 | Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden. |
NucPred
Fetching Q7TT50 from www.uniprot.org...
The NucPred score for your sequence is 0.95 (see score help below)
1 MSAKVRLKKLEQLLLDGPWRNDSALSVETLLDVLVCLYTECSHSALRRDK 50
51 YVAEFLEWAKPFTQLVKDMQLHREDFEIIKVIGRGAFGEVAVVKMKNTER 100
101 IYAMKILNKWEMLKRAETACFREERDVLVNGDCQWITALHYAFQDENYLY 150
151 LVMDYYVGGDLLTLLSKFEDKLPEDMARFYIGEMVLAIDSIHQLHYVHRD 200
201 IKPDNVLLDVNGHIRLADFGSCLKMNDDGTVQSSVAVGTPDYISPEILQA 250
251 MEDGMGKYGPECDWWSLGVCMYEMLYGETPFYAESLVETYGKIMNHEERF 300
301 QFPSHVTDVSEEAKDLIQRLICSRERRLGQNGIEDFKKHAFFEGLNWENI 350
351 RNLEAPYIPDVSSPSDTSNFDVDDDMLRNIEILPPGSHTGFSGLHLPFIG 400
401 FTFTTESCFSDRGSLKSMTQSNTLTKDEDVQRDLENSLQIEAYERRIRRL 450
451 EQEKLELSRKLQESTQTVQSLHGSTRALGNSNRDKEIKRLNEELERMKSK 500
501 MADSNRLERQLEDTVTLRQEHEDSTHRLKGLEKQYRLARQEKEELHKQLV 550
551 EASERLKSQTKELKDAHQQRKRALQEFSELNERMSELRSLKQKVSRQLRD 600
601 KEEEMEVAMQKIDSMRQDLRKSEKSRKELEARLEDAAAEASKERKLREHS 650
651 ESFCKQMERELEALKVKQGGRGPGAASEHQQEISKIRSELEKKVLFYEEE 700
701 LVRREASHVLEVKNVKKEVHDSESHQLALQKEVLMLKDKLEKSKRERHSE 750
751 MEEAIGTVKDKYERERAMLFDENKKLTAENEKLCSFVDKLTAQNRQLEDE 800
801 LQDLASKKESVAHWEAQIAEIIQWVSDEKDARGYLQALASKMTEELETLR 850
851 SSSLGSRTLDPLWKVRRSQKLDMSARLELQSALEAEIRAKQLVQEELRKV 900
901 KDSSLAFESKLKESEAKNRELLEEMQSLRKRMEEKFRADTGLKLPDFQDS 950
951 IFEYFNTAPLAHDLTFRTSSASDQETQASKMDLSPSVSVATSTEQQEDMA 1000
1001 RPQQRPSPVPLPSTQALAMAGPKPKAHQFSIKSFPSPTQCSHCTSLMVGL 1050
1051 IRQGYACEVCAFSCHVSCKDSAPQVCPIPPEQSKRPLGVDVQRGIGTAYK 1100
1101 GYVKVPKPTGVKKGWQRAYAVVCDCKLFLYDLPEGKSTQPGVVASQVLDL 1150
1151 RDEEFAVSSVLASDVIHATRRDIPCIFRVTASLLGSPSKTSSLLILTENE 1200
1201 NEKRKWVGILEGLQAILHKNRLKSQVVHVAQEAYDSSLPLIKAVLAAAIV 1250
1251 DGDRIAVGLEEGLYVIELTRDVIVRAADCKKVYQIELAPKEKIAILLCGR 1300
1301 NHHVHLYPWSSFDGAEASNFDIKLPETKGCQLIATGTLRKSSSTCLFVAV 1350
1351 KRLILCYEIQRTKPFHRKFSELVAPGHVQWMAVFKDRLCVGYPSGFSLLS 1400
1401 IQGDGPPLDLVNPTDPSLAFLSQQSFDALCAVELKSEEYLLCFSHMGLYV 1450
1451 DPQGRRSRMQELMWPAAPVACSCSPTHVTVYSEYGVDVFDVRTMEWVQTI 1500
1501 GLRRIRPLNSDGSLNLLGCEPPRLIYFKNKFSGTILNVPDTSDNSKKQML 1550
1551 RTRSKRRFVFKVPEEERLQQRREMLRDPELRSKMISNPTNFNHVAHMGPG 1600
1601 DGMQVLMDLPLSAAPTVQEEKQGPTPAGLPRQPPSRSKPYVSWPSSGGSE 1650
1651 PGVPVPLRSMSDPDQDFDKEPDSDSTKHSTPSNSSNPSGPPSPNSPHRSQ 1700
1701 LPMEGLDQPSCDA 1713
Positively and negatively influencing subsequences are coloured according to the following scale:
(non-nuclear) negative ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| positive (nuclear)
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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