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

NucPred

Fetching O00507 from www.uniprot.org...

The NucPred score for your sequence is 0.87 (see score help below)

   1  MTAITHGSPVGGNDSQGQVLDGQSQHLFQQNQTSSPDSSNENSVATPPPE    50
  51  EQGQGDAPPQHEDEEPAFPHTELANLDDMINRPRWVVPVLPKGELEVLLE   100
 101  AAIDLSVKGLDVKSEACQRFFRDGLTISFTKILMDEAVSGWKFEIHRCII   150
 151  NNTHRLVELCVAKLSQDWFPLLELLAMALNPHCKFHIYNGTRPCELISSN   200
 201  AQLPEDELFARSSDPRSPKGWLVDLINKFGTLNGFQILHDRFFNGSALNI   250
 251  QIIAALIKPFGQCYEFLSQHTLKKYFIPVIEIVPHLLENLTDEELKKEAK   300
 301  NEAKNDALSMIIKSLKNLASRISGQDETIKNLEIFRLKMILRLLQISSFN   350
 351  GKMNALNEINKVISSVSYYTHRHSNPEEEEWLTAERMAEWIQQNNILSIV   400
 401  LQDSLHQPQYVEKLEKILRFVIKEKALTLQDLDNIWAAQAGKHEAIVKNV   450
 451  HDLLAKLAWDFSPGQLDHLFDCFKASWTNASKKQREKLLELIRRLAEDDK   500
 501  DGVMAHKVLNLLWNLAQSDDVPVDIMDLALSAHIKILDYSCSQDRDAQKI   550
 551  QWIDHFIEELRTNDKWVIPALKQIREICSLFGEASQNLSQTQRSPHIFYR   600
 601  HDLINQLQQNHALVTLVAENLATYMNSIRLYAGDHEDYDPQTVRLGSRYS   650
 651  HVQEVQERLNFLRFLLKDGQLWLCAPQAKQIWKCLAENAVYLCDREACFK   700
 701  WYSKLMGDEPDLDPDINKDFFESNVLQLDPSLLTENGMKCFERFFKAVNC   750
 751  RERKLIAKRRSYMMDDLELIGLDYLWRVVIQSSDEIANRAIDLLKEIYTN   800
 801  LGPRLKANQVVIHEDFIQSCFDRLKASYDTLCVFDGDKNSINCARQEAIR   850
 851  MVRVLTVIKEYINECDSDYHKERMILPMSRAFRGKHLSLIVRFPNQGRQV   900
 901  DELDIWSHTNDTIGSVRRCIVNRIKANVAHKKIELFVGGELIDSEDDRKL   950
 951  IGQLNLKDKSLITAKLTQINFNMPSSPDSSSDSSTASPGNHRNHYNDGPN  1000
1001  LEVESCLPGVIMSVHPRYISFLWQVADLGSNLNMPPLRDGARVLMKLMPP  1050
1051  DRTAVEKLRAVCLDHAKLGEGKLSPPLDSLFFGPSASQVLYLTEVVYALL  1100
1101  MPAGVPLTDGSSDFQVHFLKSGGLPLVLSMLIRNNFLPNTDMETRRGAYL  1150
1151  NALKIAKLLLTAIGYGHVRAVAEACQPVVDGTDPITQINQVTHDQAVVLQ  1200
1201  SALQSIPNPSSECVLRNESILLAQEISNEASRYMPDICVIRAIQKIIWAS  1250
1251  ACGALGLVFSPNEEITKIYQMTTNGSNKLEVEDEQVCCEALEVMTLCFAL  1300
1301  LPTALDALSKEKAWQTFIIDLLLHCPSKTVRQLAQEQFFLMCTRCCMGHR  1350
1351  PLLFFITLLFTILGSTAREKGKYSGDYFTLLRHLLNYAYNGNINIPNAEV  1400
1401  LLVSEIDWLKRIRDNVKNTGETGVEEPILEGHLGVTKELLAFQTSEKKYH  1450
1451  FGCEKGGANLIKELIDDFIFPASKVYLQYLRSGELPAEQAIPVCSSPVTI  1500
1501  NAGFELLVALAIGCVRNLKQIVDCLTEMYYMGTAITTCEALTEWEYLPPV  1550
1551  GPRPPKGFVGLKNAGATCYMNSVIQQLYMIPSIRNSILAIEGTGSDLHDD  1600
1601  MFGDEKQDSESNVDPRDDVFGYPHQFEDKPALSKTEDRKEYNIGVLRHLQ  1650
1651  VIFGHLAASQLQYYVPRGFWKQFRLWGEPVNLREQHDALEFFNSLVDSLD  1700
1701  EALKALGHPAILSKVLGGSFADQKICQGCPHRYECEESFTTLNVDIRNHQ  1750
1751  NLLDSLEQYIKGDLLEGANAYHCEKCDKKVDTVKRLLIKKLPRVLAIQLK  1800
1801  RFDYDWERECAIKFNDYFEFPRELDMGPYTVAGVANLERDNVNSENELIE  1850
1851  QKEQSDNETAGGTKYRLVGVLVHSGQASGGHYYSYIIQRNGKDDQTDHWY  1900
1901  KFDDGDVTECKMDDDEEMKNQCFGGEYMGEVFDHMMKRMSYRRQKRWWNA  1950
1951  YILFYEQMDMIDEDDEMIRYISELTIARPHQIIMSPAIERSVRKQNVKFM  2000
2001  HNRLQYSLEYFQFVKKLLTCNGVYLNPAPGQDYLLPEAEEITMISIQLAA  2050
2051  RFLFTTGFHTKKIVRGPASDWYDALCVLLRHSKNVRFWFTHNVLFNVSNR  2100
2101  FSEYLLECPSAEVRGAFAKLIVFIAHFSLQDGSCPSPFASPGPSSQACDN  2150
2151  LSLSDHLLRATLNLLRREVSEHGHHLQQYFNLFVMYANLGVAEKTQLLKL  2200
2201  NVPATFMLVSLDEGPGPPIKYQYAELGKLYSVVSQLIRCCNVSSTMQSSI  2250
2251  NGNPPLPNPFGDLNLSQPIMPIQQNVLDILFVRTSYVKKIIEDCSNSEDT  2300
2301  IKLLRFCSWENPQFSSTVLSELLWQVAYSYTYELRPYLDLLFQILLIEDS  2350
2351  WQTHRIHNALKGIPDDRDGLFDTIQRSKNHYQKRAYQCIKCMVALFSSCP  2400
2401  VAYQILQGNGDLKRKWTWAVEWLGDELERRPYTGNPQYSYNNWSPPVQSN  2450
2451  ETANGYFLERSHSARMTLAKACELCPEEEPDDQDAPDEHEPSPSEDAPLY  2500
2501  PHSPASQYQQNNHVHGQPYTGPAAHHLNNPQKTGQRTQENYEGNEEVSSP  2550
2551  QMKDQ                                               2555

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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