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

NucPred

Fetching Q13439 from www.uniprot.org...

The NucPred score for your sequence is 0.94 (see score help below)

   1  MFKKLKQKISEEQQQLQQALAPAQASSNSSTPTRMRSRTSSFTEQLDEGT    50
  51  PNRESGDTQSFAQKLQLRVPSVESLFRSPIKESLFRSSSKESLVRTSSRE   100
 101  SLNRLDLDSSTASFDPPSDMDSEAEDLVGNSDSLNKEQLIQRLRRMERSL   150
 151  SSYRGKYSELVTAYQMLQREKKKLQGILSQSQDKSLRRIAELREELQMDQ   200
 201  QAKKHLQEEFDASLEEKDQYISVLQTQVSLLKQRLRNGPMNVDVLKPLPQ   250
 251  LEPQAEVFTKEENPESDGEPVVEDGTSVKTLETLQQRVKRQENLLKRCKE   300
 301  TIQSHKEQCTLLTSEKEALQEQLDERLQELEKIKDLHMAEKTKLITQLRD   350
 351  AKNLIEQLEQDKGMVIAETKRQMHETLEMKEEEIAQLRSRIKQMTTQGEE   400
 401  LREQKEKSERAAFEELEKALSTAQKTEEARRKLKAEMDEQIKTIEKTSEE   450
 451  ERISLQQELSRVKQEVVDVMKKSSEEQIAKLQKLHEKELARKEQELTKKL   500
 501  QTREREFQEQMKVALEKSQSEYLKISQEKEQQESLALEELELQKKAILTE   550
 551  SENKLRDLQQEAETYRTRILELESSLEKSLQENKNQSKDLAVHLEAEKNK   600
 601  HNKEITVMVEKHKTELESLKHQQDALWTEKLQVLKQQYQTEMEKLREKCE   650
 651  QEKETLLKDKEIIFQAHIEEMNEKTLEKLDVKQTELESLSSELSEVLKAR   700
 701  HKLEEELSVLKDQTDKMKQELEAKMDEQKNHHQQQVDSIIKEHEVSIQRT   750
 751  EKALKDQINQLELLLKERDKHLKEHQAHVENLEADIKRSEGELQQASAKL   800
 801  DVFQSYQSATHEQTKAYEEQLAQLQQKLLDLETERILLTKQVAEVEAQKK   850
 851  DVCTELDAHKIQVQDLMQQLEKQNSEMEQKVKSLTQVYESKLEDGNKEQE   900
 901  QTKQILVEKENMILQMREGQKKEIEILTQKLSAKEDSIHILNEEYETKFK   950
 951  NQEKKMEKVKQKAKEMQETLKKKLLDQEAKLKKELENTALELSQKEKQFN  1000
1001  AKMLEMAQANSAGISDAVSRLETNQKEQIESLTEVHRRELNDVISIWEKK  1050
1051  LNQQAEELQEIHEIQLQEKEQEVAELKQKILLFGCEKEEMNKEITWLKEE  1100
1101  GVKQDTTLNELQEQLKQKSAHVNSLAQDETKLKAHLEKLEVDLNKSLKEN  1150
1151  TFLQEQLVELKMLAEEDKRKVSELTSKLKTTDEEFQSLKSSHEKSNKSLE  1200
1201  DKSLEFKKLSEELAIQLDICCKKTEALLEAKTNELINISSSKTNAILSRI  1250
1251  SHCQHRTTKVKEALLIKTCTVSELEAQLRQLTEEQNTLNISFQQATHQLE  1300
1301  EKENQIKSMKADIESLVTEKEALQKEGGNQQQAASEKESCITQLKKELSE  1350
1351  NINAVTLMKEELKEKKVEISSLSKQLTDLNVQLQNSISLSEKEAAISSLR  1400
1401  KQYDEEKCELLDQVQDLSFKVDTLSKEKISALEQVDDWSNKFSEWKKKAQ  1450
1451  SRFTQHQNTVKELQIQLELKSKEAYEKDEQINLLKEELDQQNKRFDCLKG  1500
1501  EMEDDKSKMEKKESNLETELKSQTARIMELEDHITQKTIEIESLNEVLKN  1550
1551  YNQQKDIEHKELVQKLQHFQELGEEKDNRVKEAEEKILTLENQVYSMKAE  1600
1601  LETKKKELEHVNLSVKSKEEELKALEDRLESESAAKLAELKRKAEQKIAA  1650
1651  IKKQLLSQMEEKEEQYKKGTESHLSELNTKLQEREREVHILEEKLKSVES  1700
1701  SQSETLIVPRSAKNVAAYTEQEEADSQGCVQKTYEEKISVLQRNLTEKEK  1750
1751  LLQRVGQEKEETVSSHFEMRCQYQERLIKLEHAEAKQHEDQSMIGHLQEE  1800
1801  LEEKNKKYSLIVAQHVEKEGGKNNIQAKQNLENVFDDVQKTLQEKELTCQ  1850
1851  ILEQKIKELDSCLVRQKEVHRVEMEELTSKYEKLQALQQMDGRNKPTELL  1900
1901  EENTEEKSKSHLVQPKLLSNMEAQHNDLEFKLAGAEREKQKLGKEIVRLQ  1950
1951  KDLRMLRKEHQQELEILKKEYDQEREEKIKQEQEDLELKHNSTLKQLMRE  2000
2001  FNTQLAQKEQELEMTIKETINKAQEVEAELLESHQEETNQLLKKIAEKDD  2050
2051  DLKRTAKRYEEILDAREEEMTAKVRDLQTQLEELQKKYQQKLEQEENPGN  2100
2101  DNVTIMELQTQLAQKTTLISDSKLKEQEFREQIHNLEDRLKKYEKNVYAT  2150
2151  TVGTPYKGGNLYHTDVSLFGEPTEFEYLRKVLFEYMMGRETKTMAKVITT  2200
2201  VLKFPDDQTQKILEREDARLMFTSPRSGIF                      2230

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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