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

NucPred

Fetching O75153 from www.uniprot.org...

The NucPred score for your sequence is 0.80 (see score help below)

   1  MLLNGDCPESLKKEAAAAEPPRENGLDEAGPGDETTGQEVIVIQDTGFSV    50
  51  KILAPGIEPFSLQVSPQEMVQEIHQVLMDREDTCHRTCFSLHLDGNVLDH   100
 101  FSELRSVEGLQEGSVLRVVEEPYTVREARIHVRHVRDLLKSLDPSDAFNG   150
 151  VDCNSLSFLSVFTDGDLGDSGKRKKGLEMDPIDCTPPEYILPGSRERPLC   200
 201  PLQPQNRDWKPLQCLKVLTMSGWNPPPGNRKMHGDLMYLFVITAEDRQVS   250
 251  ITASTRGFYLNQSTAYHFNPKPASPRFLSHSLVELLNQISPTFKKNFAVL   300
 301  QKKRVQRHPFERIATPFQVYSWTAPQAEHAMDCVRAEDAYTSRLGYEEHI   350
 351  PGQTRDWNEELQTTRELPRKNLPERLLRERAIFKVHSDFTAAATRGAMAV   400
 401  IDGNVMAINPSEETKMQMFIWNNIFFSLGFDVRDHYKDFGGDVAAYVAPT   450
 451  NDLNGVRTYNAVDVEGLYTLGTVVVDYRGYRVTAQSIIPGILERDQEQSV   500
 501  IYGSIDFGKTVVSHPRYLELLERTSRPLKILRHQVLNDRDEEVELCSSVE   550
 551  CKGIIGNDGRHYILDLLRTFPPDLNFLPVPGEELPEECARAGFPRAHRHK   600
 601  LCCLRQELVDAFVEHRYLLFMKLAALQLMQQNASQLETPSSLENGGPSSL   650
 651  ESKSEDPPGQEAGSEEEGSSASGLAKVKELAETIAADDGTDPRSREVIRN   700
 701  ACKAVGSISSTAFDIRFNPDIFSPGVRFPESCQDEVRDQKQLLKDAAAFL   750
 751  LSCQIPGLVKDCMEHAVLPVDGATLAEVMRQRGINMRYLGKVLELVLRSP   800
 801  ARHQLDHVFKIGIGELITRSAKHIFKTYLQGVELSGLSAAISHFLNCFLS   850
 851  SYPNPVAHLPADELVSKKRNKRRKNRPPGAADNTAWAVMTPQELWKNICQ   900
 901  EAKNYFDFDLECETVDQAVETYGLQKITLLREISLKTGIQVLLKEYSFDS   950
 951  RHKPAFTEEDVLNIFPVVKHVNPKASDAFHFFQSGQAKVQQGFLKEGCEL  1000
1001  INEALNLFNNVYGAMHVETCACLRLLARLHYIMGDYAEALSNQQKAVLMS  1050
1051  ERVMGTEHPNTIQEYMHLALYCFASSQLSTALSLLYRARYLMLLVFGEDH  1100
1101  PEMALLDNNIGLVLHGVMEYDLSLRFLENALAVSTKYHGPKALKVALSHH  1150
1151  LVARVYESKAEFRSALQHEKEGYTIYKTQLGEDHEKTKESSEYLKCLTQQ  1200
1201  AVALQRTMNEIYRNGSSANIPPLKFTAPSMASVLEQLNVINGILFIPLSQ  1250
1251  KDLENLKAEVARRHQLQEASRNRDRAEEPMATEPAPAGAPGDLGSQPPAA  1300
1301  KDPSPSVQG                                           1309

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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