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

NucPred

Fetching Q8IWN7 from www.uniprot.org...

The NucPred score for your sequence is 0.80 (see score help below)

   1  MNSTPRNAQAPSHRECFLPSVARTPSVTKVTPAKKITFLKRGDPRFAGVR    50
  51  LAVHQRAFKTFSALMDELSQRVPLSFGVRSVTTPRGLHSLSALEQLEDGG   100
 101  CYLCSDKKPPKTPSGPGRPQERNPTAQQLRDVEGQREAPGTSSSRKSLKT   150
 151  PRRILLIKNMDPRLQQTVVLSHRNTRNLAAFLGKASDLLRFPVKQLYTTS   200
 201  GKKVDSLQALLHSPSVLVCAGHEAFRTPAMKNARRSEAETLSGLTSRNKN   250
 251  GSWGPKTKPSVIHSRSPPGSTPRLPERPGPSNPPVGPAPGRHPQDTPAQS   300
 301  GPLVAGDDMKKKVRMNEDGSLSVEMKVRFHLVGEDTLLWSRRMGRASALT   350
 351  AASGEDPVLGEVDPLCCVWEGYPWGFSEPGVWGPRPCRVGCREVFGRGGQ   400
 401  PGPKYEIWTNPLHASQGERVAARKRWGLAQHVRCSGLWGHGTAGRERCSQ   450
 451  DSASPASSTGLPEGSEPESSCCPRTPEDGVDSASPSAQIGAERKAGGSLG   500
 501  EDPGLCIDGAGLGGPEQGGRLTPRARSEEGASSDSSASTGSHEGSSEWGG   550
 551  RPQGCPGKARAETSQQEASEGGDPASPALSLSSLRSDDLQAETQGQGTEQ   600
 601  ATGAAVTREPLVLGLSCSWDSEGASSTPSTCTSSQQGQRRHRSRASAMSS   650
 651  PSSPGLGRVAPRGHPRHSHYRKDTHSPLDSSVTKQVPRPPERRRACQDGS   700
 701  VPRYSGSSSSTRTQASGNLRPPSSGSLPSQDLLGTSSATVTPAVHSDFVS   750
 751  GVSPHNAPSAGWAGDAGSRTCSPAPIPPHTSDSCSKSGAASLGEEARDTP   800
 801  QPSSPLVLQVGRPEQGAVGPHRSHCCSQPGTQPAQEAQRGPSPEASWLCG   850
 851  RYCPTPPRGRPCPQRRSSSCGSTGSSHQSTARGPGGSPQEGTRQPGPTPS   900
 901  PGPNSGASRRSSASQGAGSRGLSEEKTLRSGGGPQGQEEASGVSPSSLPR   950
 951  SSPEAVVREWLDNIPEEPILMTYELADETTGAAGGGLRGPEVDPGDDHSL  1000
1001  EGLGEPAQAGQQSLEGDPGQDPEPEGALLGSSDTGPQSGEGVPQGAAPEG  1050
1051  VSEAPAEAGADREAPAGCRVSLRALPGRVSASTQIMRALMGSKQGRPSSV  1100
1101  PEVSRPMARRLSCSAGALITCLASLQLFEEDLGSPASKVRFKDSPRYQEL  1150
1151  LSISKDLWPGCDVGEDQLDSGLWELTWSQALPDLGSHAMTENFTPTSSSG  1200
1201  VDISSGSGGSGESSVPCAMDGTLVTQGTELPLKTSNQRPDSRTYESPGDL  1250
1251  ENQQQCCFPTFLNARACACATNEDEAERDSEEQRASSNLEQLAENTVQEE  1300
1301  VQLEETKEGTEGEGLQEEAVQLEETKTEEGLQEEGVQLEETKETEGEGQQ  1350
1351  EEEAQLEEIEETGGEGLQEEGVQLEEVKEGPEGGLQGEALEEGLKEEGLP  1400
1401  EEGSVHGQELSEASSPDGKGSQEDDPVQEEEAGRASASAEPCPAEGTEEP  1450
1451  TEPPSHLSETDPSASERQSGSQLEPGLEKPPGATMMGQEHTQAQPTQGAA  1500
1501  ERSSSVACSAALDCDPIWVSVLLKKTEKAFLAHLASAVAELRARWGLQDN  1550
1551  DLLDQMAAELQQDVAQRLQDSTKRELQKLQGRAGRMVLEPPREALTGELL  1600
1601  LQTQQRRHRLRGLRNLSAFSERTLGLGPLSFTLEDEPALSTALGSQLGEE  1650
1651  AEGEEFCPCEACVRKKVSPMSPKATMGATRGPIKEAFDLQQILQRKRGEH  1700
1701  TDGEAAEVAPGKTHTDPTSTRTVQGAEGGLGPGLSQGPGVDEGEDGEGSQ  1750
1751  RLNRDKDPKLGEAEGDAMAQEREGKTHNSETSAGSELGEAEQEGEGISER  1800
1801  GETGGQGSGHEDNLQGEAAAGGDQDPGQSDGAEGIEAPEAEGEAQPESEG  1850
1851  VEAPEAEGDAQEAEGEAQPESEDVEAPEAEGEAQPESEDVETPEAEWEVQ  1900
1901  PESEGAEAPEAEKEAQPETESVEALETEGEDEPESEGAEAQEAEEAAQEA  1950
1951  EGQTQPESEVIESQEAEEEAQPESEDVEALEVEVETQEAEGEAQPESEDV  2000
2001  EAPEAEGEMQEAEEEAQPESDGVEAQPKSEGEEAQEVEGETQKTEGDAQP  2050
2051  ESDGVEAPEAEEEAQEAEGEVQEAEGEAHPESEDVDAQEAEGEAQPESEG  2100
2101  VEAPEAEGEAQKAEGIEAPETEGEAQPESEGIEAPEAEGEAQPESEGVEA  2150
2151  QDAEGEAQPESEGIEAQEAEEEAQPELEGVEAPEAEGEAQPESEGIEAPE  2200
2201  AEGEAQPELEGVEAPEAEEEAQPEPEGVETPEAEGEAQPESEGETQGEKK  2250
2251  GSPQVSLGDGQSEEASESSSPVPEDRPTPPPSPGGDTPHQRPGSQTGPSS  2300
2301  SRASSWGNCWQKDSENDHVLGDTRSPDAKSTGTPHAERKATRMYPESSTS  2350
2351  EQEEAPLGSRTPEQGASEGYDLQEDQALGSLAPTEAVGRADGFGQDDLDF  2400

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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