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

NucPred

Fetching Q9XZC0 from www.uniprot.org...

The NucPred score for your sequence is 0.51 (see score help below)

   1  VSIFIFHFSANILVRNSEMKGKRVISKREMSKADQCTFLSYQSVAYGTLG    50
  51  DVAGDVSSIEGADLVATPIAAGGHLAKGATDAAMIAMDCSSIPFDEIKQQ   100
 101  LNQRFNEVDKKLQKGAEALENVTELAEKTYSSVEKMRVEMREGFNHVIAT   150
 151  IENANTKQIITGINQIIQYFNDERENINNRQKEDYVAKLQEPASGNFLLY   200
 201  LRKSRTSEDGSLHSLLFKIINQELAIPNNAADNNAIRALFALFYGTQTFI   250
 251  SIMFYLVKQYSYLADYHYQNGNLAEFNSNFDHMKTVFQDFKFTLIGINTS   300
 301  NSKPLVNTVLSIIEDVKNKRFIRNLRSNLYQKIIKSTKSLLDLREKITKM   350
 351  DLPIIEDTPKSSVLINFREKSSSVPRIETPILKWTPGTVVKYAIQYEQDG   400
 401  KYSKISKWSNPITVQRLANPYITIDKDRRNRLVFRQFGNEKPELISILDS   450
 451  SQNEFRDIHRDLYNAAQMPYKETALGICRKLIDSGAQVGASFEMGRKSIH   500
 501  ASATAGNDDVARLLLAKNNGLLNVPDKNGYTPLHIASERKNNDFVKFLLE   550
 551  KGADVNVRTFANELTPLHLAARQDFTIIVKTLMEKRGIDVNAKERAGFTP   600
 601  LHLSITSNSRAARTLINETPAGINIKSNSGLTPLHLAVLQNNLSAAKVLV   650
 651  KSNKKVKLNEMDNNGMTPLHYASMLGNLEFVKYFTSEQGIDVNAKTKVKN   700
 701  WTPLHLAILFKKFDVAQSLLQVRNIDISTRADQAITPLHLAAATGNSQIV   750
 751  KTILNSGAVVDQETANGFTALHLAIMNPNTETPQFLIAKGANINAKTNDG   800
 801  STPLHFAAALGKTNIFQLLMDKGANIKAENLINQMPIHEAVVNGHLAIVK   850
 851  MLIEQDSSLMNAKNMRDEYPFYLAAEKRYKDVFNYLESKGADVNEKNNDG   900
 901  NTLLHLFSINGEVEVVQFLIQNGADFRLRNKERKSFFDLAVEFGHAGIVG   950
 951  YAIEENKVDLQEPYRGKTILYHAICDSVKYDRIEVVRYFVETLNEDQCSP  1000
1001  LQEAAAYAHLDLVKYFVQERGINPTAFNNDNQVSPLCIAIVGAPCGFVKS  1050
1051  CDTPERLDVVEYLVDKTPDINKECDTQQSTPVSSAVYGNKVSILNYLIRN  1100
1101  GADPNKKVRGDPPLFIAAMIGQYDIVKSLVEQHKIDVNTRNKEQFTPLHA  1150
1151  AASNDHIDVVKYLIQKGADVNAKGDENLKPIDLAGEKSKAYLRSLGRRFF  1200
1201  RNESPSKSFEIDKFNAIMPEVSMSGKVSHDSNFIQHISSGTRSKSNFNSA  1250
1251  KNKMYAENSHVRSIDVNGALLLLDFMVRVFSNRKMNYAASISGIKSRSNS  1300
1301  EAQAEALILTERFEHLLNALIADQSIDSLDFSNVHSRIYKAIINGNPNGI  1350
1351  SEMLCSYAKEYSELDPEKIEKLLQEFETLTFTKSSEIQINEKFSHALFET  1400
1401  CGLNRPTNVLQIK                                       1413

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.