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

NucPred

Fetching Q91VW5 from www.uniprot.org...

The NucPred score for your sequence is 0.98 (see score help below)

   1  MFKKLKQKISEEQQQLQQALAPAQASSSSSTPTRTRSRTSSFTDQLDDVT    50
  51  PNRENASTQATKSPDGVSKDESSPSQSGDTQTFAQKLQLRVPSMESLFRS   100
 101  PIKESLFRSSKEPLVRTSSRESLNQLDLDCSAAAFDPPSDMESEAEDAPW   150
 151  NSDGLSREQLLQRLRRMERSLSSYRGKYSELVTAFQTLQREKKKLQGILS   200
 201  QSQDKSLRRISELREELQMDQQAKKHLQDEFDACLEEKDQYISVLQTQVS   250
 251  LLKQRLQNGPMNVDAPKPLPPGELQAEVHGDTEKMEGVGEPVGGGTSAKT   300
 301  LEMLQQRVKRQENLLQRCKETIGSHKEQCALLLSEKEALQEQLDERLQEL   350
 351  EKMKELHMAEKTKLITQLRDAKNLIEQLEQDKGMVITETKRQMLETLELK   400
 401  EDEIAQLRSHIKQMTTQGEELREQKEKSERAAFEELEKALSTAQKTEDAQ   450
 451  RRMKMEMDEQMKAVERASEEERLRLQHELSRVRQEAASMAKKNSEEQVAA   500
 501  LQKLHAEELASKEQELSRRLEARERELQEQMRIALEKSRSEYLKLTQEKE   550
 551  QQESLALEELELQKKAILTESENKLQELGQEAEAYRTRILELETSLEKSL   600
 601  QESKTQSEHLAVHLEAEKNKHNKELTALAEQHRTEVEGLQQQQDSLWTER   650
 651  LQSLSQQHQAAVEELREKYQQEKDALLKEKESLFQAHIQDMNEKTLEKLD   700
 701  KKQMELESVSSELSEALRARDQLAEELSVLRGDADKMKQALEAELEEQRR   750
 751  HHQREVGSISEQQELTVRRAEKALKDELSRLGALLDERDEHLRERQARVQ   800
 801  DLEAHLQKSAGELQQALAKLDLLHSEQSAAREQAGAYEEQLAQMQQKVLD   850
 851  LETEKSLLTKQVVEMETHKKHVCEELDAQRAQVQQLERQRSELEEKVRSL   900
 901  AQLQDSQLKNSTVEKEQARQSLMEKENIILQMREEQAKEIEILKQTLSSK   950
 951  EESISILHEEYETKFKNQEKRMEKIKQKAKEMQETKKKLLDQEAKLKKEL  1000
1001  ENTVLELSQKEKQFNAQILEMAQANSAGISDTVSRLEENQRQQIESLTGA  1050
1051  HQRKLDDVIEAWEKKLSQQAAELRDKHAEQMEEKEQGLGELRQKVRIVQS  1100
1101  EKEELTKEVARLKEAVSGQDVALAGLQGQLEQKSAVIVSLSERESQLQSQ  1150
1151  VEKLEADLGCSLSEKLSLQEELAELKLLADKSQLRVSELTGQVQAAEKEL  1200
1201  QSCKSLHELSKKSLEDKSLNLKSLLEELASQLDSRCERTKALLEAKTNEL  1250
1251  VCTSRDKADAILARLSQCQRHTATVGEALLRRMGQVSELEAQLTQLTEEQ  1300
1301  RTLKSSFQQVTNQLEEKEKQIKTMKADIEGLLTEKEALQQEGGQQRQAAS  1350
1351  EKESCITQLKKELAENINAVTLLREELSEKKSEIASLSKQLSDLGAQLES  1400
1401  SISPSDKAEAISALSKQHEEQELQLQAQLQELSLKVDALSKEKMSALEQV  1450
1451  DHWSNKFSEWKKKAQSRLAQHQSTIKDLQAQLDVKATDAREKEEQICLLK  1500
1501  EDLDRQNKKFECLKGEMEVRKSKMEKKECDLETALKTQTARVVELEDCVT  1550
1551  QRKKEVESLNETLKNYNQQRDTEHSGLVQRLQHLEELGEEKDNKVREAEE  1600
1601  TVLRLREHVSSLEAELGTVKKELEHVNSSVKSRDGELKALEDKLELESAA  1650
1651  KVELKRKAEQKIAAIRKQLLSQMEEKTQRYAKDTENRLSELSAQLKEREK  1700
1701  QVHSLEDKLKNLESSPHPEVPAVSRSMQSVAASPEQEAPDSQDCTHKACK  1750
1751  ERLCMLQRRLSEKEKLLRRLEQGEGEARPSQPEAQHRALSGKLDCTRARQ  1800
1801  LEDHVLIGCLPEELEEKMKCSLIVSQPMGEETGNNTGVKQNWASVVDSVQ  1850
1851  KTLQEKELTCQALEQRVKELESDLVRERGAHRLEVEKLTLKYEKSQSSQQ  1900
1901  EMDGENKCVEVLEDRPEENSQSHEIQSNVGTVDGLRSDLESKLTGAERDK  1950
1951  QKLSKEVARLQKELRALRREHQQELDILKRECEQEAEEKLKQEQEDLELK  2000
2001  HTSTLKQLMREFNTQLAQKEQELERTVQETIDKAQEVEAELLESHQEETQ  2050
2051  QLHRKIAEKEDDLRRTARRYEEILDAREEEMTGKVTDLQTQLEELQKKYQ  2100
2101  QRLEQEESTKDSVTILELQTQLAQKTTLISDSKLKEQELREQVHNLEDRL  2150
2151  KRYEKNACAATVGTPYKGGNLYHTEVSLFGEPTEFEYLRKVMFEYMMGRE  2200
2201  TKTMAKVITTVLKFPDDQAQKILEREDARLMSWLRTSS              2238

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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