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

NucPred

Fetching Q5TM68 from www.uniprot.org...

The NucPred score for your sequence is 0.95 (see score help below)

   1  MEDTQAIDWDVEEEEETEQSSESLRCNVEPVGRLHIFSGAHGPEKDFPLH    50
  51  LGKNVVGRMPDCSVALPFPSISKQHAEIEILAWDKAPILRDCGSLNGTQI   100
 101  LRPPKVLSPGVSHRLRDQELILFADLLCQYHRLDVSLPFVSRGPLTVEET   150
 151  PRVQGGTQPQRLLLAEDSEEEVDFLSERHVVKKSRTTSSPVAMIVPESDE   200
 201  EGHSPVLGGPGPPFAFNLNSDTDAEEGQQSATEEASSAARRGATIEAEQS   250
 251  EAEVVTEIQLEKDQPSVKERDNDTKVKRGAGNGVVPAGMILERSQPPGED   300
 301  SDTDVDDDSRPPGRPAEVHLERAQPFGFIDSDTDAEEEGIPATPVVVPMK   350
 351  KRKIFHGVGTRGPGAPGLSHLQESQAGSDTDVEEGKAPQAVPLEKSQASM   400
 401  VINSDTDDEEEVSAALTLARLKESQPAVWNRDAEEDMAHHAVLLQRSQTT   450
 451  TGRDSDTDVEEEELPVENKQTVPKAHTKIRALVRAHSEKDQPPFGDSDDS   500
 501  VEADKSSPGIHLERSQASITVDINTQVEEEVPPGSAIVHMKKHQVSMEGT   550
 551  NQTDVKADGGPAKLLVVSLEEASPPHGDCEIDAEEGTSLAASAVADVRKS   600
 601  QLPAEGDAGAEWTAACLKQERAYEVGAQGGSPVAQVEQDLPTSRENLTDL   650
 651  VVDTDTPGESTQPQREGAQVPTGREREQHVGRTKDSEDNCDDSEDPDLQA   700
 701  TQCFLENQGLEAVQSMEDEPTQAFMLTPPQELGSSHCSFQTTGTLDEPWE   750
 751  VLATQPFCLRESEDSETQPFDTHLEAYGPCLSPPRAIPGDQHPESPVHTE   800
 801  PMGIQGRGRQTVDKGMGIPKETAERVGPERGPLERETEKLLPERQTDVTG   850
 851  EEELTRGIQDREQKQLLARDTQRQESDKNGESASPERDRESLKVEIETSK   900
 901  EIQGKQVQKQTLPSKAFEREVERPVADRECEPAELEEKVPKVILERDAQR   950
 951  GEPKGGSQDQKGQASSPTSEPGVGAGDLPGPTSAPVPSGSQSGGRGSPVS  1000
1001  PRRHQKGLLNCKMPPTEKASRIGAAEKASRGDQESPDACLPPTVPEASAP  1050
1051  PQKPLNSQSQKHLAPQPLLSPLSPSIEPTIRKTGQDRSQEAPETPLSSEL  1100
1101  EPFHPKPKIITRKSSRMTPFPATSAAPEPHPSTSTAQPVTPKPTSQATRS  1150
1151  RTNRSSVKTPEPVVPTVPELQPSTSTDQPVASEPTSQATRGRKNRSSVKT  1200
1201  PEAVVPTALELHPSNSTDQPVTPKPTSEAIRSRTNRSSVKTPEAVVPTAL  1250
1251  ELHPSNSTDQPVTPKPTSEAIRSRTNRSSVKTPEPVVPTVPELQPSTSTD  1300
1301  QPVTSEPTSQATRGRTNRSSVKTPEPVVPTVPELQPSTSTDQPVASEPTS  1350
1351  QATRGRKNRSSVKTPEAVVPTALELHPSNSTDQPVTPKPTSRTTRSRTNM  1400
1401  SSVKTPESTVPIAPELPPSTSTEQPVITEPTYQPTRGRKNRSSVKTPETV  1450
1451  VATAPKLQSSTSTDQPITPEPTSQATRGRTNRSSVKSPETVLRTAPELQP  1500
1501  STSTHQPVTAKHTSQATRGRTNRSSVKTPEPVVSTAPELQPSTSTHQPIT  1550
1551  PEPTSQATRGRTDRTSVKTPKIVVPTVPELQASTSTDQPVTSEPTSRTTR  1600
1601  GRKNRSSVKTPETVVPTAPEPHPTTSTDQPITPKPTSRATRGRTNRSSVK  1650
1651  TPELIVPIAPEFHPSTSRSQLVTPEPTSRATRGRKNRSSVKTPEPAVPTA  1700
1701  PELHPTTSTDQPVTPKPTSRATRGRTNRSSVKTPEPVEPAASDLEPFTPT  1750
1751  DQPVTPEAIPQGSQSKTLRSSTVSAMLIPTTPEFQSPVTTDQPISPEPIP  1800
1801  QASCIKRQRATGNPGSLTAPIDHKPCSAPLEPKSRPSRNQRWGAVRADES  1850
1851  LTAIPEPASPQLLDIPTHASQIQKVEPAGRSRFTPELQPKASQSRKRSLA  1900
1901  IMDSPPHQKQPQRGEVSQKTVIIKEEEEDTAEKPGKEEDVMTPKPGKRKR  1950
1951  DQAEEEPNRIPNRSLRRTKLNQESTAPKVLFTGVVDAQGERAVLALGGSL  2000
2001  AGSAAEASHLVTDRIRRTVKFLCALGRGIPILSLDWLHQSRKAGCFLPPD  2050
2051  EYVVTDPEQEKNFGFSLQDALSRARERRLLEGYEIYVTPGVQPPPPQMGE  2100
2101  IISCCGGTYLPSMPRSYKPQRVVITCPQDFPRCSVPLRVGLPLLSPEFLL  2150
2151  TGVLKQEAKPEAFVLSPLEMSST                             2173

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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