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

NucPred

Fetching Q7PC86 from www.uniprot.org...

The NucPred score for your sequence is 0.34 (see score help below)

   1  MDYDPAHAMSRGGSMRQTISRSVSKASRNMEDIFNTSSRRTKSVNEDEEA    50
  51  LKWASIEKLPTYNRLRTSLMPELGEDDVYGNQILNKAVDVTKLDGEERQK   100
 101  FIDMVFKVAEQDNERILTKLRNRIDRVGIQLPTVEVRYDHLTVKADCYTG   150
 151  DRSLPSLLNAVRNMGEAALGMIGIRLAKKAQLTILKDVSGIVKPSRMTLL   200
 201  LGPPSSGKTTLLLALAGKLDKSLDVSGEVTYNGYRLNEFVPIKTSAYISQ   250
 251  NDLHVGIMTVKETLDFSARCQGVGTRYDLLNELARREKDAGIFPEADVDL   300
 301  FMKASAAQGVKSSLITDYTLKILGLDICKDTIVGDDMMRGISGGQKKRVT   350
 351  TGEMIVGPTKTLFMDEISTGLDSSTTFQIVKCLQQIVHLTEATVLISLLQ   400
 401  PAPETFDLFDDIILLSEGQIVYQGPRDHILEFFESFGFKCPERKGTADFL   450
 451  QEVTSKKDQEQYWVDPNRPYRYIPVSEFASSFKKFHVGSKLSNELSVPYD   500
 501  KSKSHKAALMFDKYSIKKTELLKSCWDKEWMLMKRNSFFYVFKTVQIIII   550
 551  AAITSTLYLRTEMHTRNEIDANIYVGSLLFAMIVNMFNGLAEMAMTIQRL   600
 601  PVFYKQRDLLFHPPWTYTLPTFLLGIPISIFESTAWMVVTYYSIGYAPDA   650
 651  ERFFKQFLIIFLIQQMAAGIFRFIASTCRTMTIANTGGVLVLLVVFLTGG   700
 701  FLLPRSEIPVWWRWAYWISPLSYAFNAITVNELFAPRWMNKMSGNSTTRL   750
 751  GTSVLNIWDVFDDKNWYWIGVGGLLGFTVIFNGFFTLALTYLDPLGKAQA   800
 801  ILPKEEDEEAKGKAGSNKETEMESVSAKKGMVLPFTPLAMSFDDVKYFVD   850
 851  MPAEMREQGVQETRLQLLKGVTSAFRPGVLTALMGVSGAGKTTLMDVLAG   900
 901  RKTGGYIEGDVRVSGFPKKQETFARISGYCEQTDIHSPQVTVRESLIFSA   950
 951  FLRLAKEVSKEDKLMFVDQVMELVELVDLRDAIVGLPGVTGLSTEQRKRL  1000
1001  TIAVELVANPSIIFMDEPTSGLDARAAAIVMRAVRNTVDTGRTVVCTIHQ  1050
1051  PSIDIFEAFDELLLMKRGGHVIYSGPLGRNSHKVVEYFESFPGVPKIPEK  1100
1101  YNPATWMLEASSLAAELKLGVDFAELYKASALCQRNKALVQELSVPPQGA  1150
1151  TDLYFATQFSQNTWGQFKSCLWKQWWTYWRSPDYNLVRFIFTLATSLMIG  1200
1201  SVFWQIGGKRSNVQDLTMVIGAIYAAVVFVGINNCSTVQPMVAVERTVFY  1250
1251  REKAAGMYSAIPYAISQVTCELPYVLIQTTYYSLIIYSMVGFEWKASKFL  1300
1301  WFIFINYFSFLYWTYYGMMTVSLTPNQQVASIFASAFYGIFNLFSGFFIP  1350
1351  RPKIPKWWVWYYWICPVAWTIYGLITSQYGDVETPIALLGGAPGLTVKQY  1400
1401  IKDQYGFESDYMGPVAGVLVGFTVFFAFIFAFCIKTLNFQSR          1442

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.)

Go back to the NucPred Home Page.