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

NucPred

Fetching P11442 from www.uniprot.org...

The NucPred score for your sequence is 0.53 (see score help below)

   1  MAQILPIRFQEHLQLQNLGINPANIGFSTLTMESDKFICIREKVGEQAQV    50
  51  VIIDMNDPSNPIRRPISADSAIMNPASKVIALKAGKTLQIFNIEMKSKMK   100
 101  AHTMTDDVTFWKWISLNTVALVTDNAVYHWSMEGESQPVKMFDRHSSLAG   150
 151  CQIINYRTDAKQKWLLLTGISAQQNRVVGAMQLYSVDRKVSQPIEGHAAS   200
 201  FAQFKMEGNAEESTLFCFAVRGQAGGKLHIIEVGTPPTGNQPFPKKAVDV   250
 251  FFPPEAQNDFPVAMQISEKHDVVFLITKYGYIHLYDLETGTCIYMNRISG   300
 301  ETIFVTAPHEATAGIIGVNRKGQVLSVCVEEENIIPYITNVLQNPDLALR   350
 351  MAVRNNLAGAEELFARKFNALFAQGNYSEAAKVAANAPKGILRTPDTIRR   400
 401  FQSVPAQPGQTSPLLQYFGILLDQGQLNKYESLELCRPVLQQGRKQLLEK   450
 451  WLKEDKLECSEELGDLVKSVDPTLALSVYLRANVPNKVIQCFAETGQVQK   500
 501  IVLYAKKVGYTPDWIFLLRNVMRISPDQGQQFAQMLVQDEEPLADITQIV   550
 551  DVFMEYNLIQQCTAFLLDALKNNRPSEGPLQTRLLEMNLMHAPQVADAIL   600
 601  GNQMFTHYDRAHIAQLCEKAGLLQRALEHFTDLYDIKRAVVHTHLLNPEW   650
 651  LVNYFGSLSVEDSLECLRAMLSANIRQNLQIWVQVASKYHEQLSTQSLIE   700
 701  LFESFKSFEGLFYFLGSIVNFSQDPDVHFKYIQAACKTGQIKEVERICRE   750
 751  SNCYDPERVKNFLKEAKLTDQLPLIIVCDRFDFVHDLVLYLYRNSLQKYI   800
 801  EIYVQKVNPSRLPVVIGGLLDVDCSEDVIKNLILVVRGQFSTDELVAEVE   850
 851  KRNRLKLLLPWLEARIHEGCEEPATHNALAKIYIDSNNNPERFLRENPYY   900
 901  DSRVVGKYCEKRDPHLACVAYERGQCDLELINVCNENSLFKSLSRYLVRR   950
 951  KDPELWGSVLLESNPYRRPLIDQVVQTALSETQDPEEVSVTVKAFMTADL  1000
1001  PNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKADRTRVMEYINRLDNY  1050
1051  DAPDIANIAISNELFEEAFAIFRKFDVNTSAVQVLIEHIGNLDRAYEFAE  1100
1101  RCNEPAVWSQLAKAQLQKGMVKEAIDSYIKADDPSSYMEVVQAANTSGNW  1150
1151  EELVKYLQMARKKARESYVETELIFALAKTNRLAELEEFINGPNNAHIQQ  1200
1201  VGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANST  1250
1251  RTWKEVCFACVDGKEFRLAQMCGLHIVVHADELEELINYYQDRGYFEELI  1300
1301  TMLEAALGLERAHMGMFTELAILYSKFKPQKMREHLELFWSRVNIPKVLR  1350
1351  AAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDIITKVAN  1400
1401  VELYYKAIQFYLEFKPLLLNDLLMVLSPRLAHTRAVNYFSKVKQLPLVKP  1450
1451  YLRSVQNHNNKSVNESLNNLFITEEDYQALRTSIDAYDNFDNISLAQRLE  1500
1501  KHELIEFRRIAAYLFKGNNRWKQSVELCKKDSLYKDAMQYASESKDTELA  1550
1551  EELLQWFLQEEKRECFGACLFTCYDLLRPDVVLETAWRHNIMDFAMPYFI  1600
1601  QVMKEYLTKVDKLDASESLRKEEEQATETQPIVYGQPQLMLTAGPSVAVP  1650
1651  PQAPFGYGYTAPPYGQPQPGFGYSM                           1675

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.