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

NucPred

Fetching P60882 from www.uniprot.org...

The NucPred score for your sequence is 0.50 (see score help below)

   1  MALGGALALALALALAVLGPLSLRVLAGDCKGQRQVLREAPGFVTDGAGN    50
  51  YSVNGNCEWLIEAPSPQHRILLDFLFLDTECTYDYLFVYDGDSPQGPLLA   100
 101  SLSGSTRPPPIEASSGKMLLHLFSDANYNLLGFNASFRFSLCPGGCQNHG   150
 151  QCKSPGVCVCEPGWGGPDCGLQECSAYCGSHGTCASTLGPCRCEPGFLGR   200
 201  ACDLHLWENQGAGWWHSVSAGDPAFSARIGAAGAFLSPPGLLAVFGGQDL   250
 251  NKALGDLVLYNFSTNTWESWDLTPAPAARHSHVAVAWAGLLVLMGGELAN   300
 301  GLLTNDVWAFSPLGGGHWELLAPPASSSSGPPGLAGHAAALVDDIWLYVS   350
 351  GGRTQHDLFSSGLFRFRLDHTSRGYWEQVIPAGGRPPAATGHSMVFHAPS   400
 401  RTLLVHGGHRPSTARFSVRVNSTELFHVERRVWTTLKGRDGLQGPRERAF   450
 451  HTASVLGNYMVVYGGNVHTHYQEEKCYEDGIFFYHLGCHQWVSGAELAPP   500
 501  GTPEGRAAPPSGRYSHVAAVLGGSVLLVAGGYSGRPRGDLMAYKVPPFVF   550
 551  QAPALDYHLDYCSMYTDHSVCSRDPECSWCQGACQAAPPPGTPSGACPAA   600
 601  SCLGLGRLLSDCQACLAFSSPTAPPRGPGALGWCVHNESCLPRPEQARCR   650
 651  GEQISGTVGWWGPAPVFVTSLEACVTQSFLPGLHLLTFQQPPNASQPDKV   700
 701  SIVRSTTITLTPSPETDVSLVYRGFIHPLLPGGPGGPGAEDVAVWARAQR   750
 751  LHVLARMARGPDTENMEEVGRWVAQQEKETRRLQRPGSDRLFPLPGRGNK   800
 801  YAVEIRGQLNGSAGPGHSELTLLWDRTGVPGGSEISFFFLEPYRSSACTS   850
 851  YSSCLGCLADQGCGWCLNSATCHLRQGRAHCEDDGSGESLLVLVPALCPL   900
 901  CEEHRDCHACTQDPFCEWHQSTNRKGDAACSRRGRGRGALKNPEECPPLC   950
 951  SQRLTCEDCLANSSQCAWCQSTHTCFLFAAYLARYPHGGCRGWDDSVHSE  1000
1001  PRCRSCGGFLTCHECLQSHECGWCGNEDNPTLGRCLQGDFSGPLGGGNCS  1050
1051  LWVGEGLGLPVALPARWAYARCPDVDECRLGLARCHPRATCLNTPLSYEC  1100
1101  HCQRGYQGDGITHCNRTCLEDCGHGVCSGPPDFTCVCDLGWTSDLPPPTP  1150
1151  APGPPAPRCSRDCGCSFHSHCRRRGPGYCDECQDWTWGEHCERCRPGSFG  1200
1201  NATGSGGCRPCQCNGHGDPRRGHCDNLTGLCFCQDHTEGAHCQICSPGYY  1250
1251  GDPRAGGSCFRECGGRALLTNVSSVALGSRRFGGLLPPGGGAARAGPGLS  1300
1301  YCVWVVSATEALQPCVPGTLCPPLTLTFSPDSSTPCTLSYVLAFDGFPRF  1350
1351  LDTGVVQSDRSLIAAFCGQRRDRPLTVQALSGLLVLHWEANGSSSWGFNA  1400
1401  SVGSARCGSGGPGSCPVPQECVPQDGAAGAGLCRCPQGWAGPHCRMALCP  1450
1451  ENCNAHTGAGICNQSLGVCICAEGFGGPDCATKLDGGQLVWETLMDSRLS  1500
1501  ADTASRFLHRLGHTMVEGPDATLWMFGGLGLPQGLLGNLYRYSVSERRWT  1550
1551  QMLAGAEDGGPGPSPRSFHAAAYVPAGRGAMYLLGGLTAGGVTRDFWVLN  1600
1601  LTTLQWRQEKPPQNMELPAVAGHTLTARRGLSLLLVGGYSPENGFNQQLL  1650
1651  EYQLATGTWVSGAQSGTPPTGLYGHSAVYHEATDSLYVFGGFRFHVELAA  1700
1701  PSPELYSLHCPDRTWSLLAPSQGAKPRPRLFHASALLGDTMVVLGGRSDP  1750
1751  DEFSSDVLLYQVNCNTWLLPALTRPAFVGSPMEESVAHAVAAVGSRLYIS  1800
1801  GGFGGVALGRLLALTLPPDPCRLLPSPEACNQSGACTWCHGACLSGDQAH  1850
1851  RLGCGVPPCSPMPRSPEECRRLRTCSECLARHPRTLQPGDGEASIPRCKW  1900
1901  CTNCPEGACIGRNGSCTSENDCRINQREVFWAGNCSEAACGAADCEQCTR  1950
1951  EGKCMWTRQFKRTGETRRILSVQPTYDWTCFSHSLLNVSPMPVESSPPLP  2000
2001  CPTPCHLLPNCTSCLASKGADGGWQHCVWSSSLQQCLSPSYLPLRCMAGG  2050
2051  CGRLLRGPESCSLGCAQATQCALCLRRPHCGWCAWGGQDGGGHCMEGGLS  2100
2101  GPRDGLTCGRPGASWAFLSCPPEDECANGHHDCNETQNCHDQPHGYECSC  2150
2151  KTGYTMDNVTGVCRPVCAQGCVNGSCVEPDHCRCHFGFVGRNCSTECRCN  2200
2201  RHSECAGVGAQDHCLLCRNHTKGSHCEQCLPLFVGSALGGGTCRPCHAFC  2250
2251  RGNSHVCVSRKELEMARKEPEKYSLDPEEIETWVAEGPSEDEAVCVNCQN  2300
2301  NSYGDRCESCLHGYFLLDGKCTKCQCNGHADTCNEQDGTGCPCQNNTETG  2350
2351  TCQGSSPSDRRDCYKYQCAKCRESFHGSPLGGQQCYRLISVEQECCLDPT  2400
2401  SQTNCFHEPKRRALGPGRTVLFGVQPKFTNVDIRLTLDVTFGAVDLYVST  2450
2451  SYDTFVVRVAPDTGVHTVHIQPPPPPPPPPPPADGVPRVAADLGGLGTGS  2500
2501  GSGSPVEPRVREVWPRGLITYVTVTEPSAVLVVRSVRDRLVITYPHEHHA  2550
2551  LKSSRFYLLLLGVGDPNGPGANGSADSQGLLFFRQDQAHIDLFVFFSVFF  2600
2601  SCFFLFLSLCVLLWKAKQALDQRQEQRRHLQEMTKMASRPFAKVTVCFPP  2650
2651  DPAGPAPAWKPAGLPPPAFRRSEPFLAPLLLTGAGGPWGPMGGGCCPPAL  2700
2701  PATTAGLRAGPITLEPTEDGMAGVATLLLQLPGGPHAPNGACLGSALVTL  2750
2751  RHRLHEYCGGSGGAGGSGHGGGGGRKGLLSQDNLTSMSL             2789

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.