 | Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden. |
NucPred
Fetching P16112 from www.uniprot.org...
The NucPred score for your sequence is 0.36 (see score help below)
1 MTTLLWVFVTLRVITAAVTVETSDHDNSLSVSIPQPSPLRVLLGTSLTIP 50
51 CYFIDPMHPVTTAPSTAPLAPRIKWSRVSKEKEVVLLVATEGRVRVNSAY 100
101 QDKVSLPNYPAIPSDATLEVQSLRSNDSGVYRCEVMHGIEDSEATLEVVV 150
151 KGIVFHYRAISTRYTLDFDRAQRACLQNSAIIATPEQLQAAYEDGFHQCD 200
201 AGWLADQTVRYPIHTPREGCYGDKDEFPGVRTYGIRDTNETYDVYCFAEE 250
251 MEGEVFYATSPEKFTFQEAANECRRLGARLATTGQLYLAWQAGMDMCSAG 300
301 WLADRSVRYPISKARPNCGGNLLGVRTVYVHANQTGYPDPSSRYDAICYT 350
351 GEDFVDIPENFFGVGGEEDITVQTVTWPDMELPLPRNITEGEARGSVILT 400
401 VKPIFEVSPSPLEPEEPFTFAPEIGATAFAEVENETGEATRPWGFPTPGL 450
451 GPATAFTSEDLVVQVTAVPGQPHLPGGVVFHYRPGPTRYSLTFEEAQQAC 500
501 LRTGAVIASPEQLQAAYEAGYEQCDAGWLRDQTVRYPIVSPRTPCVGDKD 550
551 SSPGVRTYGVRPSTETYDVYCFVDRLEGEVFFATRLEQFTFQEALEFCES 600
601 HNATLATTGQLYAAWSRGLDKCYAGWLADGSLRYPIVTPRPACGGDKPGV 650
651 RTVYLYPNQTGLPDPLSRHHAFCFRGISAVPSPGEEEGGTPTSPSGVEEW 700
701 IVTQVVPGVAAVPVEEETTAVPSGETTAILEFTTEPENQTEWEPAYTPVG 750
751 TSPLPGILPTWPPTGAATEESTEGPSATEVPSASEEPSPSEVPFPSEEPS 800
801 PSEEPFPSVRPFPSVELFPSEEPFPSKEPSPSEEPSASEEPYTPSPPVPS 850
851 WTELPSSGEESGAPDVSGDFTGSGDVSGHLDFSGQLSGDRASGLPSGDLD 900
901 SSGLTSTVGSGLPVESGLPSGDEERIEWPSTPTVGELPSGAEILEGSASG 950
951 VGDLSGLPSGEVLETSASGVGDLSGLPSGEVLETTAPGVEDISGLPSGEV 1000
1001 LETTAPGVEDISGLPSGEVLETTAPGVEDISGLPSGEVLETTAPGVEDIS 1050
1051 GLPSGEVLETTAPGVEDISGLPSGEVLETTAPGVEDISGLPSGEVLETAA 1100
1101 PGVEDISGLPSGEVLETAAPGVEDISGLPSGEVLETAAPGVEDISGLPSG 1150
1151 EVLETAAPGVEDISGLPSGEVLETAAPGVEDISGLPSGEVLETAAPGVED 1200
1201 ISGLPSGEVLETAAPGVEDISGLPSGEVLETAAPGVEDISGLPSGEVLET 1250
1251 AAPGVEDISGLPSGEVLETAAPGVEDISGLPSGEVLETAAPGVEDISGLP 1300
1301 SGEVLETAAPGVEDISGLPSGEVLETAAPGVEDISGLPSGEVLETAAPGV 1350
1351 EDISGLPSGEVLETAAPGVEDISGLPSGEVLETAAPGVEDISGLPSGEVL 1400
1401 ETTAPGVEEISGLPSGEVLETTAPGVDEISGLPSGEVLETTAPGVEEISG 1450
1451 LPSGEVLETSTSAVGDLSGLPSGGEVLEISVSGVEDISGLPSGEVVETSA 1500
1501 SGIEDVSELPSGEGLETSASGVEDLSRLPSGEEVLEISASGFGDLSGLPS 1550
1551 GGEGLETSASEVGTDLSGLPSGREGLETSASGAEDLSGLPSGKEDLVGSA 1600
1601 SGDLDLGKLPSGTLGSGQAPETSGLPSGFSGEYSGVDLGSGPPSGLPDFS 1650
1651 GLPSGFPTVSLVDSTLVEVVTASTASELEGRGTIGISGAGEISGLPSSEL 1700
1701 DISGRASGLPSGTELSGQASGSPDVSGEIPGLFGVSGQPSGFPDTSGETS 1750
1751 GVTELSGLSSGQPGISGEASGVLYGTSQPFGITDLSGETSGVPDLSGQPS 1800
1801 GLPGFSGATSGVPDLVSGTTSGSGESSGITFVDTSLVEVAPTTFKEEEGL 1850
1851 GSVELSGLPSGEADLSGKSGMVDVSGQFSGTVDSSGFTSQTPEFSGLPSG 1900
1901 IAEVSGESSRAEIGSSLPSGAYYGSGTPSSFPTVSLVDRTLVESVTQAPT 1950
1951 AQEAGEGPSGILELSGAHSGAPDMSGEHSGFLDLSGLQSGLIEPSGEPPG 2000
2001 TPYFSGDFASTTNVSGESSVAMGTSGEASGLPEVTLITSEFVEGVTEPTI 2050
2051 SQELGQRPPVTHTPQLFESSGKVSTAGDISGATPVLPGSGVEVSSVPESS 2100
2101 SETSAYPEAGFGASAAPEASREDSGSPDLSETTSAFHEANLERSSGLGVS 2150
2151 GSTLTFQEGEASAAPEVSGESTTTSDVGTEAPGLPSATPTASGDRTEISG 2200
2201 DLSGHTSQLGVVISTSIPESEWTQQTQRPAETHLEIESSSLLYSGEETHT 2250
2251 VETATSPTDASIPASPEWKRESESTAAAPARSCAEEPCGAGTCKETEGHV 2300
2301 ICLCPPGYTGEHCNIDQEVCEEGWNKYQGHCYRHFPDRETWVDAERRCRE 2350
2351 QQSHLSSIVTPEEQEFVNNNAQDYQWIGLNDRTIEGDFRWSDGHPMQFEN 2400
2401 WRPNQPDNFFAAGEDCVVMIWHEKGEWNDVPCNYHLPFTCKKGTVACGEP 2450
2451 PVVEHARTFGQKKDRYEINSLVRYQCTEGFVQRHMPTIRCQPSGHWEEPQ 2500
2501 ITCTDPTTYKRRLQKRSSRHPRRSRPSTAH 2530
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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