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

NucPred

Fetching Q8WYP5 from www.uniprot.org...

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

   1  MRDLRAQVTSGLLPFPEVTLQALGEDEITLESVLRGKFAAGKNGLACLAC    50
  51  GPQLEVVNSITGERLSAYRFSGVNEQPPVVLAVKEFSWQKRTGLLIGLEE   100
 101  TEGSVLCLYDLGISKVVKAVVLPGRVTAIEPIINHGGASASTQHLHPSLR   150
 151  WLFGVAAVVTDVGQILLVDLCLDDLSCNQNEVEASDLEVLTGIPAEVPHI   200
 201  RESVMRQGRHLCFQLVSPTGTAVSTLSYISRTNQLAVGFSDGYLALWNMK   250
 251  SMKREYYIQLESGQVPVYAVTFQEPENDPRNCCYLWAVQSTQDSEGDVLS   300
 301  LHLLQLAFGNRKCLASGQILYEGLEYCEERYTLDLTGGMFPLRGQTSNTK   350
 351  LLGCQSIEKFRSHGDREEGVNEALSPDTSVSVFTWQVNIYGQGKPSVYLG   400
 401  LFDINRWYHAQMPDSLRSGEYLHNCSYFALWSLESVVSRTSPHGILDILV   450
 451  HERSLNRGVPPSYPPPEQFFNPSTYNFDATCLLNSGVVHLTCTGFQKETL   500
 501  TFLKKSGPSLNELIPDGYNRCLVAGLLSPRFVDVQPSSLSQEEQLEAILS   550
 551  AAIQTSSLGLLTGYIRRWITEEQPNSATNLRFVLEWTWNKVVLTKEEFDR   600
 601  LCVPLFDGSCHFMDPQTIQSIQQCYLLLSNLNIVLSCFASEAREITERGL   650
 651  IDLSNKFVVSHLICQYAQVVLWFSHSGLLPEGIDDSVQLSRLCYNYPVIQ   700
 701  NYYTSRRQKFERLSRGKWNPDCLMIDGLVSQLGERIEKLWKRDEGGTGKY   750
 751  PPASLHAVLDMYLLDGVTEAAKHSITIYLLLDIMYSFPNKTDTPIESFPT   800
 801  VFAISWGQVKLIQGFWLIDHNDYESGLDLLFHPATAKPLSWQHSKIIQAF   850
 851  MSQGEHRQALRYIQTMKPTVSSGNDVILHLTVLLFNRCMVEAWNFLRQHC   900
 901  NRLNIEELLKHMYEVCQEMGLMEDLLKLPFTDTEQECLVKFLQSSASVQN   950
 951  HEFLLVHHLQRANYVPALKLNQTLKINVMNDRDPRLRERSLARNSILDQY  1000
1001  GKILPRVHRKLAIERAKPYHLSTSSVFRLVSRPKPLSAVPKQVVTGTVLT  1050
1051  RSVFINNVLSKIGEVWASKEPINSTTPFNSSKIEEPSPIVYSLPAPELPE  1100
1101  AFFGTPISKASQKISRLLDLVVQPVPRPSQCSEFIQQSSMKSPLYLVSRS  1150
1151  LPSSSQLKGSPQAISRASELHLLETPLVVKKAKSLAMSVTTSGFSEFTPQ  1200
1201  SILRSTLRSTPLASPSPSPGRSPQRLKETRISFVEEDVHPKWIPGAADDS  1250
1251  KLEVFTTPKKCAVPVETEWLKSKDRTTSFFLNSPEKEHQEMDEGSQSLEK  1300
1301  LDVSKGNSSVSITSDETTLEYQDAPSPEDLEETVFTASKPKSSSTALTTN  1350
1351  VTEQTEKDGDKDVFASEVTPSDLQKQMGNLEDAETKDLLVAAEAFSELNH  1400
1401  LSPVQGTEASLCAPSVYEGKIFTQKSKVPVLDEGLTSVETYTPAIRANDN  1450
1451  KSMADVLGDGGNSSLTISEGPIVSERRLNQEVALNLKEDHEVEVGVLKES  1500
1501  VDLPEEKLPISDSPPDTQEIHVIEQEKLEAQDSGEEARNLSFNELYPSGT  1550
1551  LKLQYNFDTIDQQFCDLADNKDTAECDIAEVDGELFVAQSNFTLILEGEE  1600
1601  GEVEPGDFASSDVLPKAANTATEEKLVCSGENDNHGQIANLPSAVTSDQK  1650
1651  SQKVDTLPYVPEPIKVAIAENLLDVIKDTRSKEITSDTMEQSIHETIPLV  1700
1701  SQNIMCPTKLVKSAFKTAQETSTMTMNVSQVDDVVSSKTRTRGQRIQNVN  1750
1751  VKSAQQEASADVATPKMPGQSVRKKTRKAKEISEASENIYSDVRGLSQNQ  1800
1801  QIPQNSVTPRRGRRKKEVNQDILENTSSVEQELQITTGRESKRLKSSQLL  1850
1851  EPAVEETTKKEVKVSSVTKRTPRRIKRSVENQESVEIINDLKVSTVTSPS  1900
1901  RMIRKLRSTNLDASENTGNKQDDKSSDKQLRIKHVRRVRGREVSPSDVRE  1950
1951  DSNLESSQLTVQAEFDMSAIPRKRGRPRKINPSEDVGSKAVKEERSPKKK  2000
2001  EAPSIRRRSTRNTPAKSENVDVGKPALGKSILVPNEELSMVMSSKKKLTK  2050
2051  KTESQSQKRSLHSVSEERTDEMTHKETNEQEERLLATASFTKSSRSSRTR  2100
2101  SSKAILLPDLSEPNNEPLFSPASEVPRKAKAKKIEVPAQLKELVSDLSSQ  2150
2151  FVISPPALRSRQKNTSNKNKLEDELKDDAQSVETLGKPKAKRIRTSKTKQ  2200
2201  ASKNTEKESAWSPPPIEIRLISPLASPADGVKSKPRKTTEVTGTGLGRNR  2250
2251  KKLSSYPKQILRRKML                                    2266

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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