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

NucPred

Fetching O35516 from www.uniprot.org...

The NucPred score for your sequence is 0.80 (see score help below)

   1  MPALRPAALRALLWLWLCGAGPAHALQCRGGQEPCVNEGTCVTYHNGTGF    50
  51  CRCPEGFLGEYCQHRDPCEKNRCQNGGTCVPQGMLGKATCRCAPGFTGED   100
 101  CQYSTSHPCFVSRPCQNGGTCHMLSRDTYECTCQVGFTGKQCQWTDACLS   150
 151  HPCENGSTCTSVASQFSCKCPAGLTGQKCEADINECDIPGRCQHGGTCLN   200
 201  LPGSYRCQCPQGFTGQHCDSPYVPCAPSPCVNGGTCRQTGDFTFECNCLP   250
 251  GFEGSTCERNIDDCPNHKCQNGGVCVDGVNTYNCRCPPQWTGQFCTEDVD   300
 301  ECLLQPNACQNGGTCTNRNGGYGCVCVNGWSGDDCSENIDDCAYASCTPG   350
 351  STCIDRVASFSCLCPEGKAGLLCHLDDACISNPCHKGALCDTNPLNGQYI   400
 401  CTCPQGYKGADCTEDVDECAMANSNPCEHAGKCVNTDGAFHCECLKGYAG   450
 451  PRCEMDINECHSDPCQNDATCLDKIGGFTCLCMPGFKGVHCELEVNECQS   500
 501  NPCVNNGQCVDKVNRFQCLCPPGFTGPVCQIDIDDCSSTPCLNGAKCIDH   550
 551  PNGYECQCATGFTGILCDENIDNCDPDPCHHGQCQDGIDSYTCICNPGYM   600
 601  GAICSDQIDECYSSPCLNDGRCIDLVNGYQCNCQPGTSGLNCEINFDDCA   650
 651  SNPCMHGVCVDGINRYSCVCSPGFTGQRCNIDIDECASNPCRKGATCIND   700
 701  VNGFRCICPEGPHHPSCYSQVNECLSNPCIHGNCTGGLSGYKCLCDAGWV   750
 751  GVNCEVDKNECLSNPCQNGGTCNNLVNGYRCTCKKGFKGYNCQVNIDECA   800
 801  SNPCLNQGTCFDDVSGYTCHCMLPYTGKNCQTVLAPCSPNPCENAAVCKE   850
 851  APNFESFSCLCAPGWQGKRCTVDVDECISKPCMNNGVCHNTQGSYVCECP   900
 901  PGFSGMDCEEDINDCLANPCQNGGSCVDHVNTFSCQCHPGFIGDKCQTDM   950
 951  NECLSEPCKNGGTCSDYVNSYTCTCPAGFHGVHCENNIDECTESSCFNGG  1000
1001  TCVDGINSFSCLCPVGFTGPFCLHDINECSSNPCLNAGTCVDGLGTYRCI  1050
1051  CPLGYTGKNCQTLVNLCSRSPCKNKGTCVQEKARPHCLCPPGWDGAYCDV  1100
1101  LNVSCKAAALQKGVPVEHLCQHSGICINAGNTHHCQCPLGYTGSYCEEQL  1150
1151  DECASNPCQHGATCNDFIGGYRCECVPGYQGVNCEYEVDECQNQPCQNGG  1200
1201  TCIDLVNHFKCSCPPGTRGLLCEENIDECAGGPHCLNGGQCVDRIGGYTC  1250
1251  RCLPGFAGERCEGDINECLSNPCSSEGSLDCVQLKNNYNCICRSAFTGRH  1300
1301  CETFLDVCPQKPCLNGGTCAVASNMPDGFICRCPPGFSGARCQSSCGQVK  1350
1351  CRRGEQCIHTDSGPRCFCLNPKDCESGCASNPCQHGGTCYPQRQPPHYSC  1400
1401  RCPPSFGGSHCELYTAPTSTPPATCQSQYCADKARDGICDEACNSHACQW  1450
1451  DGGDCSLTMEDPWANCTSTLRCWEYINNQCDEQCNTAECLFDNFECQRNS  1500
1501  KTCKYDKYCADHFKDNHCDQGCNSEECGWDGLDCASDQPENLAEGTLIIV  1550
1551  VLLPPEQLLQDSRSFLRALGTLLHTNLRIKQDSQGALMVYPYFGEKSAAM  1600
1601  KKQKMTRRSLPEEQEQEQEVIGSKIFLEIDNRQCVQDSDQCFKNTDAAAA  1650
1651  LLASHAIQGTLSYPLVSVFSELESPRNAQLLYLLAVAVVIILFFILLGVI  1700
1701  MAKRKRKHGFLWLPEGFTLRRDSSNHKRREPVGQDAVGLKNLSVQVSEAN  1750
1751  LIGSGTSEHWVDDEGPQPKKAKAEDEALLSEDDPIDRRPWTQQHLEAADI  1800
1801  RHTPSLALTPPQAEQEVDVLDVNVRGPDGCTPLMLASLRGGSSDLSDEDE  1850
1851  DAEDSSANIITDLVYQGASLQAQTDRTGEMALHLAARYSRADAAKRLLDA  1900
1901  GADANAQDNMGRCPLHAAVAADAQGVFQILIRNRVTDLDARMNDGTTPLI  1950
1951  LAARLAVEGMVAELINCQADVNAVDDHGKSALHWAAAVNNVEATLLLLKN  2000
2001  GANRDMQDNKEETPLFLAAREGSYEAAKILLDHFANRDITDHMDRLPRDV  2050
2051  ARDRMHHDIVRLLDEYNVTPSPPGTVLTSALSPVLCGPNRSFLSLKHTPM  2100
2101  GKKARRPNTKSTMPTSLPNLAKEAKDAKGSRRKKCLNEKVQLSESSVTLS  2150
2151  PVDSLESPHTYVSDATSSPMITSPGILQASPTPLLAAAAPAAPVHTQHAL  2200
2201  SFSNLHDMQPLAPGASTVLPSVSQLLSHHHIAPPGSSSAGSLGRLHPVPV  2250
2251  PADWMNRVEMNETQYSEMFGMVLAPAEGAHPGIAAPQSRPPEGKHMSTQR  2300
2301  EPLPPIVTFQLIPKGSIAQAAGAPQTQSSCPPAVAGPLPSMYQIPEMPRL  2350
2351  PSVAFPPTMMPQQEGQVAQTIVPTYHPFPASVGKYPTPPSQHSYASSNAA  2400
2401  ERTPSHGGHLQGEHPYLTPSPESPDQWSSSSPHSASDWSDVTTSPTPGGG  2450
2451  GGGQRGPGTHMSEPPHSNMQVYA                             2473

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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