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

NucPred

Fetching Q8CJF7 from www.uniprot.org...

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

   1  MQDLTAQVTSDLLHFPEVTIEALGEDEITLESVLRGKFAAGKNGLACLAC    50
  51  GPQLEVVNSLTGERLSAYRFSGVNEQPPVVLAVKEFSWHKRTGLLIGLEE   100
 101  ADGSVLCLYDLGISRVVKAVVLPGRVTAIEPIINHGGASASTQHLHPSLR   150
 151  WLFGVAAVVTDVGQILLIDLCLDDLSCSQNEVEASDLEVITGIPAEVPHI   200
 201  RERVMREGRHLCFQLVSPLGVAISTLSYINRTNQLAVGFSDGYLALWNMK   250
 251  SMKREYYTQLEGGRVPVHAVAFQEPENDPRNCCYLWAVQSTQDSEGDVLS   300
 301  LHLLQLAFGDRKCLASGQILYEGLEYCEERYTLDLAGGTFPLRGQTSNTK   350
 351  LLGCQSIERFPSHGDREESMREALSPDTSVSVFTWQVNIYGQGKPSVYLG   400
 401  LFDINRWYHAQMPDSLRSGESLHNCSYFALWSLDSVVSRTSPHHILDILV   450
 451  HERSLNRGVPPSYPPPEQFFNPSTFNFDATCLLDSGVIHVTCAGFQKETL   500
 501  TFLKKSGPTLNEVIPDSYNRCLVAGLLSPRLIDIQPSSLSQEEQLEAILS   550
 551  AAIQTSSLGLLTGYIRTWIIEEQPNSAANLRFVLEWTWNKVVLTKEEFDR   600
 601  LCVPLFDGSCRFIDPQTIQSIQQCHLLLSNLSTVLSCFAMEAQGITERGL   650
 651  VDLSNKHMVTQLLCQYAHMVLWFCHSGLLPEGLDDALQLSRLRYNYPVIQ   700
 701  NYYTSRRQKSERSPRGKWNHDCLMIDGLVSQLGDEVEKLWKRDEGGTGRY   750
 751  PPASIHALLDIYLLDNITEASKHAITIYLLLDIMYSFPNKTDTPIESFPT   800
 801  AFAISWGQVKLVQGFWLLDHNDYENGLDLLFHPVTAKPASWQHSKIIEAF   850
 851  MSQGEHKQALRYLQTMKPTVSSSNEVILHLTVLLFNRCMVEAWNLLRQNS   900
 901  NRVNIEELLKHAYEVCQEMGLMEDLLKLPFTNTEQECLVKFLQSSTSVEN   950
 951  HEFLLVHHLQRANYISALKLNQILKNNLMSDRDPRLRERSVTRNSILDQY  1000
1001  GKILPRVQRKLAVERAKPYHLSTSSVFHEVSRPKPLSAFPKKAITGTVLT  1050
1051  RSTFISNVLSKIGEVWASHEPRNGVSLFNSPKTEQPSPVVHSFPHPELPE  1100
1101  AFVGTPISNTSQRISRLLDLVVHPVPQPSQCLEFIQQSPTRSPLCLLSSS  1150
1151  LPLSSQFKRPHQNTSRPSELLLLETPLIVKKAKSLALSATSSGFAEFTPP  1200
1201  SILRSGFRTTPLASPSLSPGRSLTPPFRVKETRISFMEEGMNTHWTDRAT  1250
1251  DDRNTKAFVSTSFHKCGLPAETEWMKTSDKNTYFPLDVPAKGPQKVVAES  1300
1301  LATHSGRLEKLDVSKEDSTASTRSDQTSLEYHDAPSPEDLEGAVFVSPKP  1350
1351  ASSSTELTTNSTLQTERDNDKDAFKSEGAPSPVKKQIGTGDAAVEAFSEL  1400
1401  SRLDPVERAEASFAVSSVCEGETSTSNSKTSVLDGIVPIESRTSILTADH  1450
1451  KESVANTVADVESSGSTSSKCPVTSERSLGQKLTLNLKEDEIEAHVPKEN  1500
1501  VGLPEESPRISAAPSDTHEIHLIGCENLEVQNSEEEAKNLSFDELYPLGA  1550
1551  EKLEYNLSTIEQQFCDLPDDKDSAECDAAEVDGELFVAQSNFTLILEGEE  1600
1601  GEAEASDSAAPNMLPKATKEKPVCHREPHNQERVTDLPSAVTADQESHKV  1650
1651  ETLPYVPEPVKVAIAENLLDVIKDTRSKEATPVAAGEAGDEDGAVIVSKA  1700
1701  AHSSRLTNSTPKTVKEPHAETVNTSQNDDMVSSRTLTRRQHALSLNVTSE  1750
1751  QEPSAVATPKKRTRKIKETPESSERTCSDLKVAPENQLTAQSPPAPRRGK  1800
1801  KKDVSQGTLPSSGAVEPEPEPQGTPGRLRLRTQPPEPAAEETPSRTKVRL  1850
1851  SSVRKGTPRRLKKSVENGQSTEILDDLKGSEAASHDGTVTELRNANLEDT  1900
1901  QNMEYKQDEHSDQQLPLKRKRVREREVSVSSVTEEPKLDSSQLPLQTGLD  1950
1951  VPATPRKRGRPRKVVPLEADGGTTGKEQTSPQKKDVPVVRRSTRNTPARN  2000
2001  VSTLEKSVLVPNKEAALVVTSKRRPTKKSAEESSKDPSAAVSDLAGGAAH  2050
2051  TESADRRDGLLAAAALTPSAQGTRTRSRRTMLLTDISEPKTEPLFPPPSV  2100
2101  KVPKKKSKAENMEAAAQLKELVSDLSSQFVVSPPALRTRQKSISNTSKLL  2150
2151  GELESDPKPLEIIEQKPKRSRTVKTRASRNTGKGSSWSPPPVEIKLVSPL  2200
2201  ASPVDEIKTGKPRKTAEIAGKTLGRGRKKPSSFPKQILRRKML         2243

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.