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

NucPred

Fetching Q9C0G0 from www.uniprot.org...

The NucPred score for your sequence is 0.92 (see score help below)

   1  MMDSENKPENDEDEKINKEAQDLTKLSSHNEDGGPVSDVIASFPENSMGK    50
  51  RGFSESSNSDSVVIGEDRNKHASKRRKLDEAEPLKSGKQGICRLETSESS   100
 101  VTEGGIALDETGKETFLSDCTVGGTCLPNALSPSCNFSTIDVVSLKTDTE   150
 151  KTSAQEMVSLDLERESPFPPKEISVSCTIGNVDTVLKCSICGHLFSSCSD   200
 201  LEKHAESHMQQPKEHTCCHCSHKAESSSALHMHIKQAHGPQKVFSCDLCG   250
 251  FQCSEENLLNAHYLGKTHLRRQNLAARGGFVQILTKQPFPKKSRTMATKN   300
 301  VHSKPRTSKSIAKNSDSKGLRNVGSTFKDFRGSISKQSGSSSELLVEMMP   350
 351  SRNTLSQEVEIVEEHVTSLGLAQNPENQSRKLDTLVTSEGLLEKLESTKN   400
 401  TLQAAHGNSVTSRPRPERNILVLGNSFRRRSSTFTLKGQAKKRFNLLGIK   450
 451  RGTSETQRMYMKHLRTQMKTHDAESVLKHLEACSSVQRVCVTTSETQEAE   500
 501  QGQGSARPPDSGLHSLTVKPASGSQTLCACTDCGQVATNRTDLEIHVKRC   550
 551  HAREMKFYCRTCDFSSMSRRDLDEHLHSNQHQQTASVLSCQCCSFISLDE   600
 601  INLRDHMKEKHNMHFLCTPCNLFFLSEKDVEEHKATEKHINSLVQPKTLQ   650
 651  SSNSDLVLQTLPLSTLESENAKESMDDSGKASQEEPLKSRVSHGNEVRHS   700
 701  SKPQFQCKKCFYKTRSSTVLTRHIKLRHGQDYHFLCKACNLYSLSKEGME   750
 751  KHIKRSKHLENAKKNNIGLSFEECIERVCIGANDKKEEFDVSGNGRIEGH   800
 801  IGVQLQEHSYLEKGMLASEELSQSGGSTKDDELASTTTPKRGRPKGNISR   850
 851  TCSHCGLLASSITNLTVHIRRKHSHQYSYLCKVCKYYTVTKGDMERHCAT   900
 901  KKHKGRVEIEASGKHSSDIIVGPEGGSLEAGKKNAGSAVTMSDEHANKPA   950
 951  ESPTSVLEKPDRGNSIEAEVENVFHSLDGEVNSHLLDKKEQISSEPEDFA  1000
1001  QPGDVYSQRDVTGTGENKCLHCEFSAHSSASLELHVKRKHTKEFEFYCMA  1050
1051  CDYYAVTRREMTRHAATEKHKMKRQSYLNSANVEAGSADMSKNIIMPEEE  1100
1101  HQQNSEEFQIISGQPSDTLKSRNAADCSILNENTNLDMSKVLCAADSVEV  1150
1151  ETEEESNFNEDHSFCETFQQAPVKDKVRKPEEMMSLTMSSNYGSPSRFQN  1200
1201  ENSGSSALNCETAKKNHEISNDAGELRVHCEGEGGNAGDGGGVVPHRHLC  1250
1251  PVTLDGERSAESPVLVVTRITREQGNLESGGQNRVARGHGLEDLKGVQED  1300
1301  PVLGNKEILMNSQHETEFILEEDGPASDSTVESSDVYETIISIDDKGQAM  1350
1351  YSFGRFDSSIIRIKNPEDGELIDQSEEGLIATGVRISELPLKDCAQGVKK  1400
1401  KKSEGSSIGESTRIRCDDCGFLADGLSGLNVHIAMKHPTKEKHFHCLLCG  1450
1451  KSFYTESNLHQHLASAGHMRNEQASVEELPEGGATFKCVKCTEPFDSEQN  1500
1501  LFLHIKGQHEELLREVNKYIVEDTEQINREREENQGNVCKYCGKMCRSSN  1550
1551  SMAFLAHIRTHTGSKPFKCKICHFATAQLGDARNHVKRHLGMREYKCHVC  1600
1601  GVAFVMKKHLNTHLLGKHGVGTPKERKFTCHLCDRSFTEKWALNNHMKLH  1650
1651  TGEKPFKCTWPTCHYSFLTASAMKDHYRTHTGEKSFLCDLCGFAGGTRHA  1700
1701  LTKHRRQHTGEKPFKCDECNFASTTQSHLTRHKRVHTGEKPYRCPWCDYR  1750
1751  SNCAENIRKHILHTGKHEGVKMYNCPKCDYGTNVPVEFRNHLKEQHPDIE  1800
1801  NPDLAYLHAGIVSKSYECRLKGQGATFVETDSPFTAAALAEEPLVKEKPL  1850
1851  RSSRRPAPPPEQVQQVIIFQGYDGEFALDPSVEETAAATLQTLAMAGQVA  1900
1901  RVVHITEDGQVIATSQSGAHVGSVVPGPILPEQLADGATQVVVVGGSMEG  1950
1951  HGMDESLSPGGAVIQQVTKQEILNLSEAGVAPPEASSALDALLCAVTELG  2000
2001  EVEGRAGLEEQGRPGAKDVLIQLPGQEVSHVAADPEAPEIQMFPQAQESP  2050
2051  AAVEVLTQVVHPSAAMASQERAQVAFKKMVQGVLQFAVCDTAAAGQLVKD  2100
2101  GVTQVVVSEEGAVHMVAGEGAQIIMQEAQGEHMDLVESDGEISQIIVTEE  2150
2151  LVQAMVQESSGGFSEGTTHYILTELPPGVQDEPGLYSHTVLETADSQELL  2200
2201  QAGATLGTEAGAPSRAEQLASVVIYTQEGSSAAAAIQSQRESSELQEA    2248

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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