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

NucPred

Fetching Q9QXL1 from www.uniprot.org...

The NucPred score for your sequence is 0.99 (see score help below)

   1  MAGQGDCCVKVAVRIRPQLSKEKIEGCHICTSVTPGEPQVLLGKDKAFTY    50
  51  DFVFDLDTWQEQIYSTCVSKLIEGCFEGYNATVLAYGQTGAGKTYTMGTG   100
 101  FDTVTSEEEQGIIPRAIAHLFRGIDERKRRAQEKGVTGPEFKVSAQFLEL   150
 151  YNEEILDLFDSTRDPDARHRRSNIKIHEDANGGIYTTGVTSRLINSQEEL   200
 201  IQCLKQGALSRTTASTQMNVQSSRSHAIFTIHLCQMRVCAQPDLVNETVT   250
 251  GLPDGAAPTGTEYETLTAKFHFVDLAGSERLKRTGATGERAKEGISINCG   300
 301  LLALGNVISALGDQSKKVVHVPYRDSKLTRLLQDSLGGNSQTIMIACVSP   350
 351  SDRDFMETLNTLKYANRARNIKNKVVVNQDKTSQQISALRAEIARLQMEL   400
 401  MEYKAGKRVIGEDGTEGYSDLFRENAMLQKENGALRLRVKAMQEAIDAIN   450
 451  NRVTQLMSQEANLLLAKAGDGNEAIGALIQNYIREIEELRTKLLESEAMN   500
 501  ESLRRSLSRASARNPYSLGASPAGPAFGGSPATSMEDASEVIRKAKQDLE   550
 551  RLKKKEVRQRRKSPEKEAFKKRAKLQAENSEETDENEAEEEEEERDESGC   600
 601  EEEEGREDEDEDSGSEESLVDSDSDPEEKEVNFQADLADLTCEIEIKQKL   650
 651  IDELENSQRRLQTLKHQYEEKLILLQNKIRDTQLERDRVLQNLSTMECYT   700
 701  EEKANKIKADYEKRLREMNRDLQKLQAAQKEHARLLKNQSRYERELKKLQ   750
 751  AEVAEMKKAKVALMKQMREEQQRRRLVETKRNREIAQLKKEQRRQEFQIR   800
 801  ALESQKRQQEIVLRRKTQEVSALRRLAKPMSERVAGRVGLKPPNMDSGAE   850
 851  VSASTTSSEAESGARSVSSIVRQWNRKIDHFLGDRPTATVNGGRPARKKF   900
 901  QKKGASQSFSKAARLKWQSLERRIIDIVMQRMTIVNLEADMERLIKKREE   950
 951  LFLLQEALRRKREHLQAESPEEEKGLQELAEEIEVLAANIDYINDSITDC  1000
1001  QATIVQLEETKEELDSTDTSVVISSCSLAEARLLLDNFLKASIDKGLQVA  1050
1051  QKEAQIRLLEGRLRQTDMTGSSQNHLLLDALREKAEAHPELQALIYNVQH  1100
1101  ENGYASTDEEVSEFSEGSFSQSFTMKGSTSHDDFKFKGEPKLSAQMKAVS  1150
1151  AECLGPPLDSSTKNITKSLASLVEIKEDGVGFSIRDPYYRDKVSRTVSLP  1200
1201  TRGSTFPRQSRGATDTSPLTRRKSYDRGQPIRSTDMGFTPPSSPPTRPRN  1250
1251  DRNVFSRLTSNQSQGSALDKSDDSDSSLSEVLRGIITPIGGAKGARTAPL  1300
1301  QCISMAEGHTKPILCLDATDELLFTGSKDRSCKMWNLVTGQEIAALKGHP  1350
1351  NNVVSIKYCSHSGLVFSVSSSYIKVWDIRDSAKCIRTLTSSGQVISGDAC  1400
1401  IATSTRAITSAQGEHQINQMALSPSGSMLYVASGNAVRIWELNRFQPIGK  1450
1451  LTGHIGPVMCLTVTQTSNQHDLVVTGSKDHYVKMFQLGDCVTGTIGPTHN  1500
1501  FEPPHYDGIECLAIQGDILFSGSRDNGIKKWDLDQQELIQQIPNAHKDWV  1550
1551  CALAFVPGRPMLLSACRAGFIKVWNVDNFTPIGEIKGHDSPINAICTNSK  1600
1601  HIFTASSDCRVKLWNYVPGLTPCLPRRVLAIKGRAPPCPDLPPPPLTLPI  1650
1651  LPFPVFPPPRSELLLHVT                                  1668

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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