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

NucPred

Fetching O43065 from www.uniprot.org...

The NucPred score for your sequence is 0.82 (see score help below)

   1  MTTRLDRLVVLLDSGSTSVVRETAAKQIGDIQKVHPDELYNLLGRVVPYL    50
  51  KSKNWDTRVAAAKAIGGIVENVPVWNPNRTSPVKKEETEDLPSFNGDTEE   100
 101  KPFIKTEEGAPASSQSQVVVSSNLTSNSEVSKLEEERLSTRSHSQEIKPI   150
 151  VDFGPDEETAKELNTELKGKFENSLLSFESFDIANVLKAGKKLLGSASRD   200
 201  YDVNPANYSTHYLQQLSNLKSRLDLAGEYLDDSIMNDLGDNVGSNSKGSP   250
 251  TTSIPEHKTSINNNKPEDTPTPSENVHLSARQRNALKRKARQMKNSQKVR   300
 301  VIDVAPTLVHQQNSTSSADKKTGADYNFTAQSRSDRLVVEHKAPIVPSAA   350
 351  VAVTSDSVWPFETLVELLLIDMFDPSWEIRHGACMGLREIIRYAGFGYGR   400
 401  VVGKSEAENEQLNKKYFDDLLCRIACVFALDRFGDYLADQVVAPIRESVS   450
 451  QVLGVALIYVPNDSVFSMYKVLHSLVFQNELGLTNTVWEAAHGGMLGIKY   500
 501  LVAVKYPLFFSHSDYLDSLINTVIHGLANHDDDVRAVSALTLLPIADKLV   550
 551  QEKLSSCKNLLKVLWDCLDDVKDDLSSSTSCVMDLLSSLCSFTEVMNLMQ   600
 601  ETANSDPEFSFETLVPRLFHLMRYTLTGVRRSVVYALTKFISVQTSCSWI   650
 651  TGLTLRLCFQNVLLEQQEDISKSSCELAQRVMDILYRDGPESFSKLLYSH   700
 701  IEPMLKVSITPIGSFRRPYPLDTTLIVKPSGQPYAPSTSRERNNNISELS   750
 751  NSRTKHRAKDDPKGSFCFSVDEPMLNGDVEFVGEERMLKARLRASSLLGR   800
 801  IIGRWKRDEILLFFKPFLQACLTSSFSTPVVLGSRLIESFFEVEDNDLTI   850
 851  QKDELYHLLCDQFATVPRENYANLVSQLHVVRAQCNALLNTFLDVGRLSR   900
 901  SKIPSLAVVVKGDPEAGPIAFGIADAEKLVGPTYENLCKLLSPSQKAQSS   950
 951  KALNEIKYLIIDEISIYKIAKERQDIQCSASIASAMVTYDKLPKKLNSII  1000
1001  KGIMESIKKEQFSCLQMHSASAMMKLISACYKESRQVISEKIVRNLCAYV  1050
1051  CMDTTETPIFHDSGKNGILSLHSIGTSDDNDEQVSGKLVDDSDDVSNDRK  1100
1101  SSLSSVSDKDAAVLQRMGAQLTLQQMAQNFGSSLFSRVPVLSQCLFVPLQ  1150
1151  QYAESGFPSEVDQASCTVGQDLLDAMSILRFLVAYLDSGLQSEIVSTLPH  1200
1201  LLATLQSNYSAVRNMASKCFAAITESNAAGSKALHLLVEDVVPLLGDASS  1250
1251  TIHRQGAIECIYHVVQRLGVRILPYILYLIIPLLGRMSDADQDVRVLATT  1300
1301  SFATLVKLVPLEAGLPDPPDLPQYLLDSREKERKFLEQMLNPSKVEAFSI  1350
1351  PVPISADLRKYQQEGVNWLAFLNKYELHGILCDDMGLGKTLQTICIVASD  1400
1401  HYNRQKLFEESGSPKFAHVPSLIVCPSTLAGHWQQELSTYAPFLKVSAYV  1450
1451  GPPAERAKIRSKMKKSDVVVTSYDICRNDVDELVKIDWNYCVLDEGHVIK  1500
1501  NARAKLTKAVKSLRSYHRLILSGTPIQNNVLELWSLFDFLMPGFLGTEKT  1550
1551  FQERFVRPIAASRDAKSSSKERERGTLALEAIHKQVLPFMLRRLKEDVLA  1600
1601  DLPPKIIQDYYCDMSDLQRKLLNDFVSQLNINEELEDDETEKTQGTRKKK  1650
1651  SQKAHIFQALQYMRKLCNHPALILTEKHPKRNAIVKQLAKENSGLHDLKH  1700
1701  APKLTALGQLLRDCGLGNSSVNSNGIDSALTNAVSEHRVLIFCQLKDMLD  1750
1751  MVEKDLLQATMPDVTYMRLDGSVEPTKRQEAVTKFNNDPSIDVLLLTTHV  1800
1801  GGLGLNLTGADTVIFVEHDWNPMRDLQAMDRAHRIGQKKVVNVYRLITRG  1850
1851  CLEEKIMGLQRFKMNVASTVVNQQNAGLSSIGTDQILDLFNTTADEQQTV  1900
1901  QNIDKEESEDAAGRGLSGTSKKALEGLPEMWDESQYDEFNLDGFISTLPK  1950
1951  DAS                                                 1953

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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