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

NucPred

Fetching Q8WWQ8 from www.uniprot.org...

The NucPred score for your sequence is 0.51 (see score help below)

   1  MMLQHLVIFCLGLVVQNFCSPAETTGQARRCDRKSLLTIRTECRSCALNL    50
  51  GVKCPDGYTMITSGSVGVRDCRYTFEVRTYSLSLPGCRHICRKDYLQPRC   100
 101  CPGRWGPDCIECPGGAGSPCNGRGSCAEGMEGNGTCSCQEGFGGTACETC   150
 151  ADDNLFGPSCSSVCNCVHGVCNSGLDGDGTCECYSAYTGPKCDKPIPECA   200
 201  ALLCPENSRCSPSTEDENKLECKCLPNYRGDGKYCDPINPCLRKICHPHA   250
 251  HCTYLGPNRHSCTCQEGYRGDGQVCLPVDPCQINFGNCPTKSTVCKYDGP   300
 301  GQSHCECKEHYQNFVPGVGCSMTDICKSDNPCHRNANCTTVAPGRTECIC   350
 351  QKGYVGDGLTCYGNIMERLRELNTEPRGKWQGRLTSFISLLDKAYAWPLS   400
 401  KLGPFTVLLPTDKGLKGFNVNELLVDNKAAQYFVKLHIIAGQMNIEYMNN   450
 451  TDMFYTLTGKSGEIFNSDKDNQIKLKLHGGKKKVKIIQGDIIASNGLLHI   500
 501  LDRAMDKLEPTFESNNEQTIMTMLQPRYSKFRSLLEETNLGHALDEDGVG   550
 551  GPYTIFVPNNEALNNMKDGTLDYLLSPEGSRKLLELVRYHIVPFTQLEVA   600
 601  TLISTPHIRSMANQLIQFNTTDNGQILANDVAMEEIEITAKNGRIYTLTG   650
 651  VLIPPSIVPILPHRCDETKREMKLGTCVSCSLVYWSRCPANSEPTALFTH   700
 701  RCVYSGRFGSLKSGCARYCNATVKIPKCCKGFYGPDCNQCPGGFSNPCSG   750
 751  NGQCADSLGGNGTCICEEGFQGSQCQFCSDPNKYGPRCNKKCLCVHGTCN   800
 801  NRIDSDGACLTGTCRDGSAGRLCDKQTSACGPYVQFCHIHATCEYSNGTA   850
 851  SCICKAGYEGDGTLCSEMDPCTGLTPGGCSRNAECIKTGTGTHTCVCQQG   900
 901  WTGNGRDCSEINNCLLPSAGGCHDNASCLYVGPGQNECECKKGFRGNGID   950
 951  CEPITSCLEQTGKCHPLASCQSTSSGVWSCVCQEGYEGDGFLCYGNAAVE  1000
1001  LSFLSEAAIFNRWINNASLQPTLSATSNLTVLVPSQQATEDMDQDEKSFW  1050
1051  LSQSNIPALIKYHMLLGTYRVADLQTLSSSDMLATSLQGNFLHLAKVDGN  1100
1101  ITIEGASIVDGDNAATNGVIHIINKVLVPQRRLTGSLPNLLMRLEQMPDY  1150
1151  SIFRGYIIQYNLANAIEAADAYTVFAPNNNAIENYIREKKVLSLEEDVLR  1200
1201  YHVVLEEKLLKNDLHNGMHRETMLGFSYFLSFFLHNDQLYVNEAPINYTN  1250
1251  VATDKGVIHGLGKVLEIQKNRCDNNDTTIIRGRCRTCSSELTCPFGTKSL  1300
1301  GNEKRRCIYTSYFMGRRTLFIGCQPKCVRTVITRECCAGFFGPQCQPCPG  1350
1351  NAQNVCFGNGICLDGVNGTGVCECGEGFSGTACETCTEGKYGIHCDQACS  1400
1401  CVHGRCNQGPLGDGSCDCDVGWRGVHCDNATTEDNCNGTCHTSANCLTNS  1450
1451  DGTASCKCAAGFQGNGTICTAINACEISNGGCSAKADCKRTTPGRRVCTC  1500
1501  KAGYTGDGIVCLEINPCLENHGGCDKNAECTQTGPNQAACNCLPAYTGDG  1550
1551  KVCTLINVCLTKNGGCSEFAICNHTGQVERTCTCKPNYIGDGFTCRGSIY  1600
1601  QELPKNPKTSQYFFQLQEHFVKDLVGPGPFTVFAPLSAAFDEEARVKDWD  1650
1651  KYGLMPQVLRYHVVACHQLLLENLKLISNATSLQGEPIVISVSQSTVYIN  1700
1701  NKAKIISSDIISTNGIVHIIDKLLSPKNLLITPKDNSGRILQNLTTLATN  1750
1751  NGYIKFSNLIQDSGLLSVITDPIHTPVTLFWPTDQALHALPAEQQDFLFN  1800
1801  QDNKDKLKEYLKFHVIRDAKVLAVDLPTSTAWKTLQGSELSVKCGAGRDI  1850
1851  GDLFLNGQTCRIVQRELLFDLGVAYGIDCLLIDPTLGGRCDTFTTFDASG  1900
1901  ECGSCVNTPSCPRWSKPKGVKQKCLYNLPFKRNLEGCRERCSLVIQIPRC  1950
1951  CKGYFGRDCQACPGGPDAPCNNRGVCLDQYSATGECKCNTGFNGTACEMC  2000
2001  WPGRFGPDCLPCGCSDHGQCDDGITGSGQCLCETGWTGPSCDTQAVLPAV  2050
2051  CTPPCSAHATCKENNTCECNLDYEGDGITCTVVDFCKQDNGGCAKVARCS  2100
2101  QKGTKVSCSCQKGYKGDGHSCTEIDPCADGLNGGCHEHATCKMTGPGKHK  2150
2151  CECKSHYVGDGLNCEPEQLPIDRCLQDNGQCHADAKCVDLHFQDTTVGVF  2200
2201  HLRSPLGQYKLTFDKAREACANEAATMATYNQLSYAQKAKYHLCSAGWLE  2250
2251  TGRVAYPTAFASQNCGSGVVGIVDYGPRPNKSEMWDVFCYRMKDVNCTCK  2300
2301  VGYVGDGFSCSGNLLQVLMSFPSLTNFLTEVLAYSNSSARGRAFLEHLTD  2350
2351  LSIRGTLFVPQNSGLGENETLSGRDIEHHLANVSMFFYNDLVNGTTLQTR  2400
2401  LGSKLLITASQDPLQPTETRFVDGRAILQWDIFASNGIIHVISRPLKAPP  2450
2451  APVTLTHTGLGAGIFFAIILVTGAVALAAYSYFRINRRTIGFQHFESEED  2500
2501  INVAALGKQQPENISNPLYESTTSAPPEPSYDPFTDSEERQLEGNDPLRT  2550
2551  L                                                   2551

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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