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

NucPred

Fetching O14029 from www.uniprot.org...

The NucPred score for your sequence is 0.70 (see score help below)

   1  MDIESDHEPKESSVDLEGRHDSIRKSFEADDIDVTDENTIFSTSRKEQST    50
  51  IEPMDSFVENNIANSSSQQSVSEIDIQLPSSEPKEGVKEESNLIESNSLD   100
 101  NVQEINPQNTIGDKSAHTEEESSNDNLVKITAGTIISDIMDEPVVDEDDK   150
 151  LSEEDLSKEDLETTLKGDENYSSSQKEIYDNDETIPKPPSPEVEKIETST   200
 201  SVENAYITNSQYNDTLDMEDQTSDLITTFEHENEDHEVHEVPSIHGMEGT   250
 251  FETVNLTSEAGNEKEFNNDSVVLNTTPKEMQISSLDAVDKLEDKPVSNDN   300
 301  IKANIESSTTVDRASSQLESENNESTFFVHNQNSSGQHQTLDFVASKPVT   350
 351  DTPELSKENTLVSSENLNDPKPNLPETEVDFGEPLEVEAPSFVVQNNSAV   400
 401  QPTTQKTSEDSTDLHTNEIPNVAQPPSSFEKENNKDTSKLENPDISSSPL   450
 451  SPTEDLFPNDPEEENLFSAALGLNSNTGSQPSETQSKPSIDPSESITVTD   500
 501  NQDSLLFSQLTNNALQAENATKVSENTINDEELIDDSEFTSLMSNFLESS   550
 551  TVQTNKYLPKSSASPPANAPIVSSDVHKNENAGTARRAPQSGAFVASKAK   600
 601  YSSPYDLPEEIVQVAQQKRSVSQNYNRQYSFQPRPATPSNPPRSLPPPSG   650
 651  QVNAPMSQTPNPISFAYQHGTPLATPTMRANSFNSYPASSAEPIRRPATT   700
 701  TVGHTPNLYSPKTNTYNSRHMAYEMTKSHINVISPGPSLQVNAPYTPTSG   750
 751  ELGNKVSNPTKEFVSTSSYAPAANTRNAIIREPGILSPLSPRVQPVLSRR   800
 801  ESIISMGSSASSYVPLEIAPRPMSSLEHTMNSAMSPGNLQRTANLYKPMT   850
 851  TPNAYNIKNSNQRETKYPYQPQAINYSEVTQPGSSSLPTSGEEANIIRSP   900
 901  GFTPLAAQKDATIYTPSHAQATLYGNMDNNDRDNEGIHDILQSDMEPVLP   950
 951  PHNSAYHANAPVSSHSEGLNNRLPISPLPPQLHKTGTPSHQHGFDTAETT  1000
1001  AKQYAPSIPPNFNPNVSIDTMTEGVALPSATLDSDKSSLHKRSAELSRNN  1050
1051  SPRPDFLPLPNQPLLHSNLHSPVSPVVDSNEDSRLKFLSTQRPAFSFGPC  1100
1101  GTIVMAFSTPSGLYTTSGKGTKFIAGPIKIEKLGDVLTDEYRHLKEFKGP  1150
1151  YLASNGKVDKHGKAEAIEWLSKYIDRLNQSLEYDDKNITLKDKLLLLQCL  1200
1201  KMLLEVSDRKLIVEKLRPILLPSFEIPEPCNTATSVQELINPEINQDDSP  1250
1251  IVASRYCTTSFLHRFYEYLLSGNKDEALTYALQQKQWPYAIIVAHSIDAK  1300
1301  TFQGVVRTFCKSEVKESMLRSGVGVNLQLSLQLMSDAHASSMSEFSSSTS  1350
1351  LLNLADQSQASNALVAWKELLYNIIANHYSDQKEALRVLGTLLLQENRVY  1400
1401  AAHLVYILSLSPDVCSNKSNSLFELVGLSKHNLYPSHDDLFDVTQLTEVL  1450
1451  ELVFNVYSEKTPVFFTHLVPYRLYEAEVLAEAGEVSAARKYCELIGNYLN  1500
1501  RVAKKSNNVDPGFVLRVRDLTQQILENSAGSEDISSSWLGRTVSRPRLDT  1550
1551  VLSSLGSKFSKFVAGDPNFDVMRPATVGPGPFGKVASQKNLTVQTNTNNA  1600
1601  AMESFYSDRPTSSGPSYQNRTPLTGQESMNMGVYSPYRRSTEIAENMSMD  1650
1651  GNAYPYTPASQENPYTPRHSQEDNASVLSQQPLTFYSNVADNSYMPVSAS  1700
1701  QEPKMGMGTAFNMPTNEVHGVGAEMASPYQPLQPASAHLPNLQPTLAPIN  1750
1751  QNAYVPSNIAPAMGAMQSAPSAEAVAAPSESLNLNKDRSQQAKQAAAQNV  1800
1801  ADLVRQEEEKEKQKQKAKKNAESGKKGGAKGWFSKLLRRDESKDQPTVYK  1850
1851  AKLGEKSHLHYDKELKRWVNDDGSDLSNQAAPPPPPPMALPKAGPPSAAP  1900
1901  TSALPPAGPPAGATAISGNPGMPAPVPLTGKETAVPLSSMPNAPPSVASN  1950
1951  AKLPPASNNRKVDPLEDILQAMPPPTTRKARGKTSKRYVDVMRNS       1995

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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