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

NucPred

Fetching Q9BZC7 from www.uniprot.org...

The NucPred score for your sequence is 0.48 (see score help below)

   1  MGFLHQLQLLLWKNVTLKRRSPWVLAFEIFIPLVLFFILLGLRQKKPTIS    50
  51  VKEAFYTAAPLTSAGILPVMQSLCPDGQRDEFGFLQYANSTVTQLLERLD   100
 101  RVVEEGNLFDPARPSLGSELEALRQHLEALSAGPGTSGSHLDRSTVSSFS   150
 151  LDSVARNPQELWRFLTQNLSLPNSTAQALLAARVDPPEVYHLLFGPSSAL   200
 201  DSQSGLHKGQEPWSRLGGNPLFRMEELLLAPALLEQLTCTPGSGELGRIL   250
 251  TVPESQKGALQGYRDAVCSGQAAARARRFSGLSAELRNQLDVAKVSQQLG   300
 301  LDAPNGSDSSPQAPPPRRLQALLGDLLDAQKVLQDVDVLSALALLLPQGA   350
 351  CTGRTPGPPASGAGGAANGTGAGAVMGPNATAEEGAPSAAALATPDTLQG   400
 401  QCSAFVQLWAGLQPILCGNNRTIEPEALRRGNMSSLGFTSKEQRNLGLLV   450
 451  HLMTSNPKILYAPAGSEVDRVILKANETFAFVGNVTHYAQVWLNISAEIR   500
 501  SFLEQGRLQQHLRWLQQYVAELRLHPEALNLSLDELPPALRQDNFSLPSG   550
 551  MALLQQLDTIDNAACGWIQFMSKVSVDIFKGFPDEESIVNYTLNQAYQDN   600
 601  VTVFASVIFQTRKDGSLPPHVHYKIRQNSSFTEKTNEIRRAYWRPGPNTG   650
 651  GRFYFLYGFVWIQDMMERAIIDTFVGHDVVEPGSYVQMFPYPCYTRDDFL   700
 701  FVIEHMMPLCMVISWVYSVAMTIQHIVAEKEHRLKEVMKTMGLNNAVHWV   750
 751  AWFITGFVQLSISVTALTAILKYGQVLMHSHVVIIWLFLAVYAVATIMFC   800
 801  FLVSVLYSKAKLASACGGIIYFLSYVPYMYVAIREEVAHDKITAFEKCIA   850
 851  SLMSTTAFGLGSKYFALYEVAGVGIQWHTFSQSPVEGDDFNLLLAVTMLM   900
 901  VDAVVYGILTWYIEAVHPGMYGLPRPWYFPLQKSYWLGSGRTEAWEWSWP   950
 951  WARTPRLSVMEEDQACAMESRRFEETRGMEEEPTHLPLVVCVDKLTKVYK  1000
1001  DDKKLALNKLSLNLYENQVVSFLGHNGAGKTTTMSILTGLFPPTSGSATI  1050
1051  YGHDIRTEMDEIRKNLGMCPQHNVLFDRLTVEEHLWFYSRLKSMAQEEIR  1100
1101  REMDKMIEDLELSNKRHSLVQTLSGGMKRKLSVAIAFVGGSRAIILDEPT  1150
1151  AGVDPYARRAIWDLILKYKPGRTILLSTHHMDEADLLGDRIAIISHGKLK  1200
1201  CCGSPLFLKGTYGDGYRLTLVKRPAEPGGPQEPGLASSPPGRAPLSSCSE  1250
1251  LQVSQFIRKHVASCLLVSDTSTELSYILPSEAAKKGAFERLFQHLERSLD  1300
1301  ALHLSSFGLMDTTLEEVFLKVSEEDQSLENSEADVKESRKDVLPGAEGPA  1350
1351  SGEGHAGNLARCSELTQSQASLQSASSVGSARGDEGAGYTDVYGDYRPLF  1400
1401  DNPQDPDNVSLQEVEAEALSRVGQGSRKLDGGWLKVRQFHGLLVKRFHCA  1450
1451  RRNSKALFSQILLPAFFVCVAMTVALSVPEIGDLPPLVLSPSQYHNYTQP  1500
1501  RGNFIPYANEERREYRLRLSPDASPQQLVSTFRLPSGVGATCVLKSPANG  1550
1551  SLGPTLNLSSGESRLLAARFFDSMCLESFTQGLPLSNFVPPPPSPAPSDS  1600
1601  PASPDEDLQAWNVSLPPTAGPEMWTSAPSLPRLVREPVRCTCSAQGTGFS  1650
1651  CPSSVGGHPPQMRVVTGDILTDITGHNVSEYLLFTSDRFRLHRYGAITFG  1700
1701  NVLKSIPASFGTRAPPMVRKIAVRRAAQVFYNNKGYHSMPTYLNSLNNAI  1750
1751  LRANLPKSKGNPAAYGITVTNHPMNKTSASLSLDYLLQGTDVVIAIFIIV  1800
1801  AMSFVPASFVVFLVAEKSTKAKHLQFVSGCNPIIYWLANYVWDMLNYLVP  1850
1851  ATCCVIILFVFDLPAYTSPTNFPAVLSLFLLYGWSITPIMYPASFWFEVP  1900
1901  SSAYVFLIVINLFIGITATVATFLLQLFEHDKDLKVVNSYLKSCFLIFPN  1950
1951  YNLGHGLMEMAYNEYINEYYAKIGQFDKMKSPFEWDIVTRGLVAMAVEGV  2000
2001  VGFLLTIMCQYNFLRRPQRMPVSTKPVEDDVDVASERQRVLRGDADNDMV  2050
2051  KIENLTKVYKSRKIGRILAVDRLCLGVRPGECFGLLGVNGAGKTSTFKML  2100
2101  TGDESTTGGEAFVNGHSVLKELLQVQQSLGYCPQCDALFDELTAREHLQL  2150
2151  YTRLRGISWKDEARVVKWALEKLELTKYADKPAGTYSGGNKRKLSTAIAL  2200
2201  IGYPAFIFLDEPTTGMDPKARRFLWNLILDLIKTGRSVVLTSHSMEECEA  2250
2251  LCTRLAIMVNGRLRCLGSIQHLKNRFGDGYMITVRTKSSQSVKDVVRFFN  2300
2301  RNFPEAMLKERHHTKVQYQLKSEHISLAQVFSKMEQVSGVLGIEDYSVSQ  2350
2351  TTLDNVFVNFAKKQSDNLEQQETEPPSALQSPLGCLLSLLRPRSAPTELR  2400
2401  ALVADEPEDLDTEDEGLISFEEERAQLSFNTDTLC                 2435

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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