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

NucPred

Fetching P59764 from www.uniprot.org...

The NucPred score for your sequence is 0.87 (see score help below)

   1  MWIPTEHEKYGVVIASFRGTVPYGLSLEIGDTVQILEKCDGWYRGFALKN    50
  51  PNIKGIFPSSYVHLKNACVKNKGQFEMVIPTEDSVITEMTSTLRDWGTMW   100
 101  KQLYVRNEGDLFHRLWHIMNEILDLRRQVLVGHLTHDRMKDVKRHITARL   150
 151  DWGNEQLGLDLVPRKEYAMVDPEDISITELYRLMEHRHRKKDTPVQASSH   200
 201  HLFVQMKSLMCSNLGEELEVIFSLFDSKENRPISERFFLRLNRNGLPKAP   250
 251  DKPERHCSLFVDLGSSELRKDIYITVHIIRIGRMGAGEKKNACSVQYRRP   300
 301  FGCAVLSIADLLTGETKDDLVLKVYMCNTESEWYQIHENIIKKLNARYNL   350
 351  TGSNAGLAVSLQLLHGDIEQIRREYSSVFSHGVSITRKLGFSDIIMPGEM   400
 401  RNDLYITVERGEFEKGGKSVARNVEVTMFIVDSNGQPLKDFISFGSGEPP   450
 451  ASEYHSFVLYHNNSPRWSELLKLPIPVDKFRGSHIRFEFRHCSTKEKGEK   500
 501  KLFGFSFVPLMQEDGRTLPDGTHELIVHKCEENTNLQDTTRYLKLPFSKV   550
 551  IFLGNNNQTMKATKESFWITSFLCSTKLTQNGDMLDLLKWRTHPDKITGC   600
 601  LSKLKEIDGSEIVKFLQDTLDTLFGILDENSQKYGSKVFDSLVHIINLLQ   650
 651  DSKFHHFKPVMDTYIESHFAGALAYRDLIKVLKWYVDRITEAERQEHIQE   700
 701  VLKAQEYIFKYIVQSRRLFSLATGGQNEEEFRCCIQELLMSVRFFLSQES   750
 751  KGTGALSQSQAVFLSSFPAVYSELLKLFDVREVANLVQDTLGSLPTIMHV   800
 801  DDSLQAIKLQCIGKTVESQLYTNPDSRYILLPVVLHHLHIHLQEQKDLIM   850
 851  CARILSNVFCLIKKNSSEKSVLEEIDVIVASLLDILLRTILEITSRPQAS   900
 901  SSAMRLQFQDVTGEFVACLLSLLRQMTDRHYQQLLNSFSTKEELRDFLLQ   950
 951  IFTVFRILIRPEMFPKDWTVMRLVANNVIITTVLYLSDALRKNFLNENFD  1000
1001  YKIWDSYFYLAVIFINQLCLQLEMFTPSKKKKVLEKYGDMRVTMGCEIFS  1050
1051  MWQNLGEHKLHFIPALIGPFLEVTLIPQPDLRNVMIPIFHDMMDWEQRRS  1100
1101  GNFKQVEAKLIDKLDSLMSEGKGDETYRELFNSIIPLFGPYPSLLKKIER  1150
1151  ETWRESGVSLIATVTRLMERLLDYRDCMKIGEVDGKKIGCTVSLLNFYKT  1200
1201  ELNKEEMYIRYIHKLYDLHLKAQNFTEAAYTLLLYDELLEWSDRPLREFL  1250
1251  TYPMQTEWQRKEHLHLTIIQNFDRGKCWENGIILCRKIAEQYESYYDYRN  1300
1301  LSKMRMMEASLYDKIMDQQRLEPEFFRVGFYGKKFPFFLRNKEFVCRGHD  1350
1351  YERLEAFQQRMLNEFPHAIAMQHANQPDETIFQAEAQYLQIYAVTPIPES  1400
1401  QEVLQREGVPDNIKSFYKVNHIWKFRYDRPFHKGAKDKENEFKSLWVERT  1450
1451  SLYLVQSLPGISRWFEVEKREVVEMSPLENAIEVLENKNQQLKTLISQCQ  1500
1501  TRQMQNINPLTMCLNGVIDAAVNGGVSRYQEAFFVKDYILSHPEDGEKIA  1550
1551  RLRELMLEQAQILEFGLAVHEKFVPQDMRPLHKKLVDQFFVMKSSFGIQE  1600
1601  FPACIQASPVHFPNGSPRVCRNSAPASMSPDGTRVIPRRSPLSYPAVNRY  1650
1651  SSSSLSSQASAEVSNITGQSESSDEVFNMQPSPSTSSLSSTHSASPNVTS  1700
1701  SAPSSARASPLLSDKHKHSRENSCLSPRDRPCSAIYPTPVEPSQRMLFNH  1750
1751  IGDGALPRSDPNLSAPEKAVNPTPSSWSLDSGKEAKNMSDSGKLISPPVP  1800
1801  PRPTQTASPARHTTSVSPSPAGRSPLKGSVQSFTPSPVEYNSPGLSSNSP  1850
1851  VLSGSYSSGISSLSRCSTSETSGFENQANEQSVPVPVPVPVPVPVPSFSG  1900
1901  SEEPVRKESKTPPPYSVYERTLRRPVPLPHSLSIPVTSEPPALPPKPLAA  1950
1951  RSSHLENGTRRTEPGPRPRPLPRKVSQL                        1978

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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