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

NucPred

Fetching P33334 from www.uniprot.org...

The NucPred score for your sequence is 0.90 (see score help below)

   1  MSGLPPPPPGFEEDSDLALPPPPPPPPGYEIEELDNPMVPSSVNEDTFLP    50
  51  PPPPPPSNFEINAEEIVDFTLPPPPPPPGLDELETKAEKKVELHGKRKLD   100
 101  IGKDTFVTRKSRKRAKKMTKKAKRSNLYTPKAEMPPEHLRKIINTHSDMA   150
 151  SKMYNTDKKAFLGALKYLPHAILKLLENMPHPWEQAKEVKVLYHTSGAIT   200
 201  FVNETPRVIEPVYTAQWSATWIAMRREKRDRTHFKRMRFPPFDDDEPPLS   250
 251  YEQHIENIEPLDPINLPLDSQDDEYVKDWLYDSRPLEEDSKKVNGTSYKK   300
 301  WSFDLPEMSNLYRLSTPLRDEVTDKNYYYLFDKKSFFNGKALNNAIPGGP   350
 351  KFEPLYPREEEEDYNEFNSIDRVIFRVPIRSEYKVAFPHLYNSRPRSVRI   400
 401  PWYNNPVSCIIQNDEEYDTPALFFDPSLNPIPHFIDNNSSLNVSNTKENG   450
 451  DFTLPEDFAPLLAEEEELILPNTKDAMSLYHSPFPFNRTKGKMVRAQDVA   500
 501  LAKKWFLQHPDEEYPVKVKVSYQKLLKNYVLNELHPTLPTNHNKTKLLKS   550
 551  LKNTKYFQQTTIDWVEAGLQLCRQGHNMLNLLIHRKGLTYLHLDYNFNLK   600
 601  PTKTLTTKERKKSRLGNSFHLMRELLKMMKLIVDTHVQFRLGNVDAFQLA   650
 651  DGIHYILNHIGQLTGIYRYKYKVMHQIRACKDLKHIIYYKFNKNLGKGPG   700
 701  CGFWQPAWRVWLNFLRGTIPLLERYIGNLITRQFEGRSNEIVKTTTKQRL   750
 751  DAYYDLELRNSVMDDILEMMPESIRQKKARTILQHLSEAWRCWKANIPWD   800
 801  VPGMPAPIKKIIERYIKSKADAWVSAAHYNRERIKRGAHVEKTMVKKNLG   850
 851  RLTRLWIKNEQERQRQIQKNGPEITPEEATTIFSVMVEWLESRSFSPIPF   900
 901  PPLTYKNDTKILVLALEDLKDVYASKVRLNASEREELALIEEAYDNPHDT   950
 951  LNRIKKYLLTQRVFKPVDITMMENYQNISPVYSVDPLEKITDAYLDQYLW  1000
1001  YEADQRKLFPNWIKPSDSEIPPLLVYKWTQGINNLSEIWDVSRGQSAVLL  1050
1051  ETTLGEMAEKIDFTLLNRLLRLIVDPNIADYITAKNNVVINFKDMSHVNK  1100
1101  YGLIRGLKFASFIFQYYGLVIDLLLLGQERATDLAGPANNPNEFMQFKSK  1150
1151  EVEKAHPIRLYTRYLDRIYMLFHFEEDEGEELTDEYLAENPDPNFENSIG  1200
1201  YNNRKCWPKDSRMRLIRQDVNLGRAVFWEIQSRVPTSLTSIKWENAFVSV  1250
1251  YSKNNPNLLFSMCGFEVRILPRQRMEEVVSNDEGVWDLVDERTKQRTAKA  1300
1301  YLKVSEEEIKKFDSRIRGILMASGSTTFTKVAAKWNTSLISLFTYFREAI  1350
1351  VATEPLLDILVKGETRIQNRVKLGLNSKMPTRFPPAVFYTPKELGGLGMI  1400
1401  SASHILIPASDLSWSKQTDTGITHFRAGMTHEDEKLIPTIFRYITTWENE  1450
1451  FLDSQRVWAEYATKRQEAIQQNRRLAFEELEGSWDRGIPRISTLFQRDRH  1500
1501  TLAYDRGHRIRREFKQYSLERNSPFWWTNSHHDGKLWNLNAYRTDVIQAL  1550
1551  GGIETILEHTLFKGTGFNSWEGLFWEKASGFEDSMQFKKLTHAQRTGLSQ  1600
1601  IPNRRFTLWWSPTINRANVYVGFLVQLDLTGIFLHGKIPTLKISLIQIFR  1650
1651  AHLWQKIHESIVFDICQILDGELDVLQIESVTKETVHPRKSYKMNSSAAD  1700
1701  ITMESVHEWEVSKPSLLHETNDSFKGLITNKMWFDVQLRYGDYDSHDISR  1750
1751  YVRAKFLDYTTDNVSMYPSPTGVMIGIDLAYNMYDAYGNWFNGLKPLIQN  1800
1801  SMRTIMKANPALYVLRERIRKGLQIYQSSVQEPFLNSSNYAELFNNDIKL  1850
1851  FVDDTNVYRVTVHKTFEGNVATKAINGCIFTLNPKTGHLFLKIIHTSVWA  1900
1901  GQKRLSQLAKWKTAEEVSALVRSLPKEEQPKQIIVTRKAMLDPLEVHMLD  1950
1951  FPNIAIRPTELRLPFSAAMSIDKLSDVVMKATEPQMVLFNIYDDWLDRIS  2000
2001  SYTAFSRLTLLLRALKTNEESAKMILLSDPTITIKSYHLWPSFTDEQWIT  2050
2051  IESQMRDLILTEYGRKYNVNISALTQTEIKDIILGQNIKAPSVKRQKMAE  2100
2101  LEAARSEKQNDEEAAGASTVMKTKTINAQGEEIVVVASADYESQTFSSKN  2150
2151  EWRKSAIANTLLYLRLKNIYVSADDFVEEQNVYVLPKNLLKKFIEISDVK  2200
2201  IQVAAFIYGMSAKDHPKVKEIKTVVLVPQLGHVGSVQISNIPDIGDLPDT  2250
2251  EGLELLGWIHTQTEELKFMAASEVATHSKLFADKKRDCIDISIFSTPGSV  2300
2301  SLSAYNLTDEGYQWGEENKDIMNVLSEGFEPTFSTHAQLLLSDRITGNFI  2350
2351  IPSGNVWNYTFMGTAFNQEGDYNFKYGIPLEFYNEMHRPVHFLQFSELAG  2400
2401  DEELEAEQIDVFS                                       2413

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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