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

NucPred

Fetching Q8WYB5 from www.uniprot.org...

The NucPred score for your sequence is 0.98 (see score help below)

   1  MVKLANPLYTEWILEAIQKIKKQKQRPSEERICHAVSTSHGLDKKTVSEQ    50
  51  LELSVQDGSVLKVTNKGLASYKDPDNPGRFSSVKPGTFPKSAKGSRGSCN   100
 101  DLRNVDWNKLLRRAIEGLEEPNGSSLKNIEKYLRSQSDLTSTTNNPAFQQ   150
 151  RLRLGAKRAVNNGRLLKDGPQYRVNYGSLDGKGAPQYPSAFPSSLPPVSL   200
 201  LPHEKDQPRADPIPICSFCLGTKESNREKKPEELLSCADCGSSGHPSCLK   250
 251  FCPELTTNVKALRWQCIECKTCSACRVQGRNADNMLFCDSCDRGFHMECC   300
 301  DPPLSRMPKGMWICQVCRPKKKGRKLLHEKAAQIKRRYAKPIGRPKNKLK   350
 351  QRLLSVTSDEGSMNAFTGRGSPGRGQKTKVCTTPSSGHAASGKDSSSRLA   400
 401  VTDPTRPGATTKITTTSTYISASTLKVNKKTKGLIDGLTKFFTPSPDGRR   450
 451  SRGEIIDFSKHYRPRKKVSQKQSCTSHVLATGTTQKLKPPPSSLPPPTPI   500
 501  SGQSPSSQKSSTATSSPSPQSSSSQCSVPSLSSLTTNSQLKALFDGLSHI   550
 551  YTTQGQSRKKGHPSYAPPKRMRRKTELSSTAKSKAHFFGKRDIRSRFISH   600
 601  SSSSSWGMARGSIFKAIAHFKRTTFLKKHRMLGRLKYKVTPQMGTPSPGK   650
 651  GSLTDGRIKPDQDDDTEIKINIKQESADVNVIGNKDVVTEEDLDVFKQAQ   700
 701  ELSWEKIECESGVEDCGRYPSVIEFGKYEIQTWYSSPYPQEYARLPKLYL   750
 751  CEFCLKYMKSKNILLRHSKKCGWFHPPANEIYRRKDLSVFEVDGNMSKIY   800
 801  CQNLCLLAKLFLDHKTLYYDVEPFLFYVLTKNDEKGCHLVGYFSKEKLCQ   850
 851  QKYNVSCIMIMPQHQRQGFGRFLIDFSYLLSRREGQAGSPEKPLSDLGRL   900
 901  SYLAYWKSVILEYLYHHHERHISIKAISRATGMCPHDIATTLQHLHMIDK   950
 951  RDGRFVIIRREKLILSHMEKLKTCSRANELDPDSLRWTPILISNAAVSEE  1000
1001  EREAEKEAERLMEQASCWEKEEQEILSTRANSRQSPAKVQSKNKYLHSPE  1050
1051  SRPVTGERGQLLELSKESSEEEEEEEDEEEEEEEEEEEEDEEEEEEEEEE  1100
1101  EEEENIQSSPPRLTKPQSVAIKRKRPFVLKKKRGRKRRRINSSVTTETIS  1150
1151  ETTEVLNEPFDNSDEERPMPQLEPTCEIEVEEDGRKPVLRKAFQHQPGKK  1200
1201  RQTEEEEGKDNHCFKNADPCRNNMNDDSSNLKEGSKDNPEPLKCKQVWPK  1250
1251  GTKRGLSKWRQNKERKTGFKLNLYTPPETPMEPDEQVTVEEQKETSEGKT  1300
1301  SPSPIRIEEEVKETGEALLPQEENRREETCAPVSPNTSPGEKPEDDLIKP  1350
1351  EEEEEEEEEEEEEEEEEEGEEEEGGGNVEKDPDGAKSQEKEEPEISTEKE  1400
1401  DSARLDDHEEEEEEDEEPSHNEDHDADDEDDSHMESAEVEKEELPRESFK  1450
1451  EVLENQETFLDLNVQPGHSNPEVLMDCGVDLTASCNSEPKELAGDPEAVP  1500
1501  ESDEEPPPGEQAQKQDQKNSKEVDTEFKEGNPATMEIDSETVQAVQSLTQ  1550
1551  ESSEQDDTFQDCAETQEACRSLQNYTRADQSPQIATTLDDCQQSDHSSPV  1600
1601  SSVHSHPGQSVRSVNSPSVPALENSYAQISPDQSAISVPSLQNMETSPMM  1650
1651  DVPSVSDHSQQVVDSGFSDLGSIESTTENYENPSSYDSTMGGSICGNGSS  1700
1701  QNSCSYSNLTSSSLTQSSCAVTQQMSNISGSCSMLQQTSISSPPTCSVKS  1750
1751  PQGCVVERPPSSSQQLAQCSMAANFTPPMQLAEIPETSNANIGLYERMGQ  1800
1801  SDFGAGHYPQPSATFSLAKLQQLTNTLIDHSLPYSHSAAVTSYANSASLS  1850
1851  TPLSNTGLVQLSQSPHSVPGGPQAQATMTPPPNLTPPPMNLPPPLLQRNM  1900
1901  AASNIGISHSQRLQTQIASKGHISMRTKSASLSPAAATHQSQIYGRSQTV  1950
1951  AMQGPARTLTMQRGMNMSVNLMPAPAYNVNSVNMNMNTLNAMNGYSMSQP  2000
2001  MMNSGYHSNHGYMNQTPQYPMQMQMGMMGTQPYAQQPMQTPPHGNMMYTA  2050
2051  PGHHGYMNTGMSKQSLNGSYMRR                             2073

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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