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

NucPred

Fetching Q92797 from www.uniprot.org...

The NucPred score for your sequence is 0.83 (see score help below)

   1  MASGSGDSVTRRSVASQFFTQEEGPGIDGMTTSERVVDLLNQAALITNDS    50
  51  KITVLKQVQELIINKDPTLLDNFLDEIIAFQADKSIEVRKFVIGFIEEAC   100
 101  KRDIELLLKLIANLNMLLRDENVNVVKKAILTMTQLYKVALQWMVKSRVI   150
 151  SELQEACWDMVSAMAGDIILLLDSDNDGIRTHAIKFVEGLIVTLSPRMAD   200
 201  SEIPRRQEHDISLDRIPRDHPYIQYNVLWEEGKAALEQLLKFMVHPAISS   250
 251  INLTTALGSLANIARQRPMFMSEVIQAYETLHANLPPTLAKSQVSSVRKN   300
 301  LKLHLLSVLKHPASLEFQAQITTLLVDLGTPQAEIARNMPSSKDTRKRPR   350
 351  DDSDSTLKKMKLEPNLGEDDEDKDLEPGPSGTSKASAQISGQSDTDITAE   400
 401  FLQPLLTPDNVANLVLISMVYLPEAMPASFQAIYTPVESAGTEAQIKHLA   450
 451  RLMATQMTAAGLGPGVEQTKQCKEEPKEEKVVKTESVLIKRRLSAQGQAI   500
 501  SVVGSLSSMSPLEEEAPQAKRRPEPIIPVTQPRLAGAGGRKKIFRLSDVL   550
 551  KPLTDAQVEAMKLGAVKRILRAEKAVACSGAAQVRIKILASLVTQFNSGL   600
 601  KAEVLSFILEDVRARLDLAFAWLYQEYNAYLAAGASGSLDKYEDCLIRLL   650
 651  SGLQEKPDQKDGIFTKVVLEAPLITESALEVVRKYCEDESRTYLGMSTLR   700
 701  DLIFKRPSRQFQYLHVLLDLSSHEKDKVRSQALLFIKRMYEKEQLREYVE   750
 751  KFALNYLQLLVHPNPPSVLFGADKDTEVAAPWTEETVKQCLYLYLALLPQ   800
 801  NHKLIHELAAVYTEAIADIKRTVLRVIEQPIRGMGMNSPELLLLVENCPK   850
 851  GAETLVTRCLHSLTDKVPPSPELVKRVRDLYHKRLPDVRFLIPVLNGLEK   900
 901  KEVIQALPKLIKLNPIVVKEVFNRLLGTQHGEGNSALSPLNPGELLIALH   950
 951  NIDSVKCDMKSIIKATNLCFAERNVYTSEVLAVVMQQLMEQSPLPMLLMR  1000
1001  TVIQSLTMYPRLGGFVMNILSRLIMKQVWKYPKVWEGFIKCCQRTKPQSF  1050
1051  QVILQLPPQQLGAVFDKCPELREPLLAHVRSFTPHQQAHIPNSIMTILEA  1100
1101  SGKQEPEAKEAPAGPLEEDDLEPLTLAPAPAPRPPQDLIGLRLAQEKALK  1150
1151  RQLEEEQKLKPGGVGAPSSSSPSPSPSARPGPPPSEEAMDFREEGPECET  1200
1201  PGIFISMDDDSGLTEAALLDSSLEGPLPKETAAGGLTLKEERSPQTLAPV  1250
1251  GEDAMKTPSPAAEDAREPEAKGNS                            1274

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.)

Go back to the NucPred Home Page.