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

NucPred

Fetching O88480 from www.uniprot.org...

The NucPred score for your sequence is 0.97 (see score help below)

   1  MIRIAALNASSTIEDDHEGSFKSHKIQTKEAQEAEAFALYHKALDLQKHD    50
  51  RFEESAKAYHELLEARLLREAVSSGDEKEGLKHPGLILKYSTYKNLAQLA   100
 101  AQREDLETAMEFYLEAVMLDSTDVNLWYKIGHVALRLIRLPLARHAFEEG   150
 151  LRCNPDHWPCLDNLITVLYTLSDYTTCLYFICKALEKDCRYSKGLVLKEK   200
 201  IFEEQPCLRKDSLRMFLKCDMSVHEVSVNAAETQAIVDEALGLRKKRQAL   250
 251  IVREKEPDLKLVQPIPFFTWKCLGESLLAMYNHLTTCEPPRPSLGKRIDL   300
 301  SDYQDPSQLLAPSIVVTPVSVVQPSPVCTNPTVAVAEPVLSYTSVTTTSF   350
 351  PLHSPGLLDTGTPMGDVSGGDKSKKGVKRKKTLEESGETAKRRSARVRNT   400
 401  KCKKEEKVDFQGLLVKFLPSRLRKLDPEEEDDPFNNYEVQSEAKLESFSN   450
 451  VGPHRLSFDSATFMESEKQDVHAFLMENLTNGGVLELMMRYLKSMGHKFL   500
 501  LKWPPGLAEVVLSVYHSWRRHSTSLPNPLLRDCSNKHIKDMMLMSLSCME   550
 551  LQLDQWLLTKGRSSTVSPRNCPAGVVTGRFGPDFPGTHCLGDLLQLSFAS   600
 601  SQRDLFEDGWLEFVVRVYWLKARFLALQGDMEQALENYDICTEILQSSTA   650
 651  LQAQAGAEQRDIVIRLPNLHNDSIVSLEEIDKNLKSLERCQSLEEIQRLF   700
 701  EAGDYKAVVQLLRPTLCTSGFDRAKHLEFMTSIPERPAQLLLLQDSLLRL   750
 751  EEHRQCFECSDVALNEAVQQMLNSSDSAAKEEWAATVTQLLLGMEQALSS   800
 801  DSRGSILKESSSPTGLVRLTNNLIQVIDCSMAVQEEPKEPYVSSVLPWII   850
 851  LHRIIWQEEDTFRSLCHQQQLQNPTEEGISEMPMLPSSLMLLNTAHEYLG   900
 901  RRSWCCNSDGALLRFYVHVLQKELAASASEDTHPYKEELETALEQCFYCL   950
 951  YSFPSKKSKARYLEEHSAQQVDLTWEDALFMFEYFKPKTLPEFDSYKTST  1000
1001  VSADLANLLKRIATIVPRTEKPALSMDKVSAYIEGTSAEVPCLPDGADPA  1050
1051  PPVLNELYYLLADYHFKNKEQSKAIKFYMHDICICPNRFDSWAGMALARA  1100
1101  SRIQDKLNSNELKSDGPIWRHATPVLNCFRRALEIDSSNLSLWIEYGTMS  1150
1151  YALHSFASRQLKQWRAELPPEVVQQMEDRRDSMLETARHCFTSAAHCEGD  1200
1201  GDEEEWLIHYMLGKVAEKQQQPPTVYLLHYRQAGHYLHEEAARYPKKIHY  1250
1251  HNPPELAMEALEVYFRLHASILKLLGKPDSGVSAEVLVSFMKEAAEGPFA  1300
1301  RGEEKNTPKASEKEKACLVDEDSHSSAGTLPGPGASLPSSSGPGLTSPPY  1350
1351  TATPIDHDYVKCKKPRQQATPDDRSQDSTAVALSDSSSTQDFFNEPTSLL  1400
1401  DGSRKLLPEKRISGLSAQAGPSGKDLPGPTEERGKTEESLESTEAFRVVE  1450
1451  PSVQKPVADSSASAYIPSKPAVSTPPPWDGKKRSDPLGEPVAFPQGLPAG  1500
1501  AEEQRQFLTEQCIASFCLCLSRFPQHYKSLYRLAFLYTYSKTHRNLQWAR  1550
1551  DVLLGSSIPWQQLQHMPAQGLFCERNKTNFFNGIWRIPVDEIDRPGSFAW  1600
1601  HMNRSIVLLLKVLAQLRDHSTLLKVSSMLQRTPDQGKKYLRDADRQVLAQ  1650
1651  RAFILTVKVLEDTLSELAEGLEHPGSKACGLSGARMTTDVSHKASPEDGQ  1700
1701  ESLPHPKKLPLADGSGPGPEPGGKVGPLHQLPVATDTRDNTEQGGEPKDK  1750
1751  ERPPVGPTEPMDTGETAARHPDLEPTPRLLPGRPPRDRGPESRSAELSLE  1800
1801  ELSISTRQQPAPLVPSPVTPTTAAPTTMGARAAGHPEEAPPRPNRKRKLL  1850
1851  QDTESGKTLLLDAYRVWQQGQKAMAYDLSRIEKIMSETYMLIKQVDEETA  1900
1901  LEQAVKFCQVHLGAAAQRQASGDAPTTPKHPKDSRENFFPATVAPSAPDT  1950
1951  TAPDALQRPSDSHLKPGLAAAITCPPSASASTPDPGIPQPHRPEAVPSRA  2000
2001  PLSPDGEEVSGVTEGPSFLSQEPRHSHQMKMAATGPLAEQHCWPVEAACQ  2050
2051  TGAEPTFSQATSTKVPSSGSTQTPESHQGKTESSRAKSRLLPNMPKLVIP  2100
2101  SATTKFPPEITVTPPTPTLLSPKGSISEETKQKLKSAILSAQSAANVRKE  2150
2151  SLCQPALEVLETSSQESSLESETDEDDDFMDV                    2182

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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