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

NucPred

Fetching Q91437 from www.uniprot.org...

The NucPred score for your sequence is 0.24 (see score help below)

   1  MATLFLDDGSSFKGRLFGASSTVSGEVVFQTGMVGYPEALTDPSYLSQIL    50
  51  VLTYPLIGNYGIPKDEEDEHGLSKWFESAKIHAAALVIGENSQNPSHWSS   100
 101  VRSLDQRLKEHGIPALEGIDTRSLTKKIREKGTLLGKLVIDGTDENSLPY   150
 151  DDPNKRHLVKEVSIKEPKVYHPSGNVKIMAVDCGMKYNQIRSLCKRGAAV   200
 201  TVVPWDYLFDSNEFDGLFISNGPGDPEYCQQTINNVKKAISEEKPKPLFG   250
 251  ICLGHQILSLAIGAKTYKMKYGNRGHNQPCIHEGTQRCFYTSQNHGFAVE   300
 301  PCSLPRDWSVLFTNANDQSNEGIIHNSKPLFSVQFHPEHKAGPTDLVDLF   350
 351  DIFLECARDVKLGVNLDKTVKGRVISHYSFKNGTENSKTPPGRIQPHKVL   400
 401  ILGSGGLSIGQAGEFDYSGSQAIKALKEENVQSVLINPNIATVQTSKGLA   450
 451  DKVYFLPITPEYVTQVIMNERPDGILLTFGGQTALNCGVELQKRGVLEKY   500
 501  HVRVLGTPVSSIEMTEDRKIFVEKMAEINEYVVPSEAAFTLEQAQGAAER   550
 551  LGYPVLVRAAFALGGLGSGFAQNKEELVTLVTQAFAHTSQILVDKSLKGW   600
 601  KEIEYEVVRDAYDNCITVCNMENVDPLGIHTGESIVVAPSQTLNDKEYNL   650
 651  LRTTAIKVIRHLGVVGECNIQYALSPESEQYFIIEVNARLSRSSALASKA   700
 701  TGYPLAYVAAKLALGIPLPVLRNSVTNSTTANYEPSLDYCVVKVPRWDLS   750
 751  KFLRLSTKIGSSMKSVGEVMAIGRNFEEAFQKALRMVDENCVGFDHTLKP   800
 801  ASDEELETPTDKRIFVLAAALRAGYEIDRLYELTKIDKWFLHKMKNIVEY   850
 851  SLKLSELYMKDEVPRHDLLKVKRLGFSDKQIAMAIQSTELAVRRLRQEWK   900
 901  ILPVVKQIDTVAAEWPAQTNYLYLTYNGEGHDLDFTKPHVMVIGSGVYRI   950
 951  GSSVEFDWCAVRCIQQLRKMGYKTRMVNYNPETVSTDYDMCDRLYFDEIS  1000
1001  FEVVMDIYELENPEGIILSMGGQLPNNIAMDLHRQQCRILGTSPESIDTA  1050
1051  ENRFKFSRMLDTIGISQPRWKELSDTESSKQFCTKVGYPCLIRPSYVLSG  1100
1101  VAMNVAYSDNDLEKFLSSAVAVSKEHPVVISKFIQEAKEIDVDAVACDGV  1150
1151  VIAVAISEHVENAGVHSGDATLVTPPQDLNQKTTERIKAIVHAIGQELQA  1200
1201  TGPFNLQLIAKDDQLKVIECNVRVSRSFPFVSKTLGVDMIALATKVIMGE  1250
1251  EVEPVGLMTGTGVVGVKVPQFSFSRLAGADVVLGVEMTSTGEVACFGENR  1300
1301  YEAYLKAMLSTGFKIPKKNILLSIGSYKNKSELLSTVQSLEQLGYNLYAS  1350
1351  LGTADFYTEHGVKIKAVDWPFEDTDNGCPLKERHRNIMDYLEENHFDLVI  1400
1401  NLSMRNSGGRRLSSFVTKGYRTRRLAVDYSVPLIIDIKCTKLFVEALRLV  1450
1451  GDTPPVKTHIDSMSSHKLIRLPGLIDVHVHLREPGGTHKEDFASGTAAAL  1500
1501  AGGVTMVCAMPNTNPAITDQTSFALVQKLATAGARCDFALFLGASSDNAD  1550
1551  VLPLISNSAAGLKMYLNDTFSTLKMDNVSLWMEHFEKWPKHLPIVVHAER  1600
1601  QTVAAILMVAQLYQRPVHICHVARKEEIQIIRAAKQKGVQVTCEVAPHHL  1650
1651  FLNEEDLESIGHGKGQVRPMLSTKEDVNALWENLDVIDCFATDHAPHSVE  1700
1701  EKNSDSPPPGYPGLETMLPLLLTAVSEGRLTIDDLVKRLYENPRKIFSLP  1750
1751  VQENTYVEVDLEQEWIIPSYMQFTKSKWTPFEGKKVKGRVRRVVLRGEVA  1800
1801  YIDGQVLVPPGYGQDVRAWPLGVPLPPPPTTVKTPEHSKPTQTETVRTRT  1850
1851  ASPRRLASSGPAVDARFHLPPRIHRCSDPGLPNAEGEYKEKPVKKFIEQD  1900
1901  TVSQDGYIYPPPVSRLLSPQNLAAQAVPHPYSLLLHPFVGQHILSVKRFT  1950
1951  KDQLSHLFNVAHNLRLTVQKDRSLDILKGKVMASMFYEVSTRTSSSFRAA  2000
2001  MHRLGGSVIHFSEATSSVQKGESLLDSVQTMSCYVDVVVLRHPEPGAVEL  2050
2051  AAKHSRKPIINAGDGVGEHPTQALLDIFTIREELGTVNGMTITMVGDLKH  2100
2101  GRTVHSLAYLLTLYRVNLRYVTPRNLRMPPNIIRFLASRGIKQEEFDSLE  2150
2151  EALPDTDVLYMTRIQKERFASEEEYEACFGQFILTPHIMTKGKKKMVVMH  2200
2201  PLPRVNEVSVEVDSDPRAAYFRQAENGMYVRMALLATVLGKF          2242

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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