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

NucPred

Fetching Q8WHW9 from www.uniprot.org...

The NucPred score for your sequence is 0.98 (see score help below)

   1  MNKELIQINLPANIQNFKEIDLSLYYLRFWYKLNIRKTIVRIWTNRNNLI    50
  51  KLFDFQILSSFILRNLHSSRSQKKIFPLKYLFIITIPLFLYRINSRTLLQ   100
 101  RENLVLTKLVNTTVRSSGVIQGISRESYTDLCYLPARVRKLPVCNTTNCT   150
 151  DIEWWKDWIVKDILPSWKISQRLINEVEMLLREKNISNLRHFFELYTFIF   200
 201  ANHSSLAWRYDFNSFFVRKQNDRMNCDLGQQSDFLEKNHFFSSVMIAFCE   250
 251  KILFEAEDLSNKQEYKSNLDLIHSRFWIYTNQYHYMNLSQPLIVHYIRHL   300
 301  KDFRVREIFLNLFEDFVEFYSWAYYSANFSTWQRYEEKLGIIKDLVRQAL   350
 351  ISSDTVSSFDNTTAIQSLFAEILSQFSVYLLSRVQTSGQLTGLRIEKLRN   400
 401  MDLKMSKRDLFQNIGIITKNEDPKVFVSESSISNFTNDSYWSLNYYKYYL   450
 451  FNKWNWKQLLVPVESKMNIRYQTMGYPFSDTNYSIEYEKAYEAIGETAKS   500
 501  FIETLSPRDKRTLVNRNSKSISLSIVKPFHSNLWNKDMLPLHEHSLSVKS   550
 551  ISEKIKLLEKQQYIDLRDDNFSDIFQIVDIWGRSRHYHSSRYCEVDNFLL   600
 601  RKRIGRAKSHVHELSSLISSIVNLPSSIFERAIKLCSSHQYLQFKILLLP   650
 651  RLNKIYLLLTKPNLGFVEIIKNDHCNNEEPDSVEDETILVKNTSINNIES   700
 701  FTKPNEMTDVEFDSTTNLLTKENIDYVQDTIKNDLFLMWNNMKDIMNISP   750
 751  ISFLIKIDKHNDLTSLCSQYIVYIYQYVFIKSGGYLSKLRSQIKPWVNND   800
 801  YFCCLMKQTIDRDLPNWENSLNRLNELIIQIDQIYVNVHNNLSIIEDWED   850
 851  WDYFSNYVYLDPIYEKLNFFFNRLIGNILFEDKKAIKYYSKSLLLTDEVI   900
 901  SNTLETLETFLPHLKYIKNFLFNHSSILEQFWHNRSDISRDLGSQVSNKL   950
 951  VLLLAHSKIPSNSIFSNIAKNGNILIEDLAYREIDKQNNWFNCFNARNRI  1000
1001  PLKHSFDEKNAIFFLEHFANPQLNYNERLYFPKRKIFIKGYNRAYADIII  1050
1051  NDLPRLINGFRSFIRRKGFCLEGTNFFQIKSHLFNKIPNKEYPHSILTQT  1100
1101  IQILHRFYLIKEFGSSIQLKSLSTEQVNLFDLQERFLNSSSIRKQLVNIG  1150
1151  VSDYWQPLLDSDPTNDFHLMNISTKDQLNQNGGSGSIIDEKSYHNDYLYS  1200
1201  KFFGNLEEYDMLFRLKIPELSIHFIPDDSKIESLEKHIEFNQDIKNIYVD  1250
1251  KNIFRSNLLMRFNERLRVINILELLRVSTIAKKWLFFHEYIPWFFTIEWW  1300
1301  KYINSAVPNTFSETLLNISDQWISNLYYITNNIKNSITYLWVNLEFKLKA  1350
1351  YSFDNKIYRFDSSIGVIYKEGCSSLRWSPLRLMSDSNVLYLTLIIPLLFS  1400
1401  YIVFQHYLSIFTGFHSFSLWKRFEVFNYFLDPFNKIYIEKVLSFFPPARQ  1450
1451  KSIKPSLVDYLKRFFIYLTYGSSKRKVDVLLSYGKSLDIFREENNLVVHY  1500
1501  LITNRILSQDGFHFHLNSNNMLNSNIKEFSSKLGLNYLQYLANIYKTNLS  1550
1551  NFPISQLDLVERCLFFTFWQNIISPGIPGQFHILQNTPIPLQLGSSFPSK  1600
1601  GILLIGSMETGRSYLIKSLAANYCLPLIQIPINKLLDKKVHFESKSVVLF  1650
1651  PGESVRRLTLTFELVKRMSPCIVWIQDIHELNLDRVMNELEVDPKYLFCS  1700
1701  LLKCLSNNSSNYYVRNNIIIAPTHIPSKVDPSFISPNRLDQLINIRRLNI  1750
1751  HQREREFLALLRVKGFYYKGDLSHLGELGSITRGYSKRDLTVLANGVLLL  1800
1801  SITQKESFVCQNSMELALHRQVRALDNKSKNGLRYEMLFYRIGKAIIQNS  1850
1851  LINMPYIDSLSINPKLLRKRFSFLSNWYLETSLAESTVKELTLLPYIMGC  1900
1901  LAGIAARDSWFILERKQESLVTLDRISENDIQLAFGILESLLADFSGLEI  1950
1951  CGKNDHNSLLQQTNKQYFNRIQKVLFSENDETILKENTKSINPYLSGANR  2000
2001  YFFLARSSCLSRISFLRSSIYESMELSSESNTSYKMKESNENLVQHTERD  2050
2051  LDSTKKDQDQILKGKDEFAGYRRILRDYRERPIYTTLENQLDHLDQLDNA  2100
2101  SLLDPFLKSNMDKSFMQYEMQYYPSDKLVLFLGRRFIWNMAGSSFIRDNA  2150
2151  AFQRNKLFAEGDEVKRLYIAYGAIKERRKRLSFNKYIKKIDSQESSQNLI  2200
2201  TKQEKRHFENVRTNQMIKSYFGIPRLLPTVYLYQSIFIENTQDRYNHLNL  2250
2251  LNYRHSLSSSREGLIYMILLESYHYLLNLFLSNRIILEKMAIILLKNTLI  2300
2301  SSKEVEQILSKLK                                       2313

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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