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

NucPred

Fetching P15508 from www.uniprot.org...

The NucPred score for your sequence is 0.91 (see score help below)

   1  MTSATEFENVGNQPPFSRINARWDAPDDELDNDNSSARLFERSRIKALAD    50
  51  EREVVQKKTFTKWVNSHLARVSCRISDLYKDLRDGRMLIKLLEVLSGEML   100
 101  PRPTKGKMRIHCLENVDKALQFLKEQRVHLENMGSHDIVDGNHRLVLGLI   150
 151  WTIILRFQIQDIVVQTQEGREQRSAKDALLLWCQMKTAGYPHVNVTNFTS   200
 201  SWKDGLAFNALIHKHRPDLIDFDKLKDSNARHNLEHAFDVAERQLGIIPL   250
 251  LDPEDVFTENPDEKSIITYVVAFYHYFSKMKVLAVEGKRVGKVIDHAIET   300
 301  EKMIEKYSGLASDLLTWIEQTISVLNSRKFANSLSGVQQQLQAFSTYRTV   350
 351  EKPPKFQEKGNLEVLLFTIQSRMRANNQKVYTPHDGKLVSDINRAWESLE   400
 401  EAEYQRELALRSELIRQEFDRKAAMRETWLNENQRLVTQDNFGYDLAAVE   450
 451  AAKKKHEAIETDTAAYEERVKALEDLAQELEKENYHDQKRIIARKDNILR   500
 501  LWSYLQELLRSRRQRLEATLALQKLFQDMLHSIDWMDEIKAHILSAEFGK   550
 551  HLLEVEDLLQKHKLMEADIAIQGDKVKAITAATLQFAEGKGYQPCDPQVI   600
 601  QDRVSHLEQCFSELSNMAAGRKAQLEQSKRLWKFFWEMDEAESWIKEKEQ   650
 651  IYSSLDYGKDLTSVLILQRKHKAFEDELRGLDAHLKQIFQEADDMVAQKQ   700
 701  FGHPQIETRVKEVSAQWDHLKELAAFRKKDLQDAENFFQFQGDADDLKAW   750
 751  LQDAHRLLSGEDVGQDEGATRALGKKHKEFLEELEESRGVMEHLEHQAQG   800
 801  FPEEFRDSPDVTNRLQALRKLYQQVLTQAELRGHKLQEALDLYTVFGESD   850
 851  ACELWMTEKGKWLDQMDIPNTLEDLEVVQHRFDILDQEMKTLMAQIDGVN   900
 901  LAANNLVESGHPRSGEVKQYQDRLNKRWQAFQAVVSEQREAVDSALRVNN   950
 951  YCVDCEETSKWIMDKTKVVESTKDLGQDLAGVIAIQRKLSGLERDVLAIR  1000
1001  DRVSALERESQYLMESHPEQKEDIGQRQADVEKLWKGLQDALQGQELSLG  1050
1051  EASKLQAFLQDLDDFKAWLSMAQKAVASEDMPESLPEAEQLLQQHAAIKE  1100
1101  EIDAHRDDYHRVKASGEKVIEGQTDPDYQLLGQRLEGLDTDWDALRRMWE  1150
1151  SRGNTLTQCLGFQEFQKDAKQAEAILSNQEYTLAHLEPPDSLAAAEAGIR  1200
1201  KFEDFLVSMENNRDKILSPVDSGNKLVAEGNLYSNKIMEKVQLIEDRHKK  1250
1251  NNEKAQEATVLLKDNLELQNFLQNCKELTLWINDKLLTSPDVSYDEARNL  1300
1301  HNKWMKHQAFMAELASHQGWLENIDAEGRQLMAEKPQFKDVVSERLEALH  1350
1351  KLWEELQSTAKAKAEQLSAARSSDLRLQTHADLNKWIGAMEDQLRSDDLG  1400
1401  KDLTTVNRMLAKLKRVEEQVNLRKEELEELFADAPSLGAEAGDTDMSIEK  1450
1451  RFLDLLEPLGRRKKQLELSKAKLQISRDLEDETLWVEERLPLAQSADYGT  1500
1501  NLQTVQLFMKKNQTLQNEILGHAPRVEDVLRRGQELVKAAEIDCQDIEER  1550
1551  LGHLQSSWDTLREAAAGRLQRLRDAHEAQQYYLDAGEAEAWISEQELYVF  1600
1601  SDEPPKDEEGAIVMLKRHLRQQRTVEEYGRNIKQLAGRAQSLLSAGHPEG  1650
1651  EQIIRLQGQVDKQYAGLKDMAEERRRRLENMYHLFQLKREADDLEQWITE  1700
1701  KEMVASSQEMGQDFDHVTMLRDKFRDFARETGAIGQERVDNVTIIERLID  1750
1751  AGHSEAATIAEWKDGLNDMWADLLELIDTRMQLLAASYDLHRYFYTGTEI  1800
1801  LGLIDEKHRELPEDVGLDASTAESFHRVHTAFERELHLLGVQVQQFQDVA  1850
1851  TRLQTAYAGEKADAIQSKEQEVSAAWQALLDACAGRRAQLVDTADKFRFF  1900
1901  SMVRDLLSWMESIIRQIETQERPRDVSSVELLLKYHQGIKAEINTRAKNF  1950
1951  STCLELGESLLQRQHQASDEIREKLQQVISRRQEMNDKWEARSDRLHMLL  2000
2001  EVCQFSRDASVAEAWLIAQEPYLASRDFGHTVDSVEKLIKRHEAFEKSTA  2050
2051  SWAERFAALEKPTTLELKERQTPERPTEEPGPQEEEGETAGEAPQVHHAA  2100
2101  TERTSPVSFMSRLSSSWESLLPEPAHPF                        2128

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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