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

NucPred

Fetching Q75DB8 from www.uniprot.org...

The NucPred score for your sequence is 0.84 (see score help below)

   1  MDGQTRYLDELVGALRAERAQGRAGGYAGEFPPREGGGRARRVARTVVAK    50
  51  LADAEVADAAFWRACEALDLVFTGRPMVLAEALDEEAGVLWAVRSCWRVA   100
 101  AVHFGRRERGWALRRASSRWVRLCADLYGQRWRARVGAELDRELCAGEAA   150
 151  VRAVLGGGQEAGEHMRALRALCVAAEWAVSREFWFVTGGAERVGLRLQRL   200
 201  ARLARYIGDAVELPLAEYEEVQVRLLGVSVQAYLEPDRPGLGELRFALEQ   250
 251  LQYFVRGKHLRREFAAWSRLLLRLYVRCRSDRAALLLVREVLVLDAAELP   300
 301  EAATDAQRSLQLVRYDLERQFAADHALRWDPALRAKLLAAGTPPVILEPF   350
 351  TSNRQLEKLRLRVLCDFQVGDSALLVHQFSAAGVPLGADPVALYTHLDEG   400
 401  IARAFGRQDTEAQVRYLSLVRKLACLESRKPSPGFDCDLCDHTNLWLPRE   450
 451  SIDPSRPEAASDSLAFKLLVGYYLREQLESSGEALVIGILITLRSIFTHF   500
 501  QPPKLVENHYGDMVDEHGCIQLFRMAFMSLNRHVRILSVLLIPYWNLSRS   550
 551  YNADEQQTALIIKFLQRNPDPHITETYLMAWTQLTLSTSGELFDSLLLKL   600
 601  IDIFNSSNFVEHVVMASQLKFIARVLNKTAYQLLSPILPILLKQIGKNLG   650
 651  EKKLSLERLLNLLEYSAKTVIENFQRYIVPYALTQYKGDALTEIAKIMCQ   700
 701  NNEPSMVSEQKKRLLDRNSRQIFAVALVKHGLFSLETIETLFINNDPTFD   750
 751  RSYVAGFLPDYKTLAEVLKLFKPVEKVDSPMNDNERAVLSSLRFLFLTNF   800
 801  SVDKHRGSKFKNVTEWTQEKEAVFQKKLKDNILGIFQVFSSDMHDIEGKT   850
 851  TYFEKLRVISGISFLIKYASKECIISALAQVSICLQTGLEIPEMRYNTLR   900
 901  CWLHLVKYLSEEELSTVIDVLICFILQKWDEFSGKIQQAAIDILDALILE   950
 951  KQTLLTNSRPYIVLAFLNKSELHIFENHGFFARTASKLLKNTNWVSVFVS  1000
1001  NLKSHNIYVIKQTLQDIRLFLEKKQDAGIDIKLISKDGKNISELLGALLD  1050
1051  TSHKYRNSDLIICETCALCISMIGVLDVTKHELQRCNVYDNDICDFNNPT  1100
1101  QTTKFLINIINERLVPSFWQSENPTKQLFVALVIQESLKYCGLSASSWDV  1150
1151  TKPDLYPNESKLWNRFNDISKTTLYPLLSSLYLAQSWKEYVPLSYPSFKV  1200
1201  KDGYSTWIKNLSLDLLKTATESSHPLHVFSSLIREDDGTLSDYLLPYIIM  1250
1251  DIIIKAESGTKYFDYLQNVIKDFEYIFNYTLYDLNHYQIDGLKMCYDSIF  1300
1301  RVFEYCKKWVNQFRQNYSKQHGTFTIREEKYTRMLNRAGKFADIIPSHVL  1350
1351  AQKSLETNSFERSALYLEQSYREKSSNGLQDDKLLPYLQTTYAEINDIDA  1400
1401  VVGVLKVFCSNNLTSRIEELQYSDNWKMAQDCFDALGDSLLNEQGGVENS  1450
1451  VPTSRMLKLMYDHQLYDQTLKKLELNIPSKKRQLPLNLDEFYNMGIETAS  1500
1501  LSGNITELKIWIRRIEQLETLTDPSILLHYNLAKSLLAVLEGKTDMIETH  1550
1551  SKYCYRLIGSHFTTPSHSTTLLKRRNLFIKLHGIRDNSILSKCSTDIQFN  1600
1601  RSVRNLAVRFKNVGSDFEPNFYLLSMRKSHNLMRSEEFVKQDLADTYFKM  1650
1651  AQLARENDRLDIASDCLMHALKLEHTEAELEYAEILWKQGEKELALKTVA  1700
1701  EIHQKRKGIKTLKDRDRAKVLLKYTEWLDLSNNATSVQISHQYKEVIGLD  1750
1751  KDWDEPYYSFGLYYSRLLEKKRADGFVTTGSLEYKAITYFLSAFEKNTVK  1800
1801  VREALPKVITFWLDTASRSVESGSSEGEYHFKRYTKEICKCIDVAIQNCP  1850
1851  THIWYTVLTQLLSRLLHKHTDSATLIMNILLKLTLEYPSIMLWYITVLLN  1900
1901  SQENKRVHAGKQIMDAIKKRMPDKSSLISSAISLVQAMTRVCIKDVKNMS  1950
1951  SRSGKSLQNDFKFDINLAPSEMVVPVNINLANLSPSYADTSGKHGSSKRV  2000
2001  TINCFTPHYKVYSSLKKPKKINIIGSDGELYGIMCKKEDVRQDNQYMQFA  2050
2051  NMMVFLLGKDSESRRRSLNITTYAILSLREDCGLIEIVPNVDTIRSILMA  2100
2101  KYDSMKIKYTLSVLYEKWKSVSEEQRLGFYKSCTDTFPPVLYQWFLETFP  2150
2151  NPIRWYNARNAFVRSYAVMAMVGHILGLGDRHLENILLDLQTGKVLHVDF  2200
2201  DCLFEKGKTLPVPEIVPFRLTQNIQDAFGVTGTEGTFKKSSEVTVRVMRN  2250
2251  NELALVNIIETIMYDRNMDHSIQNALRVLRNKVRGIDPRDDLPLSVPGQV  2300
2301  DTVVQQASSDENLAQMYIGWLPFW                            2324

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.