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

NucPred

Fetching Q871L5 from www.uniprot.org...

The NucPred score for your sequence is 0.42 (see score help below)

   1  MSFFYRSFANSLLPKQLLRFILARLDLLDSQALDLDNLNFALGRNTVLEF    50
  51  RDVGLILSKLEALTNLPPTFKIQKAKVLLLRITIPVDIYNSPIIVEVEGV   100
 101  DTRIRVASKQEQDEQTAKNKKGTHKDGDEVVPTAADLAQSFLQTEIPTDE   150
 151  QRRLEKALAEEAQEALSESMSDSETDDDGSFATFGTGQGLSLPTFLTNFL   200
 201  QGILDRLQIRIHKVTFQLDMQVPVEPGLSTIELVTFQLALDEVIAEGVTA   250
 251  PGQQKDGSPAIVPREGKRHILLDNLRAFLITEANVFSSLLPTQSAQSLVK   300
 301  PQGPAPHDVPSTLRDMSGSMQSSVGGLDMSISPDQMEALDMLAQSQYEVR   350
 351  DSEDALNIPYESDTQYPEAEENVAGSSPLSTPRASMYQEHDTPMLQDHAN   400
 401  SAIMQHQPELWSSYERGIRSEPSLHPPTSFQPQTMPSGAVSPAPSEPSSS   450
 451  ASSVRSDDDTPSADTEDLAQSHLYSHEEAESMYMSAFSDAHSTLMPGAYM   500
 501  PGGWGAESEGGESASERDLSTTHPVAGEPQSSTPVVSELASPTPIPEQNP   550
 551  TAQGYEPQHEDTSTPRGITRMVKEIVSLDSISVYVPSTRKQVLAPVTNLA   600
 601  KSNPNLPGAFSVHQSFHSSTTDQSTLLTPENLKEDRQDYAIEIVLKPLTL   650
 651  RFDSSVGFLLAMVVTRLLEAFKGSSDEGAEVKPSSTESILPDIKVCLEQV   700
 701  TMQFLEELTGVADSAKRIYETQKPNFGSDVLLEASLTNLNAFTHQSGSQT   750
 751  EVNVSIEKFAFGYADEAIVSFTGEADLFQSTATVDMLSVGKDIAVKATIT   800
 801  PDVTRVDVKTLPLYLKLDLQRLDETFSWFGGLSGFLNMGASEDSVAKAVQ   850
 851  IPAKPPQKTRGVRFETPIDPMEKRSGSKIDVRINGVHVDVIGKDCRAVLN   900
 901  TSALKLVHREEAIAAVLKTIRLSGPYVRNSHARAPVVLELDSTRLDYILT   950
 951  PRTRDLERLLELITPSKVKFDEDEDEIMVDTLLRQRRKGGVLGLEVKNFK  1000
1001  VRAGNLALLDCIPSLVDDLAKLGTVAKYLPEDDRPGLLTLGQVTNVDCEV  1050
1051  DVGGRFGVVNARLTNLELAQITVPSLVAVAVGVVTVNRNENSPIEEELVS  1100
1101  TSTAHAPGSSKAPVLMMRMIDDIEPVLKIKLFGLNVDYRVPTIMDVLGLI  1150
1151  QEETTPEEFEANLAASVANLGGQATAALRRQDTPESPVVDKEFKPIKLDV  1200
1201  AFRDCVVGLNPLGQDSKLAIVLADSHLEAIPGKDSTLDATATLKKACILL  1250
1251  IDDVKTLQDVQINARGRAPAMSTPQALELCSKGFVSICEMSSAKAVVKVG  1300
1301  KDENGESHVEVSVRDDLLVLETCADSTQTLISLANALTPPTPPSKEIKYR  1350
1351  TSVLPVEDLFASITPDAFGRAEGEYDFDDDFAGAQGIECGNEDDDDYYGI  1400
1401  GSTEHLEIQSEGYGVAEELFDATNSSLLGDIEVENTNDGMLVSTANLDVP  1450
1451  PVSSQSESDLDIQENYFSSEPVKNTTLRWNSRKNLYDQSSDAQVFKSPLV  1500
1501  ICVRDVHVIWNLYDGYDWVRTREIITKAVQDVEAKAYERKARADRHTYED  1550
1551  EGDEESVVDDCLFNSIYIAVGPNGDPSNLRRAINQELQYQDTTTETESVA  1600
1601  TTAFTTSTVRASGHRQSRPRGKTLKLSRSKNHKITFELKGVNIDVVTFPP  1650
1651  GNETINTIDVRIHDLDVFDHIRTSTWKKFAMYDIDAGERELSKHMVHLEV  1700
1701  LNVKPVPDLPATELVVKVNILPLRLHVDQDALDFITRFFEFKDETQPIHQ  1750
1751  SSSDVPFIQRCEVGDVPVRLDFKPKRVDYAGLRSGHTTEFMNFVILEDSR  1800
1801  LVLRHVILYGVSGFDKLGKKLNDIWTADVKSTQLPGVLAGVAPVRSLVNA  1850
1851  GSGFKDLIEIPIREYKKDGRIFRSIGKGATAFAKTTGTEVVKLGAKLAIG  1900
1901  TQYALQGAEGMLAKNPPNYNHAGPSSSSAGVPAGVDYEVWDEEDFGDHHT  1950
1951  PKAISLYADQPLGIMQGMRGAYASLSRDIAIARDAIIAVPTEVMESSSAQ  2000
2001  GAAKAVLMQAPTILFRPAIGVSKAIGQTLLGATNALDPNHRKRIEAKYKK  2050
2051  H                                                   2051

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.