| Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden. |
NucPred
Fetching Q8QG78 from www.uniprot.org...
The NucPred score for your sequence is 0.99 (see score help below)
1 MSSSGYPPNQGAFSTEQGRYSSHPVQYTFPSSRHQQEYSVSEYRTAHLEA 50
51 SQLIQQQQLRRRPSLLSEFHPVSDRPQDRRSGYDQQYHSISQNEHEALES 100
101 KRPRLDQVSDSHYRLNPAMVLLVPTIQEGVRVQSEVKKEQGLSSKHESSS 150
151 SPLSGQPGDDQDASPSKLSKEELIQSMDRVDREIAKVEQQILKLKKKQQQ 200
201 LEEEAAKPPEPEKPVSPPPVEQKHRSVVQIIYDENRKKAEEAHKFLEGLG 250
251 PKVELPLYNQPSDTKVYHENIKTNQVMRKKLILFFKRRNHARKLREQNIC 300
301 QRYDQLMEAWEKKVDRIENNPRRKAKESKTREYYEKQFPEIRKQREQQER 350
351 FQRVGQRGTGMSATIARSEHEISEIIDGLSEQENNEKQMRQLSVIPPMMF 400
401 DAEQRRVKFINTNGLMEDPMKVYKDRQFMNVWTDHEKEIFKEKFVRHPKN 450
451 FGLIASYLERKNVSDCVLYYYLTKKNENLKSLVRRNYPKRRGRNQQQITR 500
501 PSQEEKEIEKVEEEKADRNDKKEDERREEEEKEEKEELREGAKDKIDAVA 550
551 EDGDEKDQSMPRGRKTANNQGRRKGRVTRSMASEAAAANAVTTATTAPVT 600
601 TTSTATTVAPVPVAPPPEEPTPPPPPQEQSLVDHGRNWGAIAKMVGSKSE 650
651 SQCKNFYFNYKRRHNLDNLLQQHKQKSSRRPREERDVSQCDSIASTVSAQ 700
701 EDDENEASNEEENPEDSEGAENSSDTESAPSPSPAEAARLGDDSVDRTTS 750
751 SVSMEAPPEQDAASKPASDSSPSPIVENTKPPETQYAELKVKEEISTENE 800
801 QTMEVEERSQSAELKSALNLQVQTKAEPYETEAKPTESTTQVKTEVDSKE 850
851 DDSMERLMDRAEAADMGYAPPQNISQARQESQPDNDSSATCSADEEVDGE 900
901 PDRPRMYSFGSRPSLLNQAGTFLKQGPMDLQQLQHRAAVIPPMTSCSPCN 950
951 LTTGTAIAASNFSMYQRHLYENSLLEEQRQRQEQLTLENRMSASPGNMSK 1000
1001 SPNMDWEGKSVYMPYTEVKHPFEHEAQMQNVARSVSPYRLSPRDVGRVSP 1050
1051 QVDMNPSRYCVPPVLQPAPHQVITSLSDSARLPVTRPTRPPPPLIPSSKT 1100
1101 SATSSDKPSFITGGSISQGTPGTYLASLSQPYSQETLKPSVGSISLGLPR 1150
1151 QHESTKIGCVTYIKQEEFPSRGQSSQPEGLLVRAQHEGVVRGSMAAIQEG 1200
1201 SIARGTPATKVPLEAVSTLRGSITQGTPALSQSGIAADVLLKSTITRLAA 1250
1251 EDIGSPERCREDTSAKGHVIYEGKSGHIVSYDTIKNMREGTRSPRTAPEV 1300
1301 ALKRAYDTMEGNIKQAMSVREAAVSGPMEGLICRTLPKGSPHPELKDRQV 1350
1351 LSGSIMKGTPRTTSDNFDDGLKYAKQIKLESPPIRSFEGAISKGKPYEGV 1400
1401 TTIKELGRSIHEIPRQDLVSQESRKTPESSRQIMEGSISQGTPIKYESTS 1450
1451 GQSAIKHNVKSLITGPSNLSWGVPQMDNMPENLKMGERSKHEDTKSSDAI 1500
1501 RSRHTSVVSSGPSVLRSTLHEASKSQLSPGIYEDNNARRTPVNYPSPMSR 1550
1551 SSPMARSAEGCLTPSKSSSHERKSTLTPTQRESIVVKSPVPGVDPSAAHS 1600
1601 PFDTHLRSAPPGDVYRAHLPPHLDPALQFHRPLDPAAAAYLFQRQLSPTP 1650
1651 GYPSQYQLYAMENTRQTILNDYITSQQMQVNLRPDVARGLSPRDQGLGIP 1700
1701 YPGARGIIDLTNMPPAILVPHPGGTSTPPMDRITYIPGTQLAFPPRPYNP 1750
1751 ASMSPGHPAHLANSVSAERERERERERERDREREKEQRERESDRERERDR 1800
1801 LAHAAAAAAAASAPSEHYLRPVSEQPSRPSSRPSSHGYVRSPSPSVRAQE 1850
1851 SIMQQRPSIFLGTNGKSVITPLDAAQFRIMPPTPGAASITQGIPASRYST 1900
1901 AADALAALVDAATSAPQMEVAKPKESKNDSARSEENLSRRNALEQQQQID 1950
1951 CERRVMQSPYTSSSFSSSKSQSQPSSAVYSEAGKERTAHTKSRYVEELRM 2000
2001 RGKTTITAANFIDVIITQQIASDKDGRERNSQSSDASSSHSSHRYEAPRE 2050
2051 TIEVISPANSPVQEKESYPQEMPKSSQTETGEGSRKYDGQPNRYRQQQES 2100
2101 PPQQTIPGHVPQTHRLITLADHICHIITQDFARNQPVNQPLQQPPASTFQ 2150
2151 STNPTSTAVRTKASSRFSPESQVQPMHSPRPASRVSPENIPDKPRGRPGK 2200
2201 SPDRGHISEPYEPISPPQAPMLHTKQDNMMLLSQRQEPPEQRNDSRSPGN 2250
2251 INYLPSFFTKLENTSPMVMYKKQEIFRKLNSSGGGDSDMAAAQPGTEIFN 2300
2301 LPAVTTSGAISSRGHSFADPASNLGLEDIIRKALMGNFDDKSEDHGVLVG 2350
2351 VPQGNQSGTPNSEARREEANPSPNSGGGTHKQKLISKYGSRKTKSPISGS 2400
2401 QTYLGAERPSSVSSVHSEGDYRQASAWAWEDRPSSTGSTQFPYNPLTMGM 2450
2451 LNSTPPSSMSCIPTSMTQTSAHQQSRIWEREPAPLLSEQYETLSDSDE 2498
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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