSYHQPFSNFLVELMPPFKASSVSLYKGWVNKKLQEMCLEY  2000
2001  LSDRERWLRTNSSLSHGSFRSNTLSESYQYLANLFLSNATLLDQMTKTLL  2050
2051  RKRWLFPDEMKDLIHGTGGGTELTGR                          2076

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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