 | Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden. |
NucPred
Fetching O14646 from www.uniprot.org...
The NucPred score for your sequence is 1.00 (see score help below)
1 MNGHSDEESVRNSSGESSQSDDDSGSASGSGSGSSSGSSSDGSSSQSGSS 50
51 DSDSGSESGSQSESESDTSRENKVQAKPPKVDGAEFWKSSPSILAVQRSA 100
101 ILKKQQQQQQQQQHQASSNSGSEEDSSSSEDSDDSSSEVKRKKHKDEDWQ 150
151 MSGSGSPSQSGSDSESEEEREKSSCDETESDYEPKNKVKSRKPQNRSKSK 200
201 NGKKILGQKKRQIDSSEEDDDEEDYDNDKRSSRRQATVNVSYKEDEEMKT 250
251 DSDDLLEVCGEDVPQPEEEEFETIERFMDCRIGRKGATGATTTIYAVEAD 300
301 GDPNAGFEKNKEPGEIQYLIKWKGWSHIHNTWETEETLKQQNVRGMKKLD 350
351 NYKKKDQETKRWLKNASPEDVEYYNCQQELTDDLHKQYQIVERIIAHSNQ 400
401 KSAAGYPDYYCKWQGLPYSECSWEDGALISKKFQACIDEYFSRNQSKTTP 450
451 FKDCKVLKQRPRFVALKKQPSYIGGHEGLELRDYQLNGLNWLAHSWCKGN 500
501 SCILADEMGLGKTIQTISFLNYLFHEHQLYGPFLLVVPLSTLTSWQREIQ 550
551 TWASQMNAVVYLGDINSRNMIRTHEWTHHQTKRLKFNILLTTYEILLKDK 600
601 AFLGGLNWAFIGVDEAHRLKNDDSLLYKTLIDFKSNHRLLITGTPLQNSL 650
651 KELWSLLHFIMPEKFSSWEDFEEEHGKGREYGYASLHKELEPFLLRRVKK 700
701 DVEKSLPAKVEQILRMEMSALQKQYYKWILTRNYKALSKGSKGSTSGFLN 750
751 IMMELKKCCNHCYLIKPPDNNEFYNKQEALQHLIRSSGKLILLDKLLIRL 800
801 RERGNRVLIFSQMVRMLDILAEYLKYRQFPFQRLDGSIKGELRKQALDHF 850
851 NAEGSEDFCFLLSTRAGGLGINLASADTVVIFDSDWNPQNDLQAQARAHR 900
901 IGQKKQVNIYRLVTKGSVEEDILERAKKKMVLDHLVIQRMDTTGKTVLHT 950
951 GSAPSSSTPFNKEELSAILKFGAEELFKEPEGEEQEPQEMDIDEILKRAE 1000
1001 THENEPGPLTVGDELLSQFKVANFSNMDEDDIELEPERNSKNWEEIIPED 1050
1051 QRRRLEEEERQKELEEIYMLPRMRNCAKQISFNGSEGRRSRSRRYSGSDS 1100
1101 DSISEGKRPKKRGRPRTIPRENIKGFSDAEIRRFIKSYKKFGGPLERLDA 1150
1151 IARDAELVDKSETDLRRLGELVHNGCIKALKDSSSGTERTGGRLGKVKGP 1200
1201 TFRISGVQVNAKLVISHEEELIPLHKSIPSDPEERKQYTIPCHTKAAHFD 1250
1251 IDWGKEDDSNLLIGIYEYGYGSWEMIKMDPDLSLTHKILPDDPDKKPQAK 1300
1301 QLQTRADYLIKLLSRDLAKKEALSGAGSSKRRKARAKKNKAMKSIKVKEE 1350
1351 IKSDSSPLPSEKSDEDDDKLSESKSDGRERSKKSSVSDAPVHITASGEPV 1400
1401 PISEESEELDQKTFSICKERMRPVKAALKQLDRPEKGLSEREQLEHTRQC 1450
1451 LIKIGDHITECLKEYTNPEQIKQWRKNLWIFVSKFTEFDARKLHKLYKHA 1500
1501 IKKRQESQQNSDQNSNLNPHVIRNPDVERLKENTNHDDSSRDSYSSDRHL 1550
1551 TQYHDHHKDRHQGDSYKKSDSRKRPYSSFSNGKDHRDWDHYKQDSRYYSD 1600
1601 REKHRKLDDHRSRDHRSNLEGSLKDRSHSDHRSHSDHRLHSDHRSSSEYT 1650
1651 HHKSSRDYRYHSDWQMDHRASSSGPRSPLDQRSPYGSRSPFEHSVEHKST 1700
1701 PEHTWSSRKT 1710
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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