 | Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden. |
NucPred
Fetching Q5RCJ3 from www.uniprot.org...
The NucPred score for your sequence is 0.63 (see score help below)
1 MVGELRYREFRVPLGPGLHAYPDELIRQRVGHDGHPEYQIRWLILRRGDE 50
51 GDGGSGQVDCKAEHILLWMSKDEIYANCHKMLGEDGQVIGPSQESTGEVG 100
101 ALDKSVLEEMETDVKSLIQRALRQLEECVGTIPPAPLLHTVHVLSAYASI 150
151 EPLTGVFKDPRVLDLLMHMLSSPDYQIRWSAGRMIQALSSHDAGEGQCGE 200
201 EGKAGEELGRLRDSQDTVAGASDLIRTRTQILLSLSQQEAIEKHLDFDSR 250
251 CALLALFAQATLSEHPMSFEGIQLPQVPGRVLFSLVKRYLHVTSLLDQLN 300
301 DSAAEPGAQNTSAPEEWSGERGQLELEFSMAMGTLISELVQAIRWDQASD 350
351 RPRSSARSPGSIFQPQLADVSPGLPATQAQPSFRRSRHFRPRSEFASGNT 400
401 YALYVRDTLQPGMRVRMLDEYEEISAGDEGEFRQSNNGVPPVQVLWESTG 450
451 RTYWVHWHMLEILGFEEDIEDMVEADEYQGAVASRVLGRALPAWRWRPMT 500
501 ELYAVPYVLPEDEDSEECEHLTLAEWWELLFFIKKLDGPDHQEVLQILQE 550
551 NLDGEILDDEILAELAVPIELAQDLLLTLPQRLNDSALRDLINCHVYKKY 600
601 GPEALAGNPAYPSLLEAQEDVLLEAQAQAKDSEDAAKVEAKEPPSQSPNT 650
651 PLQRLVEGYGPAGKILLDLEQALSSEGTQENKVKPLLLQLQRQPQPFLAL 700
701 MQSLDTPETNRTLHLTVLRILKQLVDFPEALLLPWHEAVDACMACLRSPN 750
751 TDREVLQELIFFLHRLTSVSRDYAVVLNQLGARDAISKALEKHLGKLELA 800
801 QELRDMVFKCEKHAHLYRELITNILGGCIQMVLGQIEDHRRTHRPINIPF 850
851 FDVFLRYLCQGSSVEVKEDKCWEKVEVSSNPHRASKLTDRNPKTYWESNG 900
901 SAGSRYITLHMRQGILIRQLTLLVASEDSSYMPARVVVCGGDSTSSLHTE 950
951 LNSVNVMPSASRVILLENLTRFWPIIQIRIKRCQQGGIDTRIRGLETLGP 1000
1001 KPTFWPVFREQLCRHTRLFYMVRAQAWSQDMAEDRRSLLHLSSRLNGALR 1050
1051 QEQNFADRFLPDNEAAQALGKTCWEALVSPVVQNITSPDEDGISPLGWLL 1100
1101 DQYLECQEAVFNPQSRGPAFFSRVRRLTHLLVHVEPCEAPPPVVATPRPK 1150
1151 GRNRSHDWSSLATRGLPSSIMRNLTRCRRAVVEKQVNNFLTSSWRDDDFV 1200
1201 PRYCEHFNILQNSSSELFGPRAAFLLALQNGCAGALLKLPFLKAAHVSEQ 1250
1251 FARHIDQQIQGSRIGGAQEMERLAQLQQCLQAVLIFSGLEIATTFEHYYQ 1300
1301 HYMADRLLGVVSSWLEGAVLEQIGPCFPNRLPQQMLQSLSTSKELQRQFH 1350
1351 VYQLQQLDQELLKLEDTEKKIQVGHGASGKEHKSEKEEEAGAAAAVDVAE 1400
1401 GEEEEEENEDLYYEGAMPEVSVLVLSRHCWPVASICHTLNPRTCLPSYLR 1450
1451 GTLNRYSNFYNKSQSHPALERGSQRRLQWTWLGWAELQFGNQTLHVSTVQ 1500
1501 MWLLLYLNDLKAVSVESLLALSGLSADMLNQAIGPLTSSRGPLDLHEQKD 1550
1551 IPGGVLKIRDGSKEPRSRWDIVRLIPPQTYLQAEGEEGRNLEKRRNLLNC 1600
1601 LIVRILKAHGDEGLHIDQLVCLVLEAWQKGPCPPRGLVSSLGKGSACSST 1650
1651 DVLSCILHLLGKGTLRRHDDRPQVLSYAVPVTVMEPHTESLNPGSSGPNP 1700
1701 PLTFHTVQIRSRGVPYASCTATQSFSTFR 1729
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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