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

NucPred

Fetching P31696 from www.uniprot.org...

The NucPred score for your sequence is 0.60 (see score help below)

   1  MGGSGAAATLALGLALGLALGGWANCPERELQRREEEANVVLTGTVEEIM    50
  51  NVDPVHHTYSCKVRVWRYLKGKDIVTHEILLDGGNKVVIGGFGDPLICDN   100
 101  QVSTGDTRIFFVNPAPQYMWPAHRNELMLNSSLMRITLRNLEEVEHCVEE   150
 151  HRKLLADKPNSYFTQTPPTPRDACRGMLCGFGAVCERSPTDPSQASCVCK   200
 201  KTACPVVVAPVCGSDYSTYSNECELEKAQCNQQRRIKVISKGPCGSKDPC   250
 251  AEVTCSFGSTCVRSADGQTAGCVCPASCSGVAESIVCGSDGKDYRSECDL   300
 301  NKHACDKQENVFKKFDGACDPCKGILNDMNRVCRVNPRTRRVELLSRPEN   350
 351  CPSKREPVCGDDGVTYASECVMGRTGAIRGLEIQKVRSGQCQHQDKCKDE   400
 401  CKFNAVCLKRWHARCSCDRITCDGTYRPVCARDSRTYSNDCERQKAECHQ   450
 451  KAAIPVKHSGPCDLGTPSPCLSVECTFGATCVVKNREPVCECQQVCQGRY   500
 501  DPVCGSDNRTYGNPCELNAMACVLKREIRVKHKGPCDRCGKCQFGAICEA   550
 551  ETGRCVCPTECVPSSQPVCGTDGNTYGSECELHVRACTQQKNILVAAQGD   600
 601  CKSCGTTVCSFGSTCVGGQCVCPRCEQQPLAQVCGTDGLTYDNRCELRAA   650
 651  SCQQQKSIEVAKMGPCEDECGSGGSGSGDGSECEQDRCRHYGGWWDEDAE   700
 701  DDRCVCDFTCLAVPRSPVCGSDDVTYANECELKKTRCEKRQNLYVTSQGA   750
 751  CRALTTTPPPLPVVHCSQTIYGCCPDNMTLALGVGAAGCPSTCQCNPYGS   800
 801  YGGTCDPATGQCSCKPGVGGLKCDRCEPGFWNFRGIVTDSKSGCTPCNCD   850
 851  PVGSVRDDCEQMTGLCSCKTGITGMKCNQCPNGSKMGMAGCEKDPSAPKS   900
 901  CEEMSCEFGATCVEVNGFAHCECPSPLCSEANMTKVCGSDGVTYGDQCQL   950
 951  KTIACRQGQLITVKHVGQCHESITHTSHTMPPTPLPTLPLDKLIVPPPLQ  1000
1001  LTTQAPEPTELATTSLLMEASPTTRSHPTTRRVTTTRPVTTPWMTHGVLK  1050
1051  TTVRPLSTSPVVLATTQPPYAESGSAEGSGDQEMSISGDQESSGAGSAGE  1100
1101  EEVEESQVTPTPAIERATCYNTPLGCCSDGKTAAADAEGSNCPATKVFQG  1150
1151  VLILEEVEGQELFYTPEMADPKSELFGETARSIESALDELFRNSDVKNDF  1200
1201  KSIRVRDLGQSSAVRVIVESHFDPATSYTAADVQAASLKQIRASKKRTIL  1250
1251  VKKPQQEHVKFMDFDWIPRIFTTTITTTTATTMAPATTRRHTTASAATTA  1300
1301  HILRQDTVGHPSAKLAAPASTRRPTSTLPTTARRKPTRQPPSTTKKPSRP  1350
1351  CDSHPCLHGGTCEDDGREFTCRCPAGKGGAVCEKPIRYFIPSFGGKSYLA  1400
1401  FKMMKAYHTVRIAMEFRATELSGLLLYNGQNRGKDFISLALVGGFVELRF  1450
1451  NTGSGTGVITSKVRVEPGKWHQLVVNRNRRSGMLAVDGEHVSGESPTGTD  1500
1501  GLNLDTDLFVGGAPEDQMAVVAERTAATVGLKGSIRLLDVNNQMYDLREK  1550
1551  GSDVLYGSGVGECGNDPCHPNPCHHGASCHVKEAEMFHCECLHSYTGPTC  1600
1601  ADERNPCDPTPCHISATCLVLPEGGAMCACPMGREGEFCERVTEQDHTMP  1650
1651  FLPEFNGFSYLELNGLQTLFLTCRQMSMEVVFLAKSPSGMIFYNGQKTDG  1700
1701  KGDFVSLALHDGYLEYRYDLGKGAAVLRSKEPVPLNTWISVLLERSGRKG  1750
1751  VMRINNGERVMGESPKSRKVPHAFLNLKEPFYVGGAPDFSKLARAAAIST  1800
1801  SFYGAVQRISIKGVPLLKEQHIRSAVEISTFRAHPCTQKPNPCQNGGTCS  1850
1851  PRLESYECACQRGFSGAHCEKVIIEKAAGDAEAIAFDGRTYMEYHNAVTK  1900
1901  SHLSNEIPAPDALDYPAEPSEKALQSNHFELSIKTEATQGLILWSGKGLE  1950
1951  RSDYIALAIVDGFVQMMYDLGSKPVVLRSTVPINTNHWTHIKAYRVQREG  2000
2001  SLQVGNEAPITGSSPLGATQLDTDGALWLGGMERLSVAHKLPKAYSTGFI  2050
2051  GCIRDVIVDRQELHLVEDALNNPTILHCSAK                     2081

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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