| Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden. |
NucPred
Fetching Q8C419 from www.uniprot.org...
The NucPred score for your sequence is 0.95 (see score help below)
1 MGAMAYSLLFCLLLAHLGLGEVGASLDPPGRPDSPRERTPRGKQHGQQLP 50
51 RASAPDPSIPWSRSTDGTILAQKLAEEVPVDVASYLYTGDFHQLKRANCS 100
101 GRYELAGLPGKSPSLASSHPSLHGALDTLTHATNFLNMMLQSNKSREQTV 150
151 QDDLQWYQALVRSLLEGEPSISRAAITFSTESLSTPAPQVFLQATREESR 200
201 ILLQDLSSSAHHLANATLETEWFHGLRRKWRPHLHRRGSNQGPRGLGHSW 250
251 RRRDGLGGDRSHVKWSPPYLECENGSYKPGWLVTLSAAFYGLQPNLVPEF 300
301 RGVMKVDISLQKVDIDQCSSDGWFSGTHKCHLNNSECMPIKGLGFVLGAY 350
351 QCICKAGFYHPRVFSVNNFQRRGPDHHFSGSTKDVSEETHVCLPCREGCP 400
401 FCADDRPCFVQEDKYLRLAIISFQALCMLLDFVSMLVVYHFRKAKSIRAS 450
451 GLILLETILFGSLLLYFPVVILYFEPSTFRCILLRWARLLGFATVYGTVT 500
501 LKLHRVLKVFLSRTAQRIPYMTGGRVMRMLAVIVLVVFWFLVGWTSSMCQ 550
551 NLERDILLVGQGQTSDHLTFNMCLIDRWDYMTAVAEFLFLLWGIYLCYAV 600
601 RTVPSAFHEPRYMAVAVHNELIITAIFHTIRFVLASRLQPDWMLMLYFAH 650
651 AHLTVTVTIGLLLIPKFSHSSNNPRDDIATEAYEDELDMGRSGSYLNSSI 700
701 NSAWSEHSLDPEDIRDELKKLYAQLEIYKRKKMITNNPHLQKKRCSKKGL 750
751 GRSIMRRITEIPETVSRQCSKEDKEGTDHSAAKGTGLVRKNPTESSGNTG 800
801 RPKEESLKNRVFSLKKSHSTYDHVRDQTVESSSLPMESQEEEATENSTLE 850
851 SLSSKKLTQKLKEDSEAESTESVPLVCKSASAHNLSSEKKPGHPRTSMLQ 900
901 KSLSVIASAKEKTLGLAGKTQTLVMEDRAKSQKPKDRETIRKYSNSDNVE 950
951 TIPNSGHMEEPRKPQKSGIMKQQRVSLPTANPDVSSGITQIKDNFDIGEV 1000
1001 CPWEVYDLTPGPMPSEPKAQKHVSIAASEVEQNPASFLKEKSYHKSKATE 1050
1051 GLYQANHKSIDKTEVCPWEIHSQSLLEDENRLISKTPVLPGRAREENGSQ 1100
1101 LYTTNMCAGQYEELPHKVVAPKVENENLNQMGDQEKQTSSSVDIIPGSCN 1150
1151 SSNNSHQPLTSRAEVCPWEFEPLEQPNAERSVTLPASSALSANKIPGPQK 1200
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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