 | Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden. |
NucPred
Fetching Q96Q15 from www.uniprot.org...
The NucPred score for your sequence is 0.77 (see score help below)
1 MSRRAPGSRLSSGGGGGGTKYPRSWNDWQPRTDSASADPDNLKYSSSRDR 50
51 GGSSSYGLQPSNSAVVSRQRHDDTRVHADIQNDEKGGYSVNGGSGENTYG 100
101 RKSLGQELRVNNVTSPEFTSVQHGSRALATKDMRKSQERSMSYSDESRLS 150
151 NLLRRITREDDRDRRLATVKQLKEFIQQPENKLVLVKQLDNILAAVHDVL 200
201 NESSKLLQELRQEGACCLGLLCASLSYEAEKIFKWIFSKFSSSAKDEVKL 250
251 LYLCATYKALETVGEKKAFSSVMQLVMTSLQSILENVDTPELLCKCVKCI 300
301 LLVARCYPHIFSTNFRDTVDILVGWHIDHTQKPSLTQQVSGWLQSLEPFW 350
351 VADLAFSTTLLGQFLEDMEAYAEDLSHVASGESVDEDVPPPSVSLPKLAA 400
401 LLRVFSTVVRSIGERFSPIRGPPITEAYVTDVLYRVMRCVTAANQVFFSE 450
451 AVLTAANECVGVLLGSLDPSMTIHCDMVITYGLDQLENCQTCGTDYIISV 500
501 LNLLTLIVEQINTKLPSSFVEKLFIPSSKLLFLRYHKEKEVVAVAHAVYQ 550
551 AVLSLKNIPVLETAYKLILGEMTCALNNLLHSLQLPEACSEIKHEAFKNH 600
601 VFNVDNAKFVVIFDLSALTTIGNAKNSLIGMWALSPTVFALLSKNLMIVH 650
651 SDLAVHFPAIQYAVLYTLYSHCTRHDHFISSSLSSSSPSLFDGAVISTVT 700
701 TATKKHFSIILNLLGILLKKDNLNQDTRKLLMTWALEAAVLMKKSETYAP 750
751 LFSLPSFHKFCKGLLANTLVEDVNICLQACSSLHALSSSLPDDLLQRCVD 800
801 VCRVQLVHSGTRIRQAFGKLLKSIPLDVVLSNNNHTEIQEISLALRSHMS 850
851 KAPSNTFHPQDFSDVISFILYGNSHRTGKDNWLERLFYSCQRLDKRDQST 900
901 IPRNLLKTDAVLWQWAIWEAAQFTVLSKLRTPLGRAQDTFQTIEGIIRSL 950
951 AAHTLNPDQDVSQWTTADNDEGHGNNQLRLVLLLQYLENLEKLMYNAYEG 1000
1001 CANALTSPPKVIRTFFYTNRQTCQDWLTRIRLSIMRVGLLAGQPAVTVRH 1050
1051 GFDLLTEMKTTSLSQGNELEVTIMMVVEALCELHCPEAIQGIAVWSSSIV 1100
1101 GKNLLWINSVAQQAEGRFEKASVEYQEHLCAMTGVDCCISSFDKSVLTLA 1150
1151 NAGRNSASPKHSLNGESRKTVLSKPTDSSPEVINYLGNKACECYISIADW 1200
1201 AAVQEWQNAIHDLKKSTSSTSLNLKADFNYIKSLSSFESGKFVECTEQLE 1250
1251 LLPGENINLLAGGSKEKIDMKKLLPNMLSPDPRELQKSIEVQLLRSSVCL 1300
1301 ATALNPIEQDQKWQSITENVVKYLKQTSRIAIGPLRLSTLTVSQSLPVLS 1350
1351 TLQLYCSSALENTVSNRLSTEDCLIPLFSEALRSCKQHDVRPWMQALRYT 1400
1401 MYQNQLLEKIKEQTVPIRSHLMELGLTAAKFARKRGNVSLATRLLAQCSE 1450
1451 VQLGKTTTAQDLVQHFKKLSTQGQVDEKWGPELDIEKTKLLYTAGQSTHA 1500
1501 MEMLSSCAISFCKSVKAEYAVAKSILTLAKWIQAEWKEISGQLKQVYRAQ 1550
1551 HQQNFTGLSTLSKNILTLIELPSVNTMEEEYPRIESESTVHIGVGEPDFI 1600
1601 LGQLYHLSSVQAPEVAKSWAALASWAYRWGRKVVDNASQGEGVRLLPREK 1650
1651 SEVQNLLPDTITEEEKERIYGILGQAVCRPAGIQDEDITLQITESEDNEE 1700
1701 DDMVDVIWRQLISSCPWLSELDESATEGVIKVWRKVVDRIFSLYKLSCSA 1750
1751 YFTFLKLNAGQIPLDEDDPRLHLSHRVEQSTDDMIVMATLRLLRLLVKHA 1800
1801 GELRQYLEHGLETTPTAPWRGIIPQLFSRLNHPEVYVRQSICNLLCRVAQ 1850
1851 DSPHLILYPAIVGTISLSSESQASGNKFSTAIPTLLGNIQGEELLVSECE 1900
1901 GGSPPASQDSNKDEPKSGLNEDQAMMQDCYSKIVDKLSSANPTMVLQVQM 1950
1951 LVAELRRVTVLWDELWLGVLLQQHMYVLRRIQQLEDEVKRVQNNNTLRKE 2000
2001 EKIAIMREKHTALMKPIVFALEHVRSITAAPAETPHEKWFQDNYGDAIEN 2050
2051 ALEKLKTPLNPAKPGSSWIPFKEIMLSLQQRAQKRASYILRLEEISPWLA 2100
2101 AMTNTEIALPGEVSARDTVTIHSVGGTITILPTKTKPKKLLFLGSDGKSY 2150
2151 PYLFKGLEDLHLDERIMQFLSIVNTMFATINRQETPRFHARHYSVTPLGT 2200
2201 RSGLIQWVDGATPLFGLYKRWQQREAALQAQKAQDSYQTPQNPGIVPRPS 2250
2251 ELYYSKIGPALKTVGLSLDVSRRDWPLHVMKAVLEELMEATPPNLLAKEL 2300
2301 WSSCTTPDEWWRVTQSYARSTAVMSMVGYIIGLGDRHLDNVLIDMTTGEV 2350
2351 VHIDYNVCFEKGKSLRVPEKVPFRMTQNIETALGVTGVEGVFRLSCEQVL 2400
2401 HIMRRGRETLLTLLEAFVYDPLVDWTAGGEAGFAGAVYGGGGQQAESKQS 2450
2451 KREMEREITRSLFSSRVAEIKVNWFKNRDEMLVVLPKLDGSLDEYLSLQE 2500
2501 QLTDVEKLQGKLLEEIEFLEGAEGVDHPSHTLQHRYSEHTQLQTQQRAVQ 2550
2551 EAIQVKLNEFEQWITHYQAAFNNLEATQLASLLQEISTQMDLGPPSYVPA 2600
2601 TAFLQNAGQAHLISQCEQLEGEVGALLQQRRSVLRGCLEQLHHYATVALQ 2650
2651 YPKAIFQKHRIEQWKTWMEELICNTTVERCQELYRKYEMQYAPQPPPTVC 2700
2701 QFITATEMTLQRYAADINSRLIRQVERLKQEAVTVPVCEDQLKEIERCIK 2750
2751 VFLHENGEEGSLSLASVIISALCTLTRRNLMMEGAASSAGEQLVDLTSRD 2800
2801 GAWFLEELCSMSGNVTCLVQLLKQCHLVPQDLDIPNPMEASETVHLANGV 2850
2851 YTSLQELNSNFRQIIFPEALRCLMKGEYTLESMLHELDGLIEQTTDGVPL 2900
2901 QTLVESLQAYLRNAAMGLEEETHAHYIDVARLLHAQYGELIQPRNGSVDE 2950
2951 TPKMSAGQMLLVAFDGMFAQVETAFSLLVEKLNKMEIPIAWRKIDIIREA 3000
3001 RSTQVNFFDDDNHRQVLEEIFFLKRLQTIKEFFRLCGTFSKTLSGSSSLE 3050
3051 DQNTVNGPVQIVNVKTLFRNSCFSEDQMAKPIKAFTADFVRQLLIGLPNQ 3100
3101 ALGLTLCSFISALGVDIIAQVEAKDFGAESKVSVDDLCKKAVEHNIQIGK 3150
3151 FSQLVMNRATVLASSYDTAWKKHDLVRRLETSISSCKTSLQRVQLHIAMF 3200
3201 QWQHEDLLINRPQAMSVTPPPRSAILTSMKKKLHTLSQIETSIATVQEKL 3250
3251 AALESSIEQRLKWAGGANPALAPVLQDFEATIAERRNLVLKESQRASQVT 3300
3301 FLCSNIIHFESLRTRTAEALNLDAALFELIKRCQQMCSFASQFNSSVSEL 3350
3351 ELRLLQRVDTGLEHPIGSSEWLLSAHKQLTQDMSTQRAIQTEKEQQIETV 3400
3401 CETIQNLVDNIKTVLTGHNRQLGDVKHLLKAMAKDEEAALADGEDVPYEN 3450
3451 SVRQFLGEYKSWQDNIQTVLFTLVQAMGQVRSQEHVEMLQEITPTLKELK 3500
3501 TQSQSIYNNLVSFASPLVTDATNECSSPTSSATYQPSFAAAVRSNTGQKT 3550
3551 QPDVMSQNARKLIQKNLATSADTPPSTVPGTGKSVACSPKKAVRDPKTGK 3600
3601 AVQERNSYAVSVWKRVKAKLEGRDVDPNRRMSVAEQVDYVIKEATNLDNL 3650
3651 AQLYEGWTAWV 3661
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.) |
Go back to the NucPred Home Page.