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

NucPred

Fetching Q9W5U3 from www.uniprot.org...

The NucPred score for your sequence is 0.63 (see score help below)

   1  MHPYVPSVLVVVVLAISVKAHIRVDKLQIHSESNYKPAFIRSAVESIPLD    50
  51  IDAILLLRNSTKPEFGDAFLPLRSAVESIPKLYQSNTSRFRKNPDVRSFV   100
 101  RDSVESLPNDEDGLEHIEIFTKYYNSVSDVAGVDLKSKKLTHVNLDPGTI   150
 151  SDKYAAFIARGNSEDYYPKSYRAGSPHQELLKMMNIEHTDKLDRYSDLQH   200
 201  QQSYGALGLANRNDLKMTKKVLCYMSNWAFYRSGEAHFVPEQIDPNLCSA   250
 251  IIYSFASLDPDHLTIREFDSWVDLDNQYYRRVTSLGVPVLIALGGWTDSS   300
 301  GSKYSRLVSDNLKRRVFISSVSSFLLRHGFSGLHLDWNYPKCWQSDCSRG   350
 351  PVTDRPNLTKLLRELRTEFQSVDPKFQLGVAISGYKEIIKEAYDFPALSD   400
 401  IVDYMTVMTYDYHGAWEQKTGHVSPLYGLSSDTYPQYNTNYTMQLLLKMG   450
 451  ARREKLVLSIPFYGQSFTLATAHQILAGPGVAASGPGDAGELTKQPGMLA   500
 501  YYEICQRLTKFNWISDRNLNVIFGPFAMLNDQWVGYEDPTSAQAKARYAA   550
 551  NNNFAGVAAWTIDLDDFRNLCCNESYPLLRAINRALGRLDSEPPTQPNCK   600
 601  RPTLLATPVPPQMTTISSDGSGGLGQNHDHTTSLPSGQISSSPVSTTITS   650
 651  TFPWWSSTTKRPREPTKTTAQPTHTTILIPAGINPVVQPSNCKSGEFFAD   700
 701  SNNCNAYYHCFFAGELQQQFCPSGLHWNNEAKGCDWPSSAQCSLKLDQHL   750
 751  STSYPNPIQTSKKPETTLKPNKKPSEISTHHQVNSTSSRPQYMRPTILEC   800
 801  TEGDYYPHRNCRKYYICVNKALVPSECGGDLHWDGIKKLCDWPENVQCVT   850
 851  SKKYLKIIKSSSANEEDPCKGEKRVPYPGNCSKYLFCLWNRLQASDCPPG   900
 901  LHYNERIGNCDWPAAAKCNPKGSESSEEAELNAMPKPPTPQTPSSHLRPT   950
 951  YPTEKPVPKPRDSHYKVICYFTNWAWYRKGIGRFTPDDINTELCTHVIYG  1000
1001  FAVLDYSELVLRTHDSWADVENNFYTRVTSLKSKGIKVSLALGGWNDSQG  1050
1051  DKYSRLVRSPMARSRFVRHALEFIEKYGFEGLDLDWEYPVCWQTECNKGS  1100
1101  TEEKDGFTAWVQELSEAFRPRGLMLSTAVSPSRKIIDAGYDIPQLSRYFD  1150
1151  WIAVMTYDFHGHWDKKTGHVAPLYHHPDDDFEYFNVNYSINYWMEKGAPS  1200
1201  QKLVMGIPLYGQSFTLENTNSSGLNAKAPAPGEAGEFTRAAGFLAYYEIC  1250
1251  ERVNRQGWQVVHDEFGRMGPYAYKGTQWVSYDSPDMVRKKSLLVRSLKLG  1300
1301  GGMVWALDLDDFKNRCGNGVHPLLTEIHNVLKDPPSLMEIPGPIETTPTE  1350
1351  YPGMEEEIHESNGEGPEVQPIEAVMQTCENEGEEHEGILDPNHVLEEENI  1400
1401  EATEMATEFKIICYFTNWAWYRQGGGKFLPEDIDSDLCTHIIYGFAVLSR  1450
1451  DNLTIQPHDSWADLDNKFYERIVAYRKKGAKVTVAIGGWNDSAGDKYSRL  1500
1501  VRNPEARSRFIRNVLDFIEEYNFDGLDLDWEYPVCWQVDCKKGTAEEKIG  1550
1551  FSALVRELFYAFQPRGLILSAAVSPNKKVIDAGYEVAELSHYFSWISVMA  1600
1601  YDYHGQWDKKTGHVAPMYSHPEGTANFNANFSMNYWISMGADRRKLVMGI  1650
1651  PLYGQSFSLAETTKHQLNAPTYGGGEAGEATRARGFLAYYEICLKIRHHR  1700
1701  WNVVRDTKGRIGPFAYHGDQWVSFDDVPMIRHKSEYIKAMGLGGAMIWAL  1750
1751  DLDDFKNVCECESYPLLKAINRVLRGFGGPQPKCLLENPKSTMKPNIKPP  1800
1801  FRPTINAPSGPNLDSPTQNVSLNVLSIKCHSKNYLAHEWDCTKYYICEHG  1850
1851  TYVERSCPLGLQWNKTYCDWPTNVQSSLGSNQRTQEPAVHRPNPTSVITE  1900
1901  PPIINNSYKVVCYFTSWAWYRSSQGKFVPEDIDANLCTHLIYGFAVLDSK  1950
1951  SLTIKTHDSWTDIDNRFYERVVEYKQRGLRVMLAIGGWNDSLGSKYARLV  2000
2001  LNSQSRRRFVASVISFLEQHGFEGLDLAWEFPVCWQVNCNRGNPTEKDGF  2050
2051  VALVKELSEAFKENGLILSAAVSPSKMVIDAGYNVFELSPYFDWVAVMTY  2100
2101  DFHGHWDMRTGQIAPLFHRGGDENLYLNGNFSIHYWLERGIPNDKLVMGM  2150
2151  PMYGQTFTLADQNRRSLNDKTVGPGKAGTFTRADGFLAYYEICEKVVNDD  2200
2201  WKVVRDEEGIFGSYAYSGNQWISYDDVTTIRRKSQFIKSLQLGGGMIWAL  2250
2251  DLDDFRGLCGCGKHPLLRTLSQELLGIPGQKAKDCI                2286

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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