 | Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden. |
NucPred
Fetching P21817 from www.uniprot.org...
The NucPred score for your sequence is 0.60 (see score help below)
1 MGDAEGEDEVQFLRTDDEVVLQCSATVLKEQLKLCLAAEGFGNRLCFLEP 50
51 TSNAQNVPPDLAICCFVLEQSLSVRALQEMLANTVEAGVESSQGGGHRTL 100
101 LYGHAILLRHAHSRMYLSCLTTSRSMTDKLAFDVGLQEDATGEACWWTMH 150
151 PASKQRSEGEKVRVGDDIILVSVSSERYLHLSTASGELQVDASFMQTLWN 200
201 MNPICSRCEEGFVTGGHVLRLFHGHMDECLTISPADSDDQRRLVYYEGGA 250
251 VCTHARSLWRLEPLRISWSGSHLRWGQPLRVRHVTTGQYLALTEDQGLVV 300
301 VDASKAHTKATSFCFRISKEKLDVAPKRDVEGMGPPEIKYGESLCFVQHV 350
351 ASGLWLTYAAPDPKALRLGVLKKKAMLHQEGHMDDALSLTRCQQEESQAA 400
401 RMIHSTNGLYNQFIKSLDSFSGKPRGSGPPAGTALPIEGVILSLQDLIIY 450
451 FEPPSEDLQHEEKQSKLRSLRNRQSLFQEEGMLSMVLNCIDRLNVYTTAA 500
501 HFAEFAGEEAAESWKEIVNLLYELLASLIRGNRSNCALFSTNLDWLVSKL 550
551 DRLEASSGILEVLYCVLIESPEVLNIIQENHIKSIISLLDKHGRNHKVLD 600
601 VLCSLCVCNGVAVRSNQDLITENLLPGRELLLQTNLINYVTSIRPNIFVG 650
651 RAEGTTQYSKWYFEVMVDEVTPFLTAQATHLRVGWALTEGYTPYPGAGEG 700
701 WGGNGVGDDLYSYGFDGLHLWTGHVARPVTSPGQHLLAPEDVISCCLDLS 750
751 VPSISFRINGCPVQGVFESFNLDGLFFPVVSFSAGVKVRFLLGGRHGEFK 800
801 FLPPPGYAPCHEAVLPRERLHLEPIKEYRREGPRGPHLVGPSRCLSHTDF 850
851 VPCPVDTVQIVLPPHLERIREKLAENIHELWALTRIEQGWTYGPVRDDNK 900
901 RLHPCLVDFHSLPEPERNYNLQMSGETLKTLLALGCHVGMADEKAEDNLK 950
951 KTKLPKTYMMSNGYKPAPLDLSHVRLTPAQTTLVDRLAENGHNVWARDRV 1000
1001 GQGWSYSAVQDIPARRNPRLVPYRLLDEATKRSNRDSLCQAVRTLLGYGY 1050
1051 NIEPPDQEPSQVENQSRCDRVRIFRAEKSYTVQSGRWYFEFEAVTTGEMR 1100
1101 VGWARPELRPDVELGADELAYVFNGHRGQRWHLGSEPFGRPWQPGDVVGC 1150
1151 MIDLTENTIIFTLNGEVLMSDSGSETAFREIEIGDGFLPVCSLGPGQVGH 1200
1201 LNLGQDVSSLRFFAICGLQEGFEPFAINMQRPVTTWFSKGLPQFEPVPLE 1250
1251 HPHYEVSRVDGTVDTPPCLRLTHRTWGSQNSLVEMLFLRLSLPVQFHQHF 1300
1301 RCTAGATPLAPPGLQPPAEDEARAAEPDPDYENLRRSAGGWSEAENGKEG 1350
1351 TAKEGAPGGTPQAGGEAQPARAENEKDATTEKNKKRGFLFKAKKVAMMTQ 1400
1401 PPATPTLPRLPHDVVPADNRDDPEIILNTTTYYYSVRVFAGQEPSCVWAG 1450
1451 WVTPDYHQHDMSFDLSKVRVVTVTMGDEQGNVHSSLKCSNCYMVWGGDFV 1500
1501 SPGQQGRISHTDLVIGCLVDLATGLMTFTANGKESNTFFQVEPNTKLFPA 1550
1551 VFVLPTHQNVIQFELGKQKNIMPLSAAMFQSERKNPAPQCPPRLEMQMLM 1600
1601 PVSWSRMPNHFLQVETRRAGERLGWAVQCQEPLTMMALHIPEENRCMDIL 1650
1651 ELSERLDLQRFHSHTLRLYRAVCALGNNRVAHALCSHVDQAQLLHALEDA 1700
1701 HLPGPLRAGYYDLLISIHLESACRSRRSMLSEYIVPLTPETRAITLFPPG 1750
1751 RSTENGHPRHGLPGVGVTTSLRPPHHFSPPCFVAALPAAGAAEAPARLSP 1800
1801 AIPLEALRDKALRMLGEAVRDGGQHARDPVGGSVEFQFVPVLKLVSTLLV 1850
1851 MGIFGDEDVKQILKMIEPEVFTEEEEEEDEEEEGEEEDEEEKEEDEEETA 1900
1901 QEKEDEEKEEEEAAEGEKEEGLEEGLLQMKLPESVKLQMCHLLEYFCDQE 1950
1951 LQHRVESLAAFAERYVDKLQANQRSRYGLLIKAFSMTAAETARRTREFRS 2000
2001 PPQEQINMLLQFKDGTDEEDCPLPEEIRQDLLDFHQDLLAHCGIQLDGEE 2050
2051 EEPEEETTLGSRLMSLLEKVRLVKKKEEKPEEERSAEESKPRSLQELVSH 2100
2101 MVVRWAQEDFVQSPELVRAMFSLLHRQYDGLGELLRALPRAYTISPSSVE 2150
2151 DTMSLLECLGQIRSLLIVQMGPQEENLMIQSIGNIMNNKVFYQHPNLMRA 2200
2201 LGMHETVMEVMVNVLGGGESKEIRFPKMVTSCCRFLCYFCRISRQNQRSM 2250
2251 FDHLSYLLENSGIGLGMQGSTPLDVAAASVIDNNELALALQEQDLEKVVS 2300
2301 YLAGCGLQSCPMLVAKGYPDIGWNPCGGERYLDFLRFAVFVNGESVEENA 2350
2351 NVVVRLLIRKPECFGPALRGEGGSGLLAAIEEAIRISEDPARDGPGIRRD 2400
2401 RRREHFGEEPPEENRVHLGHAIMSFYAALIDLLGRCAPEMHLIQAGKGEA 2450
2451 LRIRAILRSLVPLEDLVGIISLPLQIPTLGKDGALVQPKMSASFVPDHKA 2500
2501 SMVLFLDRVYGIENQDFLLHVLDVGFLPDMRAAASLDTATFSTTEMALAL 2550
2551 NRYLCLAVLPLITKCAPLFAGTEHRAIMVDSMLHTVYRLSRGRSLTKAQR 2600
2601 DVIEDCLMSLCRYIRPSMLQHLLRRLVFDVPILNEFAKMPLKLLTNHYER 2650
2651 CWKYYCLPTGWANFGVTSEEELHLTRKLFWGIFDSLAHKKYDPELYRMAM 2700
2701 PCLCAIAGALPPDYVDASYSSKAEKKATVDAEGNFDPRPVETLNVIIPEK 2750
2751 LDSFINKFAEYTHEKWAFDKIQNNWSYGENIDEELKTHPMLRPYKTFSEK 2800
2801 DKEIYRWPIKESLKAMIAWEWTIEKAREGEEEKTEKKKTRKISQSAQTYD 2850
2851 PREGYNPQPPDLSAVTLSRELQAMAEQLAENYHNTWGRKKKQELEAKGGG 2900
2901 THPLLVPYDTLTAKEKARDREKAQELLKFLQMNGYAVTRGLKDMELDSSS 2950
2951 IEKRFAFGFLQQLLRWMDISQEFIAHLEAVVSSGRVEKSPHEQEIKFFAK 3000
3001 ILLPLINQYFTNHCLYFLSTPAKVLGSGGHASNKEKEMITSLFCKLAALV 3050
3051 RHRVSLFGTDAPAVVNCLHILARSLDARTVMKSGPEIVKAGLRSFFESAS 3100
3101 EDIEKMVENLRLGKVSQARTQVKGVGQNLTYTTVALLPVLTTLFQHIAQH 3150
3151 QFGDDVILDDVQVSCYRTLCSIYSLGTTKNTYVEKLRPALGECLARLAAA 3200
3201 MPVAFLEPQLNEYNACSVYTTKSPRERAILGLPNSVEEMCPDIPVLERLM 3250
3251 ADIGGLAESGARYTEMPHVIEITLPMLCSYLPRWWERGPEAPPSALPAGA 3300
3301 PPPCTAVTSDHLNSLLGNILRIIVNNLGIDEASWMKRLAVFAQPIVSRAR 3350
3351 PELLQSHFIPTIGRLRKRAGKVVSEEEQLRLEAKAEAQEGELLVRDEFSV 3400
3401 LCRDLYALYPLLIRYVDNNRAQWLTEPNPSAEELFRMVGEIFIYWSKSHN 3450
3451 FKREEQNFVVQNEINNMSFLTADNKSKMAKAGDIQSGGSDQERTKKKRRG 3500
3501 DRYSVQTSLIVATLKKMLPIGLNMCAPTDQDLITLAKTRYALKDTDEEVR 3550
3551 EFLHNNLHLQGKVEGSPSLRWQMALYRGVPGREEDADDPEKIVRRVQEVS 3600
3601 AVLYYLDQTEHPYKSKKAVWHKLLSKQRRRAVVACFRMTPLYNLPTHRAC 3650
3651 NMFLESYKAAWILTEDHSFEDRMIDDLSKAGEQEEEEEEVEEKKPDPLHQ 3700
3701 LVLHFSRTALTEKSKLDEDYLYMAYADIMAKSCHLEEGGENGEAEEEVEV 3750
3751 SFEEKQMEKQRLLYQQARLHTRGAAEMVLQMISACKGETGAMVSSTLKLG 3800
3801 ISILNGGNAEVQQKMLDYLKDKKEVGFFQSIQALMQTCSVLDLNAFERQN 3850
3851 KAEGLGMVNEDGTVINRQNGEKVMADDEFTQDLFRFLQLLCEGHNNDFQN 3900
3901 YLRTQTGNTTTINIIICTVDYLLRLQESISDFYWYYSGKDVIEEQGKRNF 3950
3951 SKAMSVAKQVFNSLTEYIQGPCTGNQQSLAHSRLWDAVVGFLHVFAHMMM 4000
4001 KLAQDSSQIELLKELLDLQKDMVVMLLSLLEGNVVNGMIARQMVDMLVES 4050
4051 SSNVEMILKFFDMFLKLKDIVGSEAFQDYVTDPRGLISKKDFQKAMDSQK 4100
4101 QFSGPEIQFLLSCSEADENEMINCEEFANRFQEPARDIGFNVAVLLTNLS 4150
4151 EHVPHDPRLHNFLELAESILEYFRPYLGRIEIMGASRRIERIYFEISETN 4200
4201 RAQWEMPQVKESKRQFIFDVVNEGGEAEKMELFVSFCEDTIFEMQIAAQI 4250
4251 SEPEGEPETDEDEGAGAAEAGAEGAEEGAAGLEGTAATAAAGATARVVAA 4300
4301 AGRALRGLSYRSLRRRVRRLRRLTAREAATAVAALLWAAVTRAGAAGAGA 4350
4351 AAGALGLLWGSLFGGGLVEGAKKVTVTELLAGMPDPTSDEVHGEQPAGPG 4400
4401 GDADGEGASEGAGDAAEGAGDEEEAVHEAGPGGADGAVAVTDGGPFRPEG 4450
4451 AGGLGDMGDTTPAEPPTPEGSPILKRKLGVDGVEEELPPEPEPEPEPELE 4500
4501 PEKADAENGEKEEVPEPTPEPPKKQAPPSPPPKKEEAGGEFWGELEVQRV 4550
4551 KFLNYLSRNFYTLRFLALFLAFAINFILLFYKVSDSPPGEDDMEGSAAGD 4600
4601 VSGAGSGGSSGWGLGAGEEAEGDEDENMVYYFLEESTGYMEPALRCLSLL 4650
4651 HTLVAFLCIIGYNCLKVPLVIFKREKELARKLEFDGLYITEQPEDDDVKG 4700
4701 QWDRLVLNTPSFPSNYWDKFVKRKVLDKHGDIYGRERIAELLGMDLATLE 4750
4751 ITAHNERKPNPPPGLLTWLMSIDVKYQIWKFGVIFTDNSFLYLGWYMVMS 4800
4801 LLGHYNNFFFAAHLLDIAMGVKTLRTILSSVTHNGKQLVMTVGLLAVVVY 4850
4851 LYTVVAFNFFRKFYNKSEDEDEPDMKCDDMMTCYLFHMYVGVRAGGGIGD 4900
4901 EIEDPAGDEYELYRVVFDITFFFFVIVILLAIIQGLIIDAFGELRDQQEQ 4950
4951 VKEDMETKCFICGIGSDYFDTTPHGFETHTLEEHNLANYMFFLMYLINKD 5000
5001 ETEHTGQESYVWKMYQERCWDFFPAGDCFRKQYEDQLS 5038
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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