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

NucPred

Fetching O14157 from www.uniprot.org...

The NucPred score for your sequence is 0.93 (see score help below)

   1  MSYLSKNGSNDNNNIIKKLVDAEKHCNAVKDASFDERTWIWIPDSKESFV    50
  51  KAWIVEDLGEKYRVKLERDGSERIVDGFDAEKVNPPKFDMVDDMAALTCL   100
 101  NEPSVVNNLTQRYEKDLIYTYSGLFLVAVNPYCHLPIYGDDVVRKYQSKQ   150
 151  FKETKPHIFGTADAAYRSLLERRINQSILVTGESGAGKTETTKKVIQYLT   200
 201  SVTDASTSDSQQLEKKILETNPVLEAFGNAQTVRNNNSSRFGKFIRIEFS   250
 251  NNGSIVGANLDWYLLEKSRVIHPSSNERNYHVFYQLLRGADGSLLESLFL   300
 301  DRYVDHYSYLKNGLKHINGVDDGKEFQKLCFGLRTLGFDNNEIHSLFLII   350
 351  ASILHIGNIEVASDRSGQARFPSLTQIDQLCHLLEIPVDGFVNAALHPKS   400
 401  KAGREWIVTARTREQVVHTLQSLAKGLYERNFAHLVKRLNQTMYYSQSEH   450
 451  DGFIGVLDIAGFEIFTFNSFEQLCINFTNEKLQQFFNHYMFVLEQEEYTQ   500
 501  ERIEWDFIDYGNDLQPTIDAIEKSEPIGIFSCLDEDCVMPMATDATFTEK   550
 551  LHLLFKGKSDIYRPKKFSSEGFVLKHYAGDVEYDTKDWLEKNKDPLNACL   600
 601  AALMFKSTNSHVSSLFDDYSSNASGRDNIEKKGIFRTVSQRHRRQLSSLM   650
 651  HQLEATQPHFVRCIIPNNLKQPHNLDKSLVLHQLRCNGVLEGIRIAQTGF   700
 701  PNKLFYTEFRARYGILSQSLKRGYVEAKKATITIINELKLPSTVYRLGET   750
 751  KVFFKASVLGSLEDRRNALLRVIFNSFSARIRGFLTRRRLYRFNHRQDAA   800
 801  ILLQHNLRQLKLLKPHPWWNLFLHLKPLLGTTQTDEYLRRKDALINNLQN   850
 851  QLESTKEVANELTITKERVLQLTNDLQEEQALAHEKDILVERANSRVEVV   900
 901  HERLSSLENQVTIADEKYEFLYAEKQSIEEDLANKQTEISYLSDLSSTLE   950
 951  KKLSSIKKDEQTISSKYKELEKDYLNIMADYQHSSQHLSNLEKAINEKNL  1000
1001  NIRELNEKLMRLDDELLLKQRSYDTKVQELREENASLKDQCRTYESQLAS  1050
1051  LVSKYSETESELNKKEAELVIFQKEITEYRDQLHKAFQNPEKTHNINDVK  1100
1101  SGPLNSDENIYSTSSTTLSILKDVQELKSLHTKEANQLSERIKEISEMLE  1150
1151  QSIATEEKLRRKNSELCDIIEALKYQIQDQETEIISLNADNLDLKDTNGV  1200
1201  LEKNASDFIDFQGIKSRYEHKISDLLNQLQKERCKVGLLKQKTENRSVTQ  1250
1251  HTLDGNSPHPSFEEKHSGDPLKRIDGNNDDRKIDNKLLKTISKSLDALQL  1300
1301  TVEEELSNLYSLSKDLSFTDISGHIPNSIRKLEKGLSTLSELKERLNASN  1350
1351  SDRPSPDIFKDTQAIMNSRKLLSNPNSDAQSGLISSLQKKLYNPESNMEF  1400
1401  TGLKPLSPSKISNLPSSQPGSPSKRSGKMEALIRNFDQNSSIPDPFIVNQ  1450
1451  RNSVLQTEFEKINLKLKEATKSGILDNKDLSKFSELIQSLLKENEELKNL  1500
1501  TTSNLGSDDKMLDFAPLLEDVPNNTRNQIKGFVEKAISSKRAIAKLYSAS  1550
1551  EEKLFSTEKALREITKERDRLLHGLQGPSVPTSPLKAPTASQLIIPNFDG  1600
1601  SITNYSGEEETEWLQEEVNIMKIKELTSTVNKYREQLAMVQSLNEHAESS  1650
1651  LSKAERSKNYLTGRLQEVEELARGFQTTNADLQNELADAVVKQKEYEVLY  1700
1701  VEKSNDYNTLLLQKEKLMKQIDEFHVIRVQDLEEREKKDQLLFQRYQKEL  1750
1751  NGFKVQLEEEREKNLRIRQDNRHMHAEIGDIRTKFDELVLEKTNLLKENS  1800
1801  ILQADLQSLSRVNNSSSTAQQNAQSQLLSLTAQLQEVREANQTLRKDQDT  1850
1851  LLRENRNLERKLHEVSEQLNKKFDSSARPFDEIEMEKEVLTLKSNLAQKD  1900
1901  DLLSSLVERIKQIEMFALKTQKDSNNHREENLQLHRQLGVLQKEKKDLEL  1950
1951  KLFDLDLKTYPISTSKDVRMLQKQISDLEASFAASDIERIKGIDECRNRD  2000
2001  RTIRQLEAQISKFDDDKKRIQSSVSRLEERNAQLRNQLEDVQASETQWKF  2050
2051  ALRRTEHALQEERERVKSLETDFDKYRSLLEGQRVKRSESRLSMRSNRSP  2100
2101  SVLR                                                2104

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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