 | Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden. |
NucPred
Fetching Q8IY92 from www.uniprot.org...
The NucPred score for your sequence is 1.00 (see score help below)
1 MKLSVNEAQLGFYLGSLSHLSACPGIDPRSSEDQPESLKTGQMMDESDED 50
51 FKELCASFFQRVKKHGIKEVSGERKTQKAASNGTQIRSKLKRTKQTATKT 100
101 KTLQGPAEKKPPSGSQAPRTKKQRVTKWQASEPAHSVNGEGGVLASAPDP 150
151 PVLRETAQNTQTGNQQEPSPNLSREKTRENVPNSDSQPPPSCLTTAVPSP 200
201 SKPRTAQLVLQRMQQFKRADPERLRHASEECSLEAAREENVPKDPQEEMM 250
251 AGNVYGLGPPAPESDAAVALTLQQEFARVGASAHDDSLEEKGLFFCQICQ 300
301 KNLSAMNVTRREQHVNRCLDEAEKTLRPSVPQIPECPICGKPFLTLKSRT 350
351 SHLKQCAVKMEVGPQLLLQAVRLQTAQPEGSSSPPMFSFSDHSRGLKRRG 400
401 PTSKKEPRKRRKVDEAPSEDLLVAMALSRSEMEPGAAVPALRLESAFSER 450
451 IRPEAENKSRKKKPPVSPPLLLVQDSETTGRQIEDRVALLLSEEVELSST 500
501 PPLPASRILKEGWERAGQCPPPPERKQSFLWEGSALTGAWAMEDFYTARL 550
551 VPPLVPQRPAQGLMQEPVPPLVPPEHSELSERRSPALHGTPTAGCGSRGP 600
601 SPSASQREHQALQDLVDLAREGLSASPWPGSGGLAGSEGTAGLDVVPGGL 650
651 PLTGFVVPSQDKHPDRGGRTLLSLGLLVADFGAMVNNPHLSDVQFQTDSG 700
701 EVLYAHKFVLYARCPLLIQYVNNEGFSAVEDGVLTQRVLLGDVSTEAART 750
751 FLHYLYTADTGLPPGLSSELSSLAHRFGVSELVHLCEQVPIATDSEGKPW 800
801 EEKEAENCESRAENFQELLRSMWADEEEEAETLLKSKDHEEDQENVNEAE 850
851 MEEIYEFAATQRKLLQEERAAGAGEDADWLEGGSPVSGQLLAGVQVQKQW 900
901 DKVEEMEPLEPGRDEAATTWEKMGQCALPPPQGQHSGARGAEAPEQEAPE 950
951 EALGHSSCSSPSRDCQAERKEGSLPHSDDAGDYEQLFSSTQGEISEPSQI 1000
1001 TSEPEEQSGAVRERGLEVSHRLAPWQASPPHPCRFLLGPPQGGSPRGSHH 1050
1051 TSGSSLSTPRSRGGTSQVGSPTLLSPAVPSKQKRDRSILTLSKEPGHQKG 1100
1101 KERRSVLECRNKGVLMFPEKSPSIDLTQSNPDHSSSRSQKSSSKLNEEDE 1150
1151 VILLLDSDEELELEQTKMKSISSDPLEEKKALEISPRSCELFSIIDVDAD 1200
1201 QEPSQSPPRSEAVLQQEDEGALPENRGSLGRRGAPWLFCDRESSPSEAST 1250
1251 TDTSWLVPATPLASRSRDCSSQTQISSLRSGLAVQAVTQHTPRASVGNRE 1300
1301 GNEVAQKFSVIRPQTPPPQTPSSCLTPVSPGTSDGRRQGHRSPSRPHPGG 1350
1351 HPHSSPLAPHPISGDRAHFSRRFLKHSPPGPSFLNQTPAGEVVEVGDSDD 1400
1401 EQEVASHQANRSPPLDSDPPIPIDDCCWHMEPLSPIPIDHWNLERTGPLS 1450
1451 TSSPSRRMNEAADSRDCRSPGLLDTTPIRGSCTTQRKLQEKSSGAGSLGN 1500
1501 SRPSFLNSALWDVWDGEEQRPPETPPPAQMPSAGGAQKPEGLETPKGANR 1550
1551 KKNLPPKVPITPMPQYSIMETPVLKKELDRFGVRPLPKRQMVLKLKEIFQ 1600
1601 YTHQTLDSDSEDESQSSQPLLQAPHCQTLASQTYKPSRAGVHAQQEATTG 1650
1651 PGAHRPKGPAKTKGPRHQRKHHESITPPSRSPTKEAPPGLNDDAQIPASQ 1700
1701 ESVATSVDGSDSSLSSQSSSSCEFGAAFESAGEEEGEGEVSASQAAVQAA 1750
1751 DTDEALRCYIRSKPALYQKVLLYQPFELRELQAELRQNGLRVSSRRLLDF 1800
1801 LDTHCITFTTAATRREKLQGRRRQPRGKKKVERN 1834
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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