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

NucPred

Fetching P61241 from www.uniprot.org...

The NucPred score for your sequence is 0.98 (see score help below)

   1  MKGHQLKSWIFELREILREIKNSHYFLDSWTKLNLVGSFTHIFFHQERFM    50
  51  KLFDPRIWSILLSCDSQSSTSNRYFTIKGVVLLVVAVLIYRINNRNMVER   100
 101  KNLYLMRLLPIPMNSIGPRNDTLEESFLSSNINRLIVSLLYLPKGKKISE   150
 151  SCFMDPKESTWLLPITKKCIMPESNWGSRWWRNRIGKKRDSSCKISNETV   200
 201  AGIEISFKEKDIKYLEFLFVSYTDTDDPIRKDHDLELFDRLSPGKKQNII   250
 251  NLNSGQLFEILVKHLICYLMSAFREKRPIEVEGFFKQQGAEATIQSNDIE   300
 301  HVPRLFSGNKNKWGISLQNCAQFHMWQFHQDLFVSWGKNQHESDFLRNVS   350
 351  RENLIWLGSMWLVNKDRFFSKVRNVSSNIQYDSTRSIFVKVTDSSQLKGS   400
 401  SDQSRDHFNSISNEDSEYHTLIHQTEIEQLKERSILWDPSFLQTERTEIE   450
 451  SDRFPKCLSGYFSMSRLFTEREKQMNNHLFPEEIEEFIGNPTRSIRSFFS   500
 501  DRWSELHLGSNATERSTRDQKLLKKQQDVSFVPSRRSENKEMVDIFKIIT   550
 551  YLQNTVSIHPISSDPGCDMVPKDEPDMDSSNKISFLNKNPFCDLFHLFHG   600
 601  RNKGGYTLHHDFESEERFQERADLFTLSITEPDLMYHKGFAFSIDSYGLD   650
 651  QKKLLNEVFNSRDESKKKSLLVLPHIFYEENESFYRRIRTKSVRISCRNG   700
 701  LEDPKIVVFASNNIMEAVNQYRLIRNLIQIQYSTYGYIRNVSKRFFLMNR   750
 751  SDRNFEYGIQRDQIGNDTLNHITIMKYTINQHLSNLKKSQKKWFDPLISR   800
 801  TERSMNRDPNAYRYKWSNGSKNFQEHLEHFVSEQKNRFQVVFDRLRINQH   850
 851  SIDWSEVIDKQDLSKSLRFFLSKSLLFLSKSLPFFFVSIGNIPIHRSEIH   900
 901  IYELKGPNDQLCNQLLESIGVQIVHLNKLKPFLLDDHDTSQRSKLLINGG   950
 951  TIARFWFNKIPKWMIDSFHTRNNRGKSFENTDSYFSMISHDRDNWLNPVK  1000
1001  PFHRSSLISSFYKANQLRFLNNPHHFWFYCNKRFPFYAEKTRINNYDLTY  1050
1051  GQFLNISFIRNKIFSLCVGKKKHVFLERDTISPSPIESQVSDIFIPNDFP  1100
1101  QSGDETYNLYKSFHFPTRSDPFVRRAIYSIADISGTPLTEEQRVNFEGTY  1150
1151  CQPLSDLNLSDSEGKNLHQYLSFNSNMGLIHTPCSEKYLPSGKRKKRNLC  1200
1201  LNKCVEKRQMYRTFQRDSAFSNISKWNLFQTYMPWFLTSTGCKYINFILL  1250
1251  DTFSDPLPILSSSHKFVSIFHDIMHGSAWSIPQKKLRAILPQWNLISEIS  1300
1301  SKCLQNLLLSEEMIHRNNESPVPLIWTHLRSPNPREFFYSSLFLLLVAGY  1350
1351  LVRTHLLFVSRVSSELHTELEKIKSLMIPSYMMELRKLLDSYPPPELNSF  1400
1401  WLKNLFLVALEQLGDSPEEIRGSDSGGNMLLGGGPAYGVKSIRSKKKDLN  1450
1451  INLIDIIDLISIIPNPVNPITFSINTRRLSRTSKEIYSLIRKRKNVNSDW  1500
1501  IDGKIESWVANSDLIDDEEREFLVQFSALTTEKRIDQILWSLTHSDPFSK  1550
1551  NDSGYQMIEQPGSIYLRYLVDIHKKYLMNSEFNRSCLAERRIFLAHYQTI  1600
1601  TYSQTSCGANSSHFPSHGKPFSLRLDLSPSRGILVIGSIGTGRSYLVKYL  1650
1651  ATNSYLPSITVSPNKFLDDKPKGYLIDDIDDSDDIDLDDSNSIDDSDDVD  1700
1701  IGDSDDIDIDDDLDAELLTMTNVLTMYMTPKMDRFDITPQLELAKAMSPC  1750
1751  IIWIPNIHDLYVNESNYLSLGLLVNHLSRDCERCSTRNILVIASTHIPQK  1800
1801  VDPALIAPNKSNTCIKIRRLLIPQQRKHFFILSYTRGFHLEKKMFHTNGF  1850
1851  GSITMGSNARDLVALTNEALSISITQKKSIIDTNTIRSALHRQTWDLRSQ  1900
1901  VRSVQDHGILFYQIGRSFAQNVLLSNCSIDPISTYMKKKSCKEGDSYLYK  1950
1951  WYFELGTSIKKLTTLLYLLSCSAGSVAQDLWSPPGPDEKNWITSYGFVEN  2000
2001  DSDLVHGLLEGALVGSSRTEKDCSQFDNDRVTLLLRSEPRNPLDMMQNGS  2050
2051  CSIVDQRFLYEKYESEFEEGEGEGTLDPQQIEEDLFNHIVWAPRIWRPCG  2100
2101  NLFDCIERPNESRFPYRSRSFRGKQIISHKEDELQENDLEFLQSGTMQYQ  2150
2151  TRDRSSKEQGFFQISQFIWDPADPFFFLFKDQPFVSVFARREFFADEEMS  2200
2201  KGLITSQTHSPTSIYERWLIKNTQEKHFELLIHRQRWLSTNSSLSNGSFR  2250
2251  SNTPSESYQYLSNLFLSNGTLLDQMAKTLLRKRWLFPDEMKHLIHVTGER  2300
2301  FPIP                                                2304

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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