 | Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden. |
NucPred
Fetching P40201 from www.uniprot.org...
The NucPred score for your sequence is 1.00 (see score help below)
1 MNGHSDEESVRNGSGESSQSGDDCGSASGSGSGSSSGSSSDGSSSQSGSS 50
51 DSDSGSDSGSQSESESDTSRENKVQAKPPKVDGAEFWKSSPSILAVQRSA 100
101 MLRKQPQQAQQQRPASSNSGSEEDSSSSEDSDDSSSGAKRKKHNDEDWQM 150
151 SGSGSPSQSGSDSESEEERDKSSCDGTESDYEPKNKVRSRKPQNRSKSKN 200
201 GKKILGQKKRQIDSSEDEDDEDYDNDKRSSRRQATVNVSYKEDEEMKTDS 250
251 DDLLEVCGEDVPQPEDEEFETIERVMDCRVGRKGATGATTTIYAVEADGD 300
301 PNAGFERNKEPGDIQYLIKWKGWSHIHNTWETEETLKQQNVRGMKKLDNY 350
351 KKKDQETKRWLKNASPEDVEYYNCQQELTDDLHKQYQIVERIIAHSNQKS 400
401 AAGLPDYYCKWQGLPYSECSWEDGALISKKFQTCIDEYFSRNQSKTTPFK 450
451 DCKVLKQRPRFVALKKQPSYIGGHEGLELRDYQLNGLNWLAHSWCKGNSC 500
501 ILADEMGLGKTIQTISFLNYLFHEHQLYGPFLLVVPLSTLTSWQREIQTW 550
551 ASQMNAVVYLGDINSRNMIRTHEWMHPQTKRLKFNILLTTYEILLKDKAF 600
601 LGGLNWAFIGVDEAHRLKNDDSLLYKTLIDFKSNHRLLITGTPLQNSLKE 650
651 LWSLLHFIMPEKFSSWEDFEEEHGKGREYGYASLHKELEPFLLRRVKKDV 700
701 EKSLPAKVEQILRMEMSALQKQYYKWILTRNYKALSKGSKGSTSGFLNIM 750
751 MELKKCCNHCYLIKPPDNNEFYNKQEALQHLIRSSGKLILLDKLLIRLRE 800
801 RGNRVLIFSQMVRMLDILAEYLKYRQFPFQRLDGSIKGELRKQALDHFNA 850
851 EGSEDFCFLLSTRAGGLGINLASADTVVIFDSDWNPQNDLQAQARAHRIG 900
901 QKKQVNIYRLVTKGSVEEDILERAKKKMVLDHLVIQRMDTTGKTVLHTGS 950
951 APSSSTPFNKEELSAILKFGAEELFKEPEGEEQEPQEMDIDEILKRAETH 1000
1001 ENEPGPLSVGDELLSQFKVANFSNMDEDDIELEPERNSKNWEEIIPEEQR 1050
1051 RRLEEEERQKELEEIYMLPRMRNCAKQISFNGSEGRRSRSRRYSGSDSDS 1100
1101 ISERKRPKKRGRPRTIPRENIKGFSDAEIRRFIKSYKKFGGPLERLDAIA 1150
1151 RDAELVDKSETDLRRLGELVHNGCVKALKDSSSGTERAGGRLGKVKGPTF 1200
1201 RISGVQVNAKLVIAHEDELIPLHKSIPSDPEERKQYTIPCHTKAAHFDID 1250
1251 WGKEDDSNLLIGIYEYGYGSWEMIKMDPDLSLTHKILPDDPDKKPQAKQL 1300
1301 QTRADYLIKLLSRDLAKREAQRLCGAGGSKRRKTRAKKSKAMKSIKVKEE 1350
1351 IKSDSSPLPSEKSDEDDDKLNDSKPESKDRSKKSVVSDAPVHITASGEPV 1400
1401 PIAEESEELDQKTFSICKERMRPVKAALKQLDRPEKGLSEREQLEHTRQC 1450
1451 LIKIGDHITECLKEYSNPEQIKQWRKNLWIFVSKFTEFDARKLHKLYKHA 1500
1501 IKKRQESQQNSDQNSNVATTHVIRNPDMERLKENTNHDDSSRDSYSSDRH 1550
1551 LSQYHDHHKDRHQGDSYKKSDSRKRPYSSFSNGKDHREWDHYRQDSRYYS 1600
1601 DREKHRKLDDHRSREHRPSLEGGLKDRCHSDHRSHSDHRMHSDHRSSSEH 1650
1651 THHKSSRDYRYLSDWQLDHRAASSGPRSPLDQRSPYGSRSPFEHSAEHRS 1700
1701 TPEHTWSSRKT 1711
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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