 | Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden. |
NucPred
Fetching Q8BZ05 from www.uniprot.org...
The NucPred score for your sequence is 0.98 (see score help below)
1 MSSVSEVNADIRDFLMSINLEQYLLHFREFGFYTVRDCTSINDSVLHQIG 50
51 ISPTGHRRRILKQLQMIFSKMQDFPIYANVHKAKNGSTTKEQQHSDPSSS 100
101 THTGIECSDSITVHRPGPAPSEMVTTSTLSEGNCQSPKSHDKLCLSSHDL 150
151 LCPEEELHQNVDSSKDSLFGGVNVKIDPLITKRAVEYTAGEEHTEKGNLT 200
201 SEDSSKALSTNTECLPSGDCPTSGTHSGNGTNGVLESFPPTPFFQFQGEM 250
251 VVNELYVPSSPVHGPMRSRSKLVSRPSRSFLLRHRPVPEIPGSTKSIPGS 300
301 YFRDRRSNTTSAGKSLTLKNSNEDNSTSIFPYGETFLFQRLESSKKRSIK 350
351 NEFWPHENTVKEEAATTRNSILTQSSIYDNRKEKVSEDKVEDIWIPREDK 400
401 NNLAQDSASESEYSTVEECFQSLRRKNSKASKSRTQKAFYLDPFNRHSYP 450
451 LSSTSGNTEPSSTISNAISPYACFYGSSAAKEKCGWLDKLSPQGKRMFQK 500
501 RWVKFDGLSISHYNNDREMYSKGIIPLTAISTVRAQGDNKFEIVTTQRTF 550
551 VFRVEKEEERNDWISILLSALKSPSLASQLQAAVAPEKCGYLELRGYKAK 600
601 IFTVLRGNSVWLCKNEQDFKSGLGITIIPMNVANVKQVDRAVKQSFEIIT 650
651 PYRSFSFTADSEREKQEWIEAVQQSIAETLSDYEVAEKIWFNESNRSCAD 700
701 CKAPDPDWASINLCVVICKKCAGQHRSLGPKDCKVRSLKMDASIWSNELI 750
751 ELFIVIGNKRANDFWAGNLQKDEELQVDSPVEKRKNFITQKYKEGKFRKT 800
801 LLASLTKEELNKALCAAVVKPDVLETMALLFSGADVMCATGDPVHSTPYL 850
851 LAKKAGQSLQMEFLYHNKFSDFPQYDAHFEGGSSQDAAQSSFLCDFLYQT 900
901 AAAASRVSSEKKLLEDTNKKWCVLEGGFLSYYENDRCTTPNGTINISEVI 950
951 CLAVHKEDFYLNTGPIFVFEIYLPSERVFLFGAETSQIQRKWTETIAKRF 1000
1001 VPFVAENLTEADYDLIGQLFYKDCHALDQWRKGWFAMDKSSLCFCLQTQE 1050
1051 AQEERMNLRRLQELTISTMVQNGEKVDVLLLVEKGRTLYIHGHTKLDFTV 1100
1101 WHTAIEKAAGTDGNALQDQQLCKNDVPIIVNSCIAFVTQYGLGCKYIYQK 1150
1151 DGDPLHISELLESFKKDARSVKLRAGKHQLEDVTGVLKSFLSDIDDALLT 1200
1201 KELYPYWVSALDTQDEKERTSKYRAFIRSLPGVNRATLAALIEHLYRVQK 1250
1251 CSEINHMNAHNLAMVFSSCLFQTKGQTSEEVNVIEDLINNYVEIFEVKED 1300
1301 QVKQMDIENSFITKWKDTQVSQAGDLLIEVFVERKEPDCSIIIRISPVME 1350
1351 AEELTNDILAIKNIIPMKGDIWATFEVIENEELERPLHYTENVLEQVLQW 1400
1401 SSLAEPGSAYLVVKRFLTVDSIKQCREKSIKEGILKLKEEPSKILSGNKF 1450
1451 QDRCVVLRDGHLFIYKDPKSSKHDKMFPLRAMKFYLGVKKKMKPPTSWGL 1500
1501 TVYSEKHHWHLCCDSLQAQMEWMASIFIAQHENDIWPPAGKERKRSITKN 1550
1551 PKIGGLPLIPIQHERNATQARKNIETARAELERLRLSEKHDPRDFTDSSL 1600
1601 KDRASLIAHCLEHKDEKLRNRARKHRSFNCLEDTEAEGPHGLPKAYKGPK 1650
1651 TLKKTEERNSKATLDADPKLPSKVIEELSVVLQRSRPLHKELPDEQTLQK 1700
1701 EVK 1703
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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