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

NucPred

Fetching Q9Y6J0 from www.uniprot.org...

The NucPred score for your sequence is 0.99 (see score help below)

   1  MIRIAALNASSTIEDDHEGSFKSHKTQTKEAQEAEAFALYHKALDLQKHD    50
  51  RFEESAKAYHELLEASLLREAVSSGDEKEGLKHPGLILKYSTYKNLAQLA   100
 101  AQREDLETAMEFYLEAVMLDSTDVNLWYKIGHVALRLIRIPLARHAFEEG   150
 151  LRCNPDHWPCLDNLITVLYTLSDYTTCLYFICKALEKDCRYSKGLVLKEK   200
 201  IFEEQPCLRKDSLRMFLKCDMSIHDVSVSAAETQAIVDEALGLRKKRQAL   250
 251  IVREKEPDLKLVQPIPFFTWKCLGESLLAMYNHLTTCEPPRPSLGKRIDL   300
 301  SDYQDPSQPLESSMVVTPVNVIQPSTVSTNPAVAVAEPVVSYTSVATTSF   350
 351  PLHSPGLLETGAPVGDISGGDKSKKGVKRKKISEESGETAKRRSARVRNT   400
 401  KCKKEEKVDFQELLMKFLPSRLRKLDPEEEDDSFNNYEVQSEAKLESFPS   450
 451  IGPQRLSFDSATFMESEKQDVHEFLLENLTNGGILELMMRYLKAMGHKFL   500
 501  VRWPPGLAEVVLSVYHSWRRHSTSLPNPLLRDCSNKHIKDMMLMSLSCME   550
 551  LQLDQWLLTKGRSSAVSPRNCPAGMVNGRFGPDFPGTHCLGDLLQLSFAS   600
 601  SQRDLFEDGWLEFVVRVYWLKARFLALQGDMEQALENYDICTEMLQSSTA   650
 651  IQVEAGAERRDIVIRLPNLHNDSVVSLEEIDKNLKSLERCQSLEEIQRLY   700
 701  EAGDYKAVVHLLRPTLCTSGFDRAKHLEFMTSIPERPAQLLLLQDSLLRL   750
 751  KDYRQCFECSDVALNEAVQQMVNSGEAAAKEEWVATVTQLLMGIEQALSA   800
 801  DSSGSILKVSSSTTGLVRLTNNLIQVIDCSMAVQEEAKEPHVSSVLPWII   850
 851  LHRIIWQEEDTFHSLCHQQQLQNPAEEGMSETPMLPSSLMLLNTAHEYLG   900
 901  RRSWCCNSDGALLRFYVRVLQKELAASTSEDTHPYKEELETALEQCFYCL   950
 951  YSFPSKKSKARYLEEHSAQQVDLIWEDALFMFEYFKPKTLPEFDSYKTST  1000
1001  VSADLANLLKRIATIVPRTERPALSLDKVSAYIEGTSTEVPCLPEGADPS  1050
1051  PPVVNELYYLLADYHFKNKEQSKAIKFYMHDICICPNRFDSWAGMALARA  1100
1101  SRIQDKLNSNELKSDGPIWKHATPVLNCFRRALEIDSSNLSLWIEYGTMS  1150
1151  YALHSFASRQLKQWRGELPPELVQQMEGRRDSMLETAKHCFTSAARCEGD  1200
1201  GDEEEWLIHYMLGKVAEKQQQPPTVYLLHYRQAGHYLHEEAARYPKKIHY  1250
1251  HNPPELAMEALEVYFRLHASILKLLGKPDSGVGAEVLVNFMKEAAEGPFA  1300
1301  RGEEKNTPKASEKEKACLVDEDSHSSAGTLPGPGASLPSSSGPGLTSPPY  1350
1351  TATPIDHDYVKCKKPHQQATPDDRSQDSTAVALSDSSSTQDFFNEPTSLL  1400
1401  EGSRKSYTEKRLPILSSQAGATGKDLQGATEERGKNEESLESTEGFRAAE  1450
1451  QGVQKPAAETPASACIPGKPSASTPTLWDGKKRGDLPGEPVAFPQGLPAG  1500
1501  AEEQRQFLTEQCIASFRLCLSRFPQHYKSLYRLAFLYTYSKTHRNLQWAR  1550
1551  DVLLGSSIPWQQLQHMPAQGLFCERNKTNFFNGIWRIPVDEIDRPGSFAW  1600
1601  HMNRSIVLLLKVLAQLRDHSTLLKVSSMLQRTPDQGKKYLRDADRQVLAQ  1650
1651  RAFILTVKVLEDTLSELAEGSERPGPKVCGLPGARMTTDVSHKASPEDGQ  1700
1701  EGLPQPKKPPLADGSGPGPEPGGKVGLLNHRPVAMDAGDSADQSGERKDK  1750
1751  ESPRAGPTEPMDTSEATVCHSDLERTPPLLPGRPARDRGPESRPTELSLE  1800
1801  ELSISARQQPTPLTPAQPAPAPAPATTTGTRAGGHPEEPLSRLSRKRKLL  1850
1851  EDTESGKTLLLDAYRVWQQGQKGVAYDLGRVERIMSETYMLIKQVDEEAA  1900
1901  LEQAVKFCQVHLGAAAQRQASGDTPTTPKHPKDSRENFFPVTVVPTAPDP  1950
1951  VPADSVQRPSDAHTKPRPALAAATTIITCPPSASASTLDQSKDPGPPRPH  2000
2001  RPEATPSMASLGPEGEELARVAEGTSFPPQEPRHSPQVKMAPTSSPAEPH  2050
2051  CWPAEAALGTGAEPTCSQEGKLRPEPRRDGEAQEAASETQPLSSPPTAAS  2100
2101  SKAPSSGSAQPPEGHPGKPEPSRAKSRPLPNMPKLVIPSAATKFPPEITV  2150
2151  TPPTPTLLSPKGSISEETKQKLKSAILSAQSAANVRKESLCQPALEVLET  2200
2201  SSQESSLESETDEDDDYMDI                                2220

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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