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

NucPred

Fetching Q920R4 from www.uniprot.org...

The NucPred score for your sequence is 0.55 (see score help below)

   1  MTGAEVEPGAQAKAENKPGDENANAAEVEPEVPLVVRPKVRTQMMTGARP    50
  51  KVKPKGTPGARPKGETSSPGGAYAKCKPRSIPISRSKHDAQVWAPSKFRG   100
 101  ESMSKMGKQCQISAADSPLVSNDSGAVAQAKCLSVDRELANMDTESIPKK   150
 151  ASSPARFQPSFGPEEGTSMGSWYRPRPIPKGEAYENSDFKWADKSSGSSS   200
 201  FWNRDETSTRFRPRKSMKSNTRFRHMAKQEANTMSRHKNKQEFYNISSSD   250
 251  SEDESAKTPWFWAKDKPKVWSRPKEEPNTRSWFRSKKEVRVESTSGSECE   300
 301  NHTKSLFWSGEEAKCRSKPRARKGVNMRARHQAKREAYSDVTSGSVDKNK   350
 351  KDSWFLPEEKANAFSKSKTKKEPRTRAMPREEVKTKARASTKQEARPEEE   400
 401  VLVGAWVLDTQDNTMGERISMKTTCVEEEPIVGDWFWSEEEASVDSETGL   450
 451  KSRPRAKEEQVSSFCLGSGKKTSMESGPKATSKSMPVAKDDEVIIGSWFW   500
 501  ADDEEISLQADDESIFGSWFWGTGEKSLRSVGVSCEKMPKSGEKEVTDSW   550
 551  FWAGEVNTEAEMEEQASSASTKGTIFVPWFWSEKQAHMDLGTEPCSDIMA   600
 601  GAEEEPIIGPWFWAKVDNSVEAEVNSKSSLEDEEEPIRSPWFGAREQPNM   650
 651  KYAAGVGYKPMAEAEEANKKSCVWAKEPCLYPTNRESLKSTLGEKEDTVD   700
 701  PWLWSNNYPRTETITGSWLWAAEEGNIDDETGEEIKLPTLEDNVFNSWSW   750
 751  KENEETVVEAPNREESKPEAEEEDIIGSWFWAGDEDRFQPAAKIKEENKI   800
 801  APEDEDTVGSWFWGKEEASVEAVKGGTFESVSGIKEEKATGSWFWTDKAK   850
 851  IGAGPQTVETGSETEDEAIFESLIWAAKKDSMQTGVNRVSKPKDEGEGIE   900
 901  SWLWSGDKATTESKTVTVSESSPENGKESIVKFGSRAKDEVINKTGSGDN   950
 951  CKFSTEAESIVGPWFWEGDEASFESNPVPVCKAACEPESSTEHEPDPSRR  1000
1001  PQSWDEVTVQFKPGPWGKAGFPSLNPFRFPKEAASLFAEMFGGKPKLVEV  1050
1051  GTEREPEPQFPFQYDPSYRSVREIREHLKARESAQAENWSCNCIQCELRI  1100
1101  GSEEFEELLLMMDRNRDPFIHEISKIAMGMRGASQFTRDFIRNSGVISLI  1150
1151  EALMNYPSSRARTAFLENMIQMAPTYPDLNMIETYVCQVCEDTFDYDLDS  1200
1201  SDQLSGLTMITHLTTTFDYHKVVVAYLAGFYYLLNSGNTTTRFHVLKLLL  1250
1251  NLSESLVMTKRLLITDSVSEFMALFNREDSDENIQIILAIFENISKNIQK  1300
1301  EALFADDEEEEEEEEAVNLEPLISAFREAEKFAKELKRKTDDQKSP      1346

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.