 | Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden. |
NucPred
Fetching P18583 from www.uniprot.org...
The NucPred score for your sequence is 0.97 (see score help below)
1 MATNIEQIFRSFVVSKFREIQQELSSGRNEGQLNGETNTPIEGNQAGDAA 50
51 ASARSLPNEEIVQKIEEVLSGVLDTELRYKPDLKEGSRKSRCVSVQTDPT 100
101 DEIPTKKSKKHKKHKNKKKKKKKEKEKKYKRQPEESESKTKSHDDGNIDL 150
151 ESDSFLKFDSEPSAVALELPTRAFGPSETNESPAVVLEPPVVSMEVSEPH 200
201 ILETLKPATKTAELSVVSTSVISEQSEQSVAVMPEPSMTKILDSFAAAPV 250
251 PTTTLVLKSSEPVVTMSVEYQMKSVLKSVESTSPEPSKIMLVEPPVAKVL 300
301 EPSETLVVSSETPTEVYPEPSTSTTMDFPESSAIEALRLPEQPVDVPSEI 350
351 ADSSMTRPQELPELPKTTALELQESSVASAMELPGPPATSMPELQGPPVT 400
401 PVLELPGPSATPVPELPGPLSTPVPELPGPPATAVPELPGPSVTPVPQLS 450
451 QELPGLPAPSMGLEPPQEVPEPPVMAQELPGLPLVTAAVELPEQPAVTVA 500
501 MELTEQPVTTTELEQPVGMTTVEHPGHPEVTTATGLLGQPEATMVLELPG 550
551 QPVATTALELPGQPSVTGVPELPGLPSATRALELSGQPVATGALELPGPL 600
601 MAAGALEFSGQSGAAGALELLGQPLATGVLELPGQPGAPELPGQPVATVA 650
651 LEISVQSVVTTSELSTMTVSQSLEVPSTTALESYNTVAQELPTTLVGETS 700
701 VTVGVDPLMAPESHILASNTMETHILASNTMDSQMLASNTMDSQMLASNT 750
751 MDSQMLASSTMDSQMLATSSMDSQMLATSSMDSQMLATSTMDSQMLATSS 800
801 MDSQMLATSSMDSQMLATSSMDSQMLATSSMDSQMLATSTMDSQMLATST 850
851 MDSQMLATSSMDSQMLASGTMDSQMLASGTMDAQMLASGTMDAQMLASST 900
901 QDSAMLGSKSPDPYRLAQDPYRLAQDPYRLGHDPYRLGHDAYRLGQDPYR 950
951 LGHDPYRLTPDPYRMSPRPYRIAPRSYRIAPRPYRLAPRPLMLASRRSMM 1000
1001 MSYAAERSMMSSYERSMMSYERSMMSPMAERSMMSAYERSMMSAYERSMM 1050
1051 SPMAERSMMSAYERSMMSAYERSMMSPMADRSMMSMGADRSMMSSYSAAD 1100
1101 RSMMSSYSAADRSMMSSYTADRSMMSMAADSYTDSYTDTYTEAYMVPPLP 1150
1151 PEEPPTMPPLPPEEPPMTPPLPPEEPPEGPALPTEQSALTAENTWPTEVP 1200
1201 SSPSEESVSQPEPPVSQSEISEPSAVPTDYSVSASDPSVLVSEAAVTVPE 1250
1251 PPPEPESSITLTPVESAVVAEEHEVVPERPVTCMVSETPAMSAEPTVLAS 1300
1301 EPPVMSETAETFDSMRASGHVASEVSTSLLVPAVTTPVLAESILEPPAMA 1350
1351 APESSAMAVLESSAVTVLESSTVTVLESSTVTVLEPSVVTVPEPPVVAEP 1400
1401 DYVTIPVPVVSALEPSVPVLEPAVSVLQPSMIVSEPSVSVQESTVTVSEP 1450
1451 AVTVSEQTQVIPTEVAIESTPMILESSIMSSHVMKGINLSSGDQNLAPEI 1500
1501 GMQEIALHSGEEPHAEEHLKGDFYESEHGINIDLNINNHLIAKEMEHNTV 1550
1551 CAAGTSPVGEIGEEKILPTSETKQRTVLDTYPGVSEADAGETLSSTGPFA 1600
1601 LEPDATGTSKGIEFTTASTLSLVNKYDVDLSLTTQDTEHDMVISTSPSGG 1650
1651 SEADIEGPLPAKDIHLDLPSNNNLVSKDTEEPLPVKESDQTLAALLSPKE 1700
1701 SSGGEKEVPPPPKETLPDSGFSANIEDINEADLVRPLLPKDMERLTSLRA 1750
1751 GIEGPLLASDVGRDRSAASPVVSSMPERASESSSEEKDDYEIFVKVKDTH 1800
1801 EKSKKNKNRDKGEKEKKRDSSLRSRSKRSKSSEHKSRKRTSESRSRARKR 1850
1851 SSKSKSHRSQTRSRSRSRRRRRSSRSRSKSRGRRSVSKEKRKRSPKHRSK 1900
1901 SRERKRKRSSSRDNRKTVRARSRTPSRRSRSHTPSRRRRSRSVGRRRSFS 1950
1951 ISPSRRSRTPSRRSRTPSRRSRTPSRRSRTPSRRSRTPSRRSRTPSRRRR 2000
2001 SRSVVRRRSFSISPVRLRRSRTPLRRRFSRSPIRRKRSRSSERGRSPKRL 2050
2051 TDLDKAQLLEIAKANAAAMCAKAGVPLPPNLKPAPPPTIEEKVAKKSGGA 2100
2101 TIEELTEKCKQIAQSKEDDDVIVNKPHVSDEEEEEPPFYHHPFKLSEPKP 2150
2151 IFFNLNIAAAKPTPPKSQVTLTKEFPVSSGSQHRKKEADSVYGEWVPVEK 2200
2201 NGEENKDDDNVFSSNLPSEPVDISTAMSERALAQKRLSENAFDLEAMSML 2250
2251 NRAQERIDAWAQLNSIPGQFTGSTGVQVLTQEQLANTGAQAWIKKDQFLR 2300
2301 AAPVTGGMGAVLMRKMGWREGEGLGKNKEGNKEPILVDFKTDRKGLVAVG 2350
2351 ERAQKRSGNFSAAMKDLSGKHPVSALMEICNKRRWQPPEFLLVHDSGPDH 2400
2401 RKHFLFRVLRNGALTRPNCMFFLNRY 2426
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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