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

NucPred

Fetching P91621 from www.uniprot.org...

The NucPred score for your sequence is 0.97 (see score help below)

   1  MGNKLSCSCAPLMRKAYRYEDSPWQSSRRRDGHLLSSFRLWAEVFHVSAS    50
  51  GAGTVKWQQVSEDLVPVNITCIQDSPECIFHITAYNSQVDKILDVRLVQP   100
 101  GTRIGQASECFVYWKDPMTNDTWGLNFTSPIDAKQFRECCSPSFKFSRKA   150
 151  SSSYSLKLDPPGKGKVKAKRKPLSTPASPSRVRQEPQCTCMSAEQYARLR   200
 201  TDPRVRGSSTLPRNVGSHRITDVDGQQQVGSGKVVSAVSSTSLYDNVASG   250
 251  GPGTNQGADTLPRQMKGGQQDRQDVANSGVNTNTPGVIVTGVGNVGSDMC   300
 301  GQNHVGSQVGNDDPAACQMDMDLSKSEGTQAGGGLHQSVGTCTSSSKGTG   350
 351  TRNKDFGDDMTRDAHSHDMHQHNVINNNTRRKTKSTEDMNVDTSTLKRML   400
 401  KPMPSTESPVTSPEMGRRRYNYYNANAAQTLGHPPHMHQHGMAMGMGGGG   450
 451  GGGHHIMNNNTMGRASSQSSRFSGSRSSHEIGRGYPPRNLYLELERERSC   500
 501  IEGSPPSDNVMFDNQCYATTPSSSNGNSDQDQSYGQQQSSGQHPQQQQGP   550
 551  PQRSSRHQHHHQQAPNVTPTPGSPTSRLLLEYEMHLRNTLAKGMDAESYS   600
 601  LHTFEALLSQSMENLANAKSSTLPLPPHRPLSTIRDKERDRDRDGYYSDR   650
 651  NELIRERERERDRGYLSDHNSSFSNSRCASCIGESARAQWFRHSDGWRSG   700
 701  SSTIGSGSGHGMMTQQIPGSGHKRSPWDSLPSLRQDSSLNDSGYKSARAD   750
 751  SLEQRAEFIRQDSLRSEYLSDRESRYGIVQQASIESTDSRMCYLTSSEIS   800
 801  DDDRMSLTTAVSDEDDGESVMASPYKAKATGTAASSFNCTGAVRKAGFLS   850
 851  VKKWLLRKKHQIELARKRGWKGYWVCLKGTTLLFYPCDSREGRSVEAAPK   900
 901  HLIIVDGAIMQPIPEHPKRDYIFCLSTAFGDAYLFQAPCQVELENWVNSI   950
 951  HSACAAAFARHRGKTGTLHLLQEEIFRLEKAIESDHKLKHMAELQQSVVT  1000
1001  DQETRHQIQTQILQWEENLERLHCEQFRLRCYMASLQSGELPNPKSLLTH  1050
1051  VSRPTKNTLNKLGVFTVSSFHAFICARSPSLLNNLLAGRGATKRRPPMLS  1100
1101  RSNSGSSRRSMQMNSRDEPEKTFKVAMPDNAYSTVYLRDAMSVEEFLASA  1150
1151  CARRNLNPMEHFVRVKKRRDMEDHNYFVPHRNDLIENYLHNHEFVEVCMK  1200
1201  ILYQVELQRTTLEQMWGFSVEAELIENAERQDELCCYVSRVEDKSVAMHN  1250
1251  GIIKGDEIMVINGAIVSDLDMMYLESVLQEEQSLSMMMRSSRTEPPDLVG  1300
1301  IMRVTDDMIDSLVCPPPPTDPPVMSEEMITGLIVPAPGWNGTSKDLYSPE  1350
1351  AESSPATSFVDPAAMAAQLAVGGVGGVVVGGLGVAKPTSRTSSFEIENLL  1400
1401  KTAEQETRKSSPTGSVTSSVSTTALTPSRQLTDAEKLRKVVMELVDTERT  1450
1451  YVKHLNNLLEHYLEPMKRETFLSNAEINALFGNIHEIVTFQRQFLQNLEE  1500
1501  SLDLEPDFNKFEHCGQFRNVLFAIGSAFLYYVNHFKLYSSFCASHSKAQK  1550
1551  VLHPNEGNHALQEFLAARNPKQQHSSTLESYLIKPIQRILKYPLLLQQMR  1600
1601  NLTDTRADEHVHLCEALKGMEKVAEHINEMQRIHEEYGAIFDHLFRQHQK  1650
1651  SCKQPIDLSPGDLLYYGGVEWLNISDFLGKIKKGLELHAMCFVFKSAVVF  1700
1701  LCKERLRQKKKLMGVSSKNATNEVEIIRYQVLIPVTEVQVRASSAKDMDS  1750
1751  HFLWELIHLRSQLQRRSEKVYVLSNSTADFRNAFLKTIRQIIRESVRNMS  1800
1801  IPMKNFGGSSGSVSGHSSQGMGSMGYPGNSQTLERPKQQITIVHGSHTLG  1850
1851  KPKKKSGSQRHSAGNIDYDNLSGSQEADDLPPSVGVVHYASGHTHGQQMQ  1900
1901  PAGFRGRSKTVGDVTEITCSSPEPHQQQQQQQQQQQQLMQQGHAHAHPHP  1950
1951  HPHPREPPPPPIRQPHLHHHSSDIERIDPGTKSEGEEDSQQGTIRPKATL  2000
2001  GRTPNHLTLSTTSTLSVGSTGSQARLIQSSHPPASYQPVLMKDLGSPVWK  2050
2051  PRDMINLGTDPQSTTRKDDVKN                              2072

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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