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

NucPred

Fetching P15822 from www.uniprot.org...

The NucPred score for your sequence is 1.00 (see score help below)

   1  MPRTKQIHPRNLRDKIEEAQKELNGAEVSKKEILQAGVKGTSESLKGVKR    50
  51  KKIVAENHLKKIPKSPLRNPLQAKHKQNTEESSFAVLHSASESHKKQNYI   100
 101  PVKNGKQFTKQNGETPGIIAEASKSEESVSPKKPLFLQQPSELRRWRSEG   150
 151  ADPAKFSDLDEQCDSSSLSSKTRTDNSECISSHCGTTSPSYTNTAFDVLL   200
 201  KAMEPELSTLSQKGSPCAIKTEKLRPNKTARSPPKLKNSSMDAPNQTSQE   250
 251  LVAESQSSCTSYTVHMSAAQKNEQGAMQSASHLYHQHEHFVPKSNQHNQQ   300
 301  LPGCSGFTGSLTNLQNQENAKLEQVYNIAVTSSVGLTSPSSRSQVTPQNQ   350
 351  QMDSASPLSISPANSTQSPPMPIYNSTHVASVVNQSVEQMCNLLLKDQKP   400
 401  KKQGKYICEYCNRACAKPSVLLKHIRSHTGERPYPCVTCGFSFKTKSNLY   450
 451  KHKKSHAHTIKLGLVLQPDAGGLFLSHESPKALSIHSDVEDSGESEEEGA   500
 501  TDERQHDLGAMELQPVHIIKRMSNAETLLKSSFTPSSPENVIGDFLLQDR   550
 551  SAESQAVTELPKVVVHHVTVSPLRTDSPKAMDPKPELSSAQKQKDLQVTN   600
 601  VQPLSANMSQGGVSRLETNENSHQKGDMNPLEGKQDSHVGTVHAQLQRQQ   650
 651  ATDYSQEQQGKLLSPRSLGSTDSGYFSRSESADQTVSPPTPFARRLPSTE   700
 701  QDSGRSNGPSAALVTTSTPSALPTGEKALLLPGQMRPPLATKTLEERISK   750
 751  LISDNEALVDDKQLDSVKPRRTSLSRRGSIDSPKSYIFKDSFQFDLKPVG   800
 801  RRTSSSSDIPKSPFTPTEKSKQVFLLSVPSLDCLPITRSNSMPTTGYSAV   850
 851  PANIIPPPHPLRGSQSFDDKIGAFYDDVFVSGPNAPVPQSGHPRTLVRQA   900
 901  AIEDSSANESHVLGTGQSLDESHQGCHAAGEAMSVRSKALAQGPHIEKKK   950
 951  SHQGRGTMFECETCRNRYRKLENFENHKKFYCSELHGPKTKVAMREPEHS  1000
1001  PVPGGLQPQILHYRVAGSSGIWEQTPQIRKRRKMKSVGDDEELQQNESGT  1050
1051  SPKSSEGLQFQNALGCNPSLPKHNVTIRSDQQHKNIQLQNSHIHLVARGP  1100
1101  EQTMDPKLSTIMEQQISSAAQDKIELQRHGTGISVIQHTNSLSRPNSFDK  1150
1151  PEPFERASPVSFQELNRTGKSGSLKVIGISQEESHPSRDGSHPHQLALSD  1200
1201  ALRGELQESSRKSPSERHVLGQPSRLVRQHNIQVPEILVTEEPDRDLEAQ  1250
1251  CHDQEKSEKFSWPQRSETLSKLPTEKLPPKKKRLRLAEIEHSSTESSFDS  1300
1301  TLSRSLSRESSLSHTSSFSASLDIEDVSKTEASPKIDFLNKAEFLMIPAG  1350
1351  LNTLNVPGCHREMRRTASEQINCTQTSMEVSDLRSKSFDCGSITPPQTTP  1400
1401  LTELQPPSSPSRVGVTGHVPLLERRRGPLVRQISLNIAPDSHLSPVHPTS  1450
1451  FQNTALPSVNAVPYQGPQLTSTSLAEFSANTLHSQTQVKDLQAETSNSSS  1500
1501  TNVFPVQQLCDINLLNQIHAPPSHQSTQLSLQVSTQGSKPDKNSVLSGSS  1550
1551  KSEDCFAPKYQLHCQVFTSGPSCSSNPVHSLPNQVISDPVGTDHCVTSAT  1600
1601  LPTKLIDSMSNSHPLLPPELRPLGSQVQKVPSSFMLPIRLQSSVPAYCFA  1650
1651  TLTSLPQILVTQDLPNQPICQTNHSVVPISEEQNSVPTLQKGHQNALPNP  1700
1701  EKEFLCENVFSEMSQNSSLSESLPITQKISVGRLSPQQESSASSKRMLSP  1750
1751  ANSLDIAMEKHQKRAKDENGAVCATDVRPLEALSSRVNEASKQKKPILVR  1800
1801  QVCTTEPLDGVMLEKDVFSQPEISNEAVNLTNVLPADNSSTGCSKFVVIE  1850
1851  PISELQEFENIKSSTSLTLTVRSSPAPSENTHISPLKCTDNNQERKSPGV  1900
1901  KNQGDKVNIQEQSQQPVTSLSLFNIKDTQQLAFPSLKTTTNFTWCYLLRQ  1950
1951  KSLHLPQKDQKTSAYTDWTVSASNPNPLGLPTKVALALLNSKQNTGKSLY  2000
2001  CQAITTHSKSDLLVYSSKWKSSLSKRALGNQKSTVVEFSNKDASEINSEQ  2050
2051  DKENSLIKSEPRRIKIFDGGYKSNEEYVYVRGRGRGKYICEECGIRCKKP  2100
2101  SMLKKHIRTHTDVRPYHCTYCNFSFKTKGNLTKHMKSKAHSKKCVDLGVS  2150
2151  VGLIDEQDTEESDEKQRFSYERSGYDLEESDGPDEDDNENEDDDEDSQAE  2200
2201  SVLSATPSVTASPQHLPSRSSLQDPVSTDEDVRITDCFSGVHTDPMDVLP  2250
2251  RALLTRMTVLSTAQSDYNRKTLSPGKARQRAARDENDTIPSVDTSRSPCH  2300
2301  QMSVDYPESEEILRSSMAGKAVAITQSPSSVRLPPAAAEHSPQTAAGMPS  2350
2351  VASPHPDPQEQKQQITLQPTPGLPSPHTHLFSHLPLHSQQQSRTPYNMVP  2400
2401  VGGIHVVPAGLTYSTFVPLQAGPVQLTIPAVSVVHRTLGTHRNTVTEVSG  2450
2451  TTNPAGVAELSSVVPCIPIGQIRVPGLQNLSTPGLQSLPSLSMETVNIVG  2500
2501  LANTNMAPQVHPPGLALNAVGLQVLTANPSSQSSPAPQAHIPGLQILNIA  2550
2551  LPTLIPSVSQVAVDAQGAPEMPASQSKACETQPKQTSVASANQVSRTESP  2600
2601  QGLPTVQRENAKKVLNPPAPAGDHARLDGLSKMDTEKAASANHVKPKPEL  2650
2651  TSIQGQPASTSQPLLKAHSEVFTKPSGQQTLSPDRQVPRPTALPRRQPTV  2700
2701  HFSDVSSDDDEDRLVIAT                                  2718

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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