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

NucPred

Fetching Q63563 from www.uniprot.org...

The NucPred score for your sequence is 0.28 (see score help below)

   1  MSLSFCGNNISSYNIYHGVLQNPCFVDALNLVPHVFLLFITFPILFIGWG    50
  51  SQSSKVQIHHNTWLHFPGHNLRWILTFALLFVHVCEIAEGIVSDSQRASR   100
 101  HLHLFMPAVMGFVATTTSIVYYHNIETSNFPKLLLALFLYWVMAFITKTI   150
 151  KLVKYWQLGWGMSDLRFCITGVMVILNGLLMAVEINVIRVRRYVFFMNPQ   200
 201  KVKPPEDLQDLGVRFLQPFVNLLSKATYWWMNTLIISAHRKPIDLKAIGK   250
 251  LPIAMRAVTNYVCLKEAYEEQKKKAADHPNRTPSIWLAMYRAFGRPILLS   300
 301  STFRYLADLLGFAGPLCISGIVQRVNEPKNNTTRFSETLSSKEFLENAHV   350
 351  LAVLLFLALILQRTFLQASYYVTIETGINLRGALLAMIYNKILRLSTSNL   400
 401  SMGEMTLGQINNLVAIETNQLMWFLFLCPNLWAMPVQIIMGVILLYNLLG   450
 451  SSALVGAAVIVLLAPIQYFIATKLAEAQKSTLDYSTERLKKTNEILKGIK   500
 501  LLKLYAWEHIFCKSVEETRMKELSSLKTFALYTSLSIFMNAAIPIAAVLA   550
 551  TFVTHAYASGNNLKPAEAFASLSLFHILVTPLFLLSTVVRFAVKAIISVQ   600
 601  KLNEFLLSDEIGEDSWRTGEGTLPFESCKKHTGVQSKPINRKQPGRYHLD   650
 651  NYEQARRLRPAETEDVAIKVTNGYFSWGSGLATLSNIDIRIPTGQLTMIV   700
 701  GQVGCGKSSLLLAILGEMQTLEGKVYWNNVNESEPSFEATRSRSRYSVAY   750
 751  AAQKPWLLNATVEENITFGSSFNRQRYKAVTDACSLQPDIDLLPFGDQTE   800
 801  IGERGINLSGGQRQRICVARALYQNTNIVFLDDPFSALDIHLSDHLMQEG   850
 851  ILKFLQDDKRTVVLVTHKLQYLTHADWIIAMKDGSVLREGTLKDIQTKDV   900
 901  ELYEHWKTLMNRQDQELEKDMEADQTTLERKTLRRAMYSREAKAQMEDED   950
 951  EEEEEEEDEDDNMSTVMRLRTKMPWKTCWWYLTSGGFFLLFLMIFSKLLK  1000
1001  HSVIVAIDYWLATWTSEYSINDPGKADQTFYVAGFSILCGAGIFLCLVTS  1050
1051  LTVEWMGLTAAKNLHHNLLNKIILGPIRFFDTTPLGLILNRFSADTNIID  1100
1101  QHIPPTLESLTRSTLLCLSAIGMISYATPVFLIALAPLGVAFYFIQKYFR  1150
1151  VASKDLQELDDSTQLPLLCHFSETAEGLTTIRAFRHETRFKQRMLELTDT  1200
1201  NNIAYLFLSAANRWLEVRTDYLGACIVLTASIASISGSSNSGLVGLGLLY  1250
1251  ALTITNYLNWVVRNLADLEVQMGAVKKVNSFLTMESENYEGTMDPSQVPE  1300
1301  HWPQEGEIKIHDLCVRYENNLKPVLKHVKAYIKPGQKVGICGRTGSGKSS  1350
1351  LSLAFFRMVDIFDGKIVIDGIDISKLPLHTLRSRLSIILQDPILFSGSIR  1400
1401  FNLDPECKCTDDRLWEALEIAQLKNMVKSLPGGLDATVTEGGENFSVGQR  1450
1451  QLFCLARAFVRKSSILIMDEATASIDMATENILQKVVMTAFADRTVVTIA  1500
1501  HRVSSIMDAGLVLVFSEGILVECDTGPNLLQHKNGLFSTLVMTNK       1545

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.)

Go back to the NucPred Home Page.