SBC logo Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden.

NucPred

Fetching Q9UUL4 from www.uniprot.org...

The NucPred score for your sequence is 0.40 (see score help below)

   1  MLFFSIPTILLIFFLFIQIITAAFLTDENEPWNLNRNWTAQKILDYSAEW    50
  51  NSHEYFPSPSNWRALPFYTIILDKWTNGVPENDVAEDTVFESDPYEVTFR   100
 101  AGGDIVGLVTPRSLDYLESMGIKAVYIAGTPFQNLPWYPDGYSPLDFTLL   150
 151  DKHTGTLNQWHEAIMKLHERGFYVVVDFTISTLSELSYFVNSSMSFANTS   200
 201  APFSTKGYKMKYKHPEYHYTDFQLSNGSSYSCNAPTFWDVTGLPINNTED   250
 251  LNSISEVMCLSGDFDHYGDVEAFGNHPPWWRQLSNFASVQDRLRDWDPIV   300
 301  AKKLKHLGCLAVKMLDIDGIRVDKATQITADFLGDWSAYIRQCAREIGKE   350
 351  NFFIPGEVTSGADFGSIYVGRGRQADQRPNNREIALQTGYNESKYFLRKE   400
 401  SDSALDSVSFHYSVYRTLTLLLGLQGELFAAFDLNRHDFAAMWNQMLIQD   450
 451  DMINANTKKFDPRHLYGLTNQDIFRWPSIKDGRFKQLLGLFVVHLLMPGI   500
 501  PLIYYGEEQNLKLLDNQAANYIFGRQPITSSIGWQKHGCYQIGTTQYTDL   550
 551  DFGPASEACRDDWNSLDHLDPTSPTKHYIARMNEIRSYFPQVRDGWDLKL   600
 601  IGKWTHEGTFPGNELYGESNPTTWGLWSMIRGPLAPYQKFSDQNDYIWLI   650
 651  FTNENTTKTYDMDCMRQVDNKFPPYPALLGPYSSGSTVKNLLYPYEEIDL   700
 701  STSTIDSPDIGNIGCIPHLTIDAYGSKIFVKKEDWIRPSLYLTKFLPGHD   750
 751  SRIYSATEVTSFKISLGFSEEVDCKDLFKRIGFNSRTLNSSFAPKILEDS   800
 801  ISCGYLDQPAPQEYTNAPVTKWFFNATLDSVPNGMHELLLNEVKSTSNQT   850
 851  MQSKIARLIFRVGNEENPLVYPNNATFSPSLLYKASNGDLYVNHTGAGAD   900
 901  KYRFSLNYGGTYSKWKTVSTPSEKLRKPTWNGTNLQKWDGDHLIVQYWSS   950
 951  IALSTAHVQHGDTLNYSRQFPNLFVQGAFNRFGYDGSMPSKMSYNLENRT  1000
1001  WSYDLISTWPAELVLNVWGMNPDNNADQGWVYGDLDNDTIIDRVPPGSSR  1050
1051  ISNFIRFLDPPPKPYLSYKMYLNDFTRQLHYIPKGSWTVQIVAIVLLILL  1100
1101  PPLFGIFSVALYSGAFSRVTIFNGSHNRGIKVAKQKIKSIMSRIFPFSVH  1150
1151  LPLDNSSELLKQLPESEKRLNVLVATLEYDVPDLGIRVKIGGLGVMAQLM  1200
1201  GQHMEFQDMVWVVPIISGVEYPFDKLCTEPKIAVKIGDDEFVVNCYSYKS  1250
1251  GNITYVFLQSEVFYKQSSKEPYPLKMDDLASAIFYSVWNQCIAEVWKRFP  1300
1301  LDIYHVNDYHGALAPLYLLPEVIPVAVSLHNAEFQGLWPLRTSAELECVC  1350
1351  SIFNIEKDICTKYVQFGHVFNLLHSIISYVRKHQGGYGVVAVSDKYSKQT  1400
1401  LSRYPIFWSLVHISGLPNPDPSDLKLLNHLTDDPVDVDFVLEAKRKLLKK  1450
1451  QTQEWANLDVDPSAQLLVFVGRWSHQKGIDLIADLAPKLLTEHNVQLITI  1500
1501  GPVIDLHGQFAAEKLEQIAKRFPTRVLCKPVFTAVPPFLFAGTDFALIPS  1550
1551  RDEPFGLVAVEFGRKGVLCIGSRTGGLGHMPGWWFQMASPNTGHLLTQFE  1600
1601  NAITKALHSNGELRARLRVEALRQRFPVCIWKQKSENLLKSCIYVHEMET  1650
1651  LKHASPTFKAYQFVVRICHYLTSKVKSINKDQVFNAFSPDVSERPPLFEV  1700
1701  ASCSNETDSVEKLTPELSVSPESDMHFKDGNSSKLEIVESKEIYASDSDI  1750
1751  SNSTSEDINKDECVSKDIEVDNFALNLQSQSYEGDSNDFGIREVPLSDAN  1800
1801  QSSQADSTSIDRYGPYSSQKVNFSKYKDFVESRPTFFQSSVTFTDADGST  1850
1851  RKTFSKRLENLTTSNTLKSLSVDHFIRKHERKYFNGLRKQEIDVKLKSRS  1900
1901  DKEKSCTVSESYKQIDCDTYEATRLQKLLLHSIGGWPLYTIVLAIGQILG  1950
1951  ASSYQLTLLSGESAQSTVSMYILLSIFSFFSLFWWFLSRVVQARYILSLP  2000
2001  FFFFGISFILVAITHFFQKTTACSVIQHIAAYVYAISSSTGSLYFAWNFG  2050
2051  AEGGIATHHWILRACLVHGIQQIWSAILWSWGDLLSKKDLTQNVGPGIFA  2100
2101  GGLIASFICFGLSYVTFAGLPAFYRQAPSIIPAFYRSLGKRNIVIWFFIS  2150
2151  QILINYWLAVPYGQAWRFFWNTSNTPLWSIIILLLIFFIVVWAVLLSVIK  2200
2201  ILSLNNVWFPVIFGLGLICPRWCLEFWSSSGLGINLPWAGKASALLTKSV  2250
2251  WLLLALWDGIQGVGVGVMLLQTLARDHVAFTLMLAQVISCITIMIAKPSL  2300
2301  PVSDRVFPNLGAWNPSEGPGPCASPCFYIALICQFVAVGGLLYHYRKSQL  2350
2351  AL                                                  2352

Positively and negatively influencing subsequences are coloured according to the following scale:

(non-nuclear) negative ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| positive (nuclear)

with NucPred



If you find NucPred useful, please cite this paper:
NucPred - Predicting Nuclear Localization of Proteins. Brameier M, Krings A, Maccallum RM. Bioinformatics, 2007. PubMed id: 17332022
The authors also look forward to your comments and suggestions.

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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