| Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden. |
NucPred
Fetching O00291 from www.uniprot.org...
The NucPred score for your sequence is 0.75 (see score help below)
1 MDRMASSMKQVPNPLPKVLSRRGVGAGLEAAERESFERTQTVSINKAINT 50
51 QEVAVKEKHARTCILGTHHEKGAQTFWSVVNRLPLSSNAVLCWKFCHVFH 100
101 KLLRDGHPNVLKDSLRYRNELSDMSRMWGHLSEGYGQLCSIYLKLLRTKM 150
151 EYHTKNPRFPGNLQMSDRQLDEAGESDVNNFFQLTVEMFDYLECELNLFQ 200
201 TVFNSLDMSRSVSVTAAGQCRLAPLIQVILDCSHLYDYTVKLLFKLHSCL 250
251 PADTLQGHRDRFMEQFTKLKDLFYRSSNLQYFKRLIQIPQLPENPPNFLR 300
301 ASALSEHISPVVVIPAEASSPDSEPVLEKDDLMDMDASQQNLFDNKFDDI 350
351 FGSSFSSDPFNFNSQNGVNKDEKDHLIERLYREISGLKAQLENMKTESQR 400
401 VVLQLKGHVSELEADLAEQQHLRQQAADDCEFLRAELDELRRQREDTEKA 450
451 QRSLSEIERKAQANEQRYSKLKEKYSELVQNHADLLRKNAEVTKQVSMAR 500
501 QAQVDLEREKKELEDSLERISDQGQRKTQEQLEVLESLKQELATSQRELQ 550
551 VLQGSLETSAQSEANWAAEFAELEKERDSLVSGAAHREEELSALRKELQD 600
601 TQLKLASTEESMCQLAKDQRKMLLVGSRKAAEQVIQDALNQLEEPPLISC 650
651 AGSADHLLSTVTSISSCIEQLEKSWSQYLACPEDISGLLHSITLLAHLTS 700
701 DAIAHGATTCLRAPPEPADSLTEACKQYGRETLAYLASLEEEGSLENADS 750
751 TAMRNCLSKIKAIGEELLPRGLDIKQEELGDLVDKEMAATSAAIETATAR 800
801 IEEMLSKSRAGDTGVKLEVNERILGCCTSLMQAIQVLIVASKDLQREIVE 850
851 SGRGTASPKEFYAKNSRWTEGLISASKAVGWGATVMVDAADLVVQGRGKF 900
901 EELMVCSHEIAASTAQLVAASKVKADKDSPNLAQLQQASRGVNQATAGVV 950
951 ASTISGKSQIEETDNMDFSSMTLTQIKRQEMDSQVRVLELENELQKERQK 1000
1001 LGELRKKHYELAGVAEGWEEGTEASPPTLQEVVTEKE 1037
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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