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

NucPred

Fetching Q5TZA2 from www.uniprot.org...

The NucPred score for your sequence is 0.85 (see score help below)

   1  MSLGLAGAQEVELTLETVIQTLESSVLCQEKGLGARDLAQDAQITSLPAL    50
  51  IREIVTRNLSQPESPVLLPATEMASLLSLQEENQLLQQELSRVEDLLAQS   100
 101  RAERDELAIKYNAVSERLEQALRLEPGELETQEPRGLVRQSVELRRQLQE   150
 151  EQASYRRKLQAYQEGQQRQAQLVQRLQGKILQYKKRCSELEQQLLERSGE   200
 201  LEQQRLRDTEHSQDLESALIRLEEEQQRSASLAQVNAMLREQLDQAGSAN   250
 251  QALSEDIRKVTNDWTRCRKELEHREAAWRREEESFNAYFSNEHSRLLLLW   300
 301  RQVVGFRRLVSEVKMFTERDLLQLGGELARTSRAVQEAGLGLSTGLRLAE   350
 351  SRAEAALEKQALLQAQLEEQLRDKVLREKDLAQQQMQSDLDKADLSARVT   400
 401  ELGLAVKRLEKQNLEKDQVNKDLTEKLEALESLRLQEQAALETEDGEGLQ   450
 451  QTLRDLAQAVLSDSESGVQLSGSERTADASNGSLRGLSGQRTPSPPRRSS   500
 501  PGRGRSPRRGPSPACSDSSTLALIHSALHKRQLQVQDMRGRYEASQDLLG   550
 551  TLRKQLSDSESERRALEEQLQRLRDKTDGAMQAHEDAQREVQRLRSANEL   600
 601  LSREKSNLAHSLQVAQQQAEELRQEREKLQAAQEELRRQRDRLEEEQEDA   650
 651  VQDGARVRRELERSHRQLEQLEGKRSVLAKELVEVREALSRATLQRDMLQ   700
 701  AEKAEVAEALTKAEAGRVELELSMTKLRAEEASLQDSLSKLSALNESLAQ   750
 751  DKLDLNRLVAQLEEEKSALQGRQRQAEQEATVAREEQERLEELRLEQEVA   800
 801  RQGLEGSLRVAEQAQEALEQQLPTLRHERSQLQEQLAQLSRQLSGREQEL   850
 851  EQARREAQRQVEALERAAREKEALAKEHAGLAVQLVAAEREGRTLSEEAT   900
 901  RLRLEKEALEGSLFEVQRQLAQLEARREQLEAEGQALLLAKETLTGELAG   950
 951  LRQQIIATQEKASLDKELMAQKLVQAEREAQASLREQRAAHEEDLQRLQR  1000
1001  EKEAAWRELEAERAQLQSQLQREQEELLARLEAEKEELSEEIAALQQERD  1050
1051  EGLLLAESEKQQALSLKESEKTALSEKLMGTRHSLATISLEMERQKRDAQ  1100
1101  SRQEQDRSTVNALTSELRDLRAQREEAAAAHAQEVRRLQEQARDLGKQRD  1150
1151  SCLREAEELRTQLRLLEDARDGLRRELLEAQRKLRESQEGREVQRQEAGE  1200
1201  LRRSLGEGAKEREALRRSNEELRSAVKKAESERISLKLANEDKEQKLALL  1250
1251  EEARTAVGKEAGELRTGLQEVERSRLEARRELQELRRQMKMLDSENTRLG  1300
1301  RELAELQGRLALGERAEKESRRETLGLRQRLLKGEASLEVMRQELQVAQR  1350
1351  KLQEQEGEFRTRERRLLGSLEEARGTEKQQLDHARGLELKLEAARAEAAE  1400
1401  LGLRLSAAEGRAQGLEAELARVEVQRRAAEAQLGGLRSALRRGLGLGRAP  1450
1451  SPAPRPVPGSPARDAPAEGSGEGLNSPSTLECSPGSQPPSPGPATSPASP  1500
1501  DLDPEAVRGALREFLQELRSAQRERDELRTQTSALNRQLAEMEAERDSAT  1550
1551  SRARQLQKAVAESEEARRSVDGRLSGVQAELALQEESVRRSERERRATLD  1600
1601  QVATLERSLQATESELRASQEKISKMKANETKLEGDKRRLKEVLDASESR  1650
1651  TVKLELQRRSLEGELQRSRLGLSDREAQAQALQDRVDSLQRQVADSEVKA  1700
1701  GTLQLTVERLNGALAKVEESEGALRDKVRGLTEALAQSSASLNSTRDKNL  1750
1751  HLQKALTACEHDRQVLQERLDAARQALSEARKQSSSLGEQVQTLRGEVAD  1800
1801  LELQRVEAEGQLQQLREVLRQRQEGEAAALNTVQKLQDERRLLQERLGSL  1850
1851  QRALAQLEAEKREVERSALRLEKDRVALRRTLDKVEREKLRSHEDTVRLS  1900
1901  AEKGRLDRTLTGAELELAEAQRQIQQLEAQVVVLEQSHSPAQLEVDAQQQ  1950
1951  QLELQQEVERLRSAQAQTERTLEARERAHRQRVRGLEEQVSTLKGQLQQE  2000
2001  LRRSSAPFSPPSGPPEK                                   2017

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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