| Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden. |
NucPred
Fetching P41832 from www.uniprot.org...
The NucPred score for your sequence is 0.95 (see score help below)
1 MLKNSGSKHSNSKESHSNSSSGIFQNLKRLANSNATNSNTGSPTYASQQQ 50
51 HSPVGNEVSTSPASSSSFRKLNAPSRSTSTEARPLNKKSTLNTQNLSQYM 100
101 NGKLSGDVPVSSQHARSHSMQSKYSYSKRNSSQASNKLTRQHTGQSHSAS 150
151 SLLSQGSLTNLSKFTTPDGKIYLEMPSDPYEVEVLFEDIMYKRNIFQSLS 200
201 EDKQEALMGYSIEKKWLIVKQDLQNELKKMRANTTSSSTASRTSMASDHH 250
251 PILTANSSLSSPKSVLMTSASSPTSTVYSNSLNHSTTLSSVGTSTSKGKK 300
301 LVSGSLKKQPSLNNIYRGGAENNTSASTLPGDRTNRPPIHYVQRILADKL 350
351 TSDEMKDLWVTLRTEQLDWVDAFIDHQGHIAMANVLMNSIYKTAPRENLT 400
401 KELLEKENSFFKCFRVLSMLSQGLYEFSTHRLMTDTVAEGLFSTKLATRK 450
451 MATEIFVCMLEKKNKSRFEAVLTSLDKKFRIGQNLHMIQNFKKMPQYFSH 500
501 LTLESHLKIIQAWLFAVEQTLDGRGKMGSLVGASDEFKNGGGENAILEYC 550
551 QWTMVFINHLCSCSDNINQRMLLRTKLENCGILRIMNKIKLLDYDKVIDQ 600
601 IELYDNNKLDDFNVKLEANNKAFNVDLHDPLSLLKNLWDICKGTENEKLL 650
651 VSLVQHLFLSSSKLIEENQNSSKLTKQLKLMDSLVTNVSVASTSDEETNM 700
701 NMAIQRLYDAMQTDEVARRAILESRALTKKLEEIQAERDSLSEKLSKAEH 750
751 GLVGQLEDELHERDRILAKNQRVMQQLEAELEELKKKHLLEKHQQEVELR 800
801 KMLTILNSRPEESFNKNEGTRGMNSSLNSSEKANIQKVLQDGLSRAKKDY 850
851 KDDSKKFGMTLQPNKRLKMLRMQMENIENEARQLEMTNFAEFEKDRLEPP 900
901 IHIKKPKVKKMKNKDRKPLVKPQEADVNKLNDLRRALAEIQMESNDISKF 950
951 NVEERVNELFNEKKSLALKRLKELETKYKGFGIDFNVDEIMDSPKKNTGD 1000
1001 VETEEDANYASLDPKTYQKKLDEINRITDQLLDIQTQTEHEIQVEEDGES 1050
1051 DLSSSSSDDESEEIYQDASPTQELRSEHSELSSGSGPGSFLDALSQKYGT 1100
1101 GQNVTASAAFGENNNGSGIGPLHSKVEKTFMNRLRKSTVSSAPYLEELTQ 1150
1151 KVNKVEPYEQNEDEGLDKKSLPENSTASAASAFDKAEKDMRQHVENGKQG 1200
1201 RVVNHEEDKTADFSAVSKLNNTDGAEDLSTQSSVLSSQPPPPPPPPPPVP 1250
1251 AKLFGESLEKEKKSEDDTVKQETTGDSPAPPPPPPPPPPPPMALFGKPKG 1300
1301 ETPPPPPLPSVLSSSTDGVIPPAPPMMPASQIKSAVTSPLLPQSPSLFEK 1350
1351 YPRPHKKLKQLHWEKLDCTDNSIWGTGKAEKFADDLYEKGVLADLEKAFA 1400
1401 AREIKSLASKRKEDLQKITFLSRDISQQFGINLHMYSSLSVADLVKKILN 1450
1451 CDRDFLQTPSVVEFLSKSEIIEVSVNLARNYAPYSTDWEGVRNLEDAKPP 1500
1501 EKDPNDLQRADQIYLQLMVNLESYWGSRMRALTVVTSYEREYNELLAKLR 1550
1551 KVDKAVSALQESDNLRNVFNVILAVGNFMNDTSKQAQGFKLSTLQRLTFI 1600
1601 KDTTNSMTFLNYVEKIVRLNYPSFNDFLSELEPVLDVVKVSIEQLVNDCK 1650
1651 DFSQSIVNVERSVEIGNLSDSSKFHPLDKVLIKTLPVLPEARKKGDLLED 1700
1701 EVKLTIMEFESLMHTYGEDSGDKFAKISFFKKFADFINEYKKAQAQNLAA 1750
1751 EEEERLYIKHKKIVEEQQKRAQEKEKQKENSNSPSSEGNEEDEAEDRRAV 1800
1801 MDKLLEQLKNAGPAKSDPSSARKRALVRKKYLSEKDNAPQLLNDLDTEEG 1850
1851 SILYSPEAMDPTADTVIHAESPTPLATRGVMNTSEDLPSPSKTSALEDQE 1900
1901 EISDRARMLLKELRGSDTPVKQNSILDEHLEKLRARKERSIGEASTGNRL 1950
1951 SFK 1953
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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