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

NucPred

Fetching P32033 from www.uniprot.org...

The NucPred score for your sequence is 0.95 (see score help below)

   1  MRHQVKVCILELREIMREIHNYYYFLDSWTKLNSVGSLIHLFFRQERFFK    50
  51  LFDTRIFSILLSRNLQGSPSNRYFTIKGVILFVAGVLIYRINNQNMVERK   100
 101  SLHLTGLFPIPMNSTEPIKDRLEEAIGSSNINRLSILLLYFPKGKNISER   150
 151  YFLNPKETTGVITITKKGSMPESNWNSGPSFKILVTDFIAYLTSAFREKI   200
 201  PKNPMINLMFPGEMEDFIGNPTRSVRPFCSDRWSELHLWTNPTEKSTIDH   250
 251  KFVKNPLSFVRGAENKEIMNLLRIITYLQKTFSIHSISSDPRWDSVPKHD   300
 301  PDMDSFQKNSLFFLFHRFHERNRFESEERLQEMTELFTLLISEPDLVYHK   350
 351  GFSFSIYIDSYGLEKKKLLNEARAESKNKSLWVLSPILFRYEEIEYFFQR   400
 401  IIQKRVRWISCGNGLADLKQKMVVFASKNIMEAVNQSRLIQNMIQIKSST   450
 451  DDGYIRNLFNRFFLLKKYDRNFEYRMQGDQKGTPIFNQRTLMKCRIKQDH   500
 501  TYLYKWSDGTQSLQEHLEHFLSEQKSGFKVQKRYFQVMFDQLRICMTKNL   550
 551  IHWFEVRKKVEKKVGKNVYKLVILLLSKSLRFFFLPQSLHFFFIKLLRFV   600
 601  TKFILFLSNSLTIFCVSFGNTPIQRSEIYISELKCSNKKLCNQLFESIGF   650
 651  QIVHLKKLKPLLLEEYDTYNFVINGGTRSPFLSNKIPKRIFDSLSTRTNH   700
 701  SKSFDKKDSCLSKIFHDKDNWLNPPKPFHTSSLISSFYKANKLRFRSHLH   750
 751  HFLFYCNKRFPFSVEKARNTNSHYIYGQFLNILLFRKKRFSLCVGEKKHV   800
 801  FWSRATISPIESQVSNIFIPKDFIQSDDKEYNLDKYFNFLSQPDTVIRRA   850
 851  IYSIVETSGTPLTETQKGDLERTYCQPLSDINLYDSEVNNFPEYLNLNSN   900
 901  MGLAHILFSDKYLSSENHSLCLKKGADVHKGRMSTTFQRDSSFSILSEKW   950
 951  NLFQTYLPSFFTSTGYKYLTLIFGDNFSDLLLILSRRVSIFQEILGLSWR  1000
1001  ILQIRLSKMPLFIRSEISSQWLHNILLSKEKIRRNTKSSLISTHLRSTKF  1050
1051  WEFFYSIIFLLLVAGYLGPIYIFFVSRAFSELQTELKSLKSLRIPSSTIE  1100
1101  LRKLLDKYPRSEPNSFWLKNIFLVVMEQLRDSLEEIKGFAFGLNRVGPTS  1150
1151  GVNSIRFKNKYFNINGIDIIDLIPFAHTRIAFSINTRHISHTSKEIYSLI  1200
1201  RKRKNVNGVWIDDKLESWVANSDSIHEEERKFLVQLSALTTEKRILLSLT  1250
1251  HSDHFSKNDSGYQMIEQPGAIYLRYLVDIHQKHLMNYEFNTSCLAERRIF  1300
1301  LAHSQTITYSQTSYGTNSFHFPSHGKPFSLRLALSPSRGILVIGSIGTGR  1350
1351  SYLVKYLATNSYVPFITVFPNKFLDKNPQFIDDIDIDNSNNIDASDDIDM  1400
1401  DNSDNIDDDIDRDLATELELLTWMNALTMDREMKAEIARLFITLQFELAR  1450
1451  AMSPCIIWIPNIHDLDVNESNYLSLGLLVNHLSRDCERCSPINILVIAST  1500
1501  HIPQKVDPALIAPKKLNTCIKLRRLLIPQQRKYFFTLSYTRGFHLENKMF  1550
1551  HTNGFGSITMGPNARDIVALTNEVLSISITQKKSIIDTNTIRSALHRQTW  1600
1601  DLQSQVRLVQDHEILFYQIGRAVAQNVLISNLSNCPIDPISIYLKNKSCN  1650
1651  EGDSYLYKWYFELGTSMKKLTILLYLLSCTAGSVAQDLWSLPGPDEKNGI  1700
1701  TSYGLVENDSDLVHGLLEVEGALVGSSRTEKNCSKFENDRVTLLLRPEPR  1750
1751  NPLERMQNGSCSILDQRFLSEKYESEFEEGALAPQQIEEDLFNHIVWAPT  1800
1801  IWRPWGFLCIERPNELGFSYWSRSFRGKRILYDEEDELEENDSEFLQSGT  1850
1851  MQYKTRDRSSKEKGLFRISQFIWDPADPLFFLFKDRPPGSVFSRLELFAD  1900
1901  EEMSKGLLTSQTSQIEHLFRYKYTRWFINKTQEKHFEFLIHRQRCLRTNS  1950
1951  SLSNRSFRSNTLSESYQYLSNLFLSNGTLLDQMTKTLLRKRWLFPDEMKI  2000
2001  GFM                                                 2003

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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