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

NucPred

Fetching Q91740 from www.uniprot.org...

The NucPred score for your sequence is 0.57 (see score help below)

   1  MRRGALTGLLLVLCLSVVLRAAPSATSKKRRQAQQQQQQQVVQPQGTQDN    50
  51  HQKGCYDNGKYYQINQQWERTYLGNTLVCTCYGGGRGFNCESKPESEETC   100
 101  FDKYTGVSYRVGETYERPKDNMIWDCTCIGAGRGRISCTIANRCHEGGQS   150
 151  YKIGDTWRRPHETGGYMLECVCLGNGKGEWTCKPVAERCYDNTAGTSYVV   200
 201  GQTWEKPYQGWMMVDCTCLGEGNGRITCSSKNRCNDQDTKTSYRIGDTWS   250
 251  KTDTRGNLLQCICTGNGRGEWKCERHSSAQATGTGSNPITNIQTALYQPD   300
 301  SQLEPYGHCVTDNGVLYSLGMRWLRTQGSKQMLCTCLGNGVSCEETVATI   350
 351  TFGGNANGEPCAIPFTHDGKTYYSCTSEGRQDGKLWCATTSNYDSDKKYS   400
 401  FCTEQLALVQTRGGNSNGALCNFPFLYNNLNYTDSTSEGRQDSMKWCGTT   450
 451  ANYDADQKFGFCPMAAHEEICTTNEGVMYRVGDQWDKQHDQGHMMRCTCV   500
 501  GNGRGEWSCVAYSQLKDQCIVDGLTYNVNSSFTKLHEEGHMMNCTCFGQG   550
 551  RGRWKCDAIDQCQDTETRQFYQIGDSWEKHLQGVQYQCYCYGKGIGEWHC   600
 601  QPLSTSQAGTGPVQVIITESANFPTSHPIQWNAPQASHIKNYILRWKPKL   650
 651  KAGPWKQATIPGHLNSYTISGLKPGILYEGQLISILQYGNREVTTFDFTT   700
 701  TTTIHRHSQTESGETTPLPPLVSISESVTEITASSFLVSWVSASDTVSGF   750
 751  RVEYELSEDGDEKRYLELPNTATSVNIPDLLPGRRYNVNVYQITEEGEKS   800
 801  LILSTTQTTAPDAPPEHNVENVDDTSIMIKWNKPQAPITGYRVVYSPSVE   850
 851  GSSTELNLPSTANSVTLTELLPGIEYNITIYAVEDSLESVPVFIQQGTTG   900
 901  TPQTVIVPSPTDLQLVEVTDVKIIIMWTSPQSEVSGYRVVVKPVSPAGRD   950
 951  VQNLPVNRNTFAEVVNLQPGRTYSFEVYAVNRGQESEPLVGEFATKLDAP  1000
1001  TDLQFTDVTESTVVIIWIPPQAKIGRYLLSVGQTRGGQPSQFPINPSVTN  1050
1051  HKLDNLLPGTEYTVSLVALKGNQQSASASGVFSTLEPVGSIPHYNTEVTE  1100
1101  TTIVVTWTPVPRIGFKLDVRPSQGGEAPREVISESGSIVISGLTPGVEYT  1150
1151  YSISVLTDGVEKDIPITKTVVTPLSPPTNLRLQPSRDSATLTVYWDRSIS  1200
1201  PGITGYRISTTPTPMQVGNSLEEEVGPSQTYCVFENLSPGVEYNVSVYAV  1250
1251  KEEEESAPLSQMFLQEIPQLTDIKYDDVTDTSIDLRWTPLNSSNIIGYRI  1300
1301  TVVAAGESVPIYEEFVGPTDGYYKVSGLEPGIDYEISLITLINGGESAPT  1350
1351  TIIQHTAVPPPTNLRFTNIGPDNIRVTWSPPTSIELSSYLVRYSPVKKPD  1400
1401  DVTELSLSPSTNMVVLSNLLPFTEYLVSVHSVYEERESSSLNGVAKTHLD  1450
1451  SPTGIAFSEITPNSFTVHWIAPRGPITGYRIRYQLESGAGRPKEERVPPS  1500
1501  RNSITLTHLIPGSEYLVSIIAINGQQESLPLAGQQATVSDVPTDLEVTSS  1550
1551  SPNTLTISWEAPAVSVRYYRITYSQTGGHGPEKEFTVPGTSNTATIRGLN  1600
1601  PGVSYTITVYAVTGRGDSPASSKPLTIIHKTDVDQPIDMAVTDIQDHSIH  1650
1651  VKWSPPPGPVTGYRVTSVPKSGQGETFSQVISPDQTEVTIVGLQPAVEYV  1700
1701  VSIYSQGENGESEPLVETAVTNIDNPKGLTFTDVGVDSIRLAWEVPDGQV  1750
1751  TRYRVTYSSPEDGVKELFPAPEGDDDTAELHGLRPGTEYTVSIVALHDDM  1800
1801  ESKPLIGIQSTAIPAPTNLQFSQVTPSGFSLSWHAPTVHLTGYLVRVNPK  1850
1851  EKTGPTKEVRLSPGVAATTVTGLMVATKYEVNVYALKDSLTSQPLQGLIS  1900
1901  TLDNVSPPRRPRIQDVTETTVTLSWRTKTETITGFQIDAIPADGQNPIRR  1950
1951  TVDADLRTFTITGLQPGTDYKIYLYTLNDNARSSPVTVDVTTAVDSPSNL  2000
2001  RFLTTTSNSLLFTWQPPRARITGYIIRYEKAGGLIKEHLPRLPAGTTEST  2050
2051  LTNLEPGTEYIIYIIAVRNNMKSEPLVGRKRTDELPRLVTLPHPGQGPEI  2100
2101  LDVPTDEENTPHITQTKLDNGNGIQLPGSNGQQPSSDHEGQLIEEHGFRS  2150
2151  PLAPTTAVPVRPGKFAPGRYPQERVDIELDTFPVQHGDFDGPYPHGLGPQ  2200
2201  LNDSGVQEVASHTTISWRPELETTEYIISCHPIDHEEAPLQFRVPGTSSS  2250
2251  ATLNGLTRGATYNIVVEAQKGTDKHKVLEKRVTVGSPGSPEGVLQPVEDT  2300
2301  CYDTFSGAHYSVGQEWERMSESGFRLWCKCLGYGSGHFRCDSSKWCHDNG  2350
2351  VNHRIGEKWDRRGENGQMMSCTCLGNGKGEFKCEPPEATCYDEGKMYNVG  2400
2401  EQWQKEYLGAICSCTCYGGQQGWRCDNCRRPGAVSPDGTAGQTVSQFTQR  2450
2451  YQQNYNLNCPIECYLPLGLQADTQHSQQTQK                     2481

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.