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

NucPred

Fetching Q9Y6N6 from www.uniprot.org...

The NucPred score for your sequence is 0.83 (see score help below)

   1  MAAAALLLGLALLAPRAAGAGMGACYDGAGRPQRCLPVFENAAFGRLAQA    50
  51  SHTCGSPPEDFCPHVGAAGAGAHCQRCDAADPQRHHNASYLTDFHSQDES   100
 101  TWWQSPSMAFGVQYPTSVNITLRLGKAYEITYVRLKFHTSRPESFAIYKR   150
 151  SRADGPWEPYQFYSASCQKTYGRPEGQYLRPGEDERVAFCTSEFSDISPL   200
 201  SGGNVAFSTLEGRPSAYNFEESPGLQEWVTSTELLISLDRLNTFGDDIFK   250
 251  DPKVLQSYYYAVSDFSVGGRCKCNGHASECGPDVAGQLACRCQHNTTGTD   300
 301  CERCLPFFQDRPWARGTAEAAHECLPCNCSGRSEECTFDRELFRSTGHGG   350
 351  RCHHCRDHTAGPHCERCQENFYHWDPRMPCQPCDCQSAGSLHLQCDDTGT   400
 401  CACKPTVTGWKCDRCLPGFHSLSEGGCRPCTCNPAGSLDTCDPRSGRCPC   450
 451  KENVEGNLCDRCRPGTFNLQPHNPAGCSSCFCYGHSKVCASTAQFQVHHI   500
 501  LSDFHQGAEGWWARSVGGSEHPPQWSPNGVLLSPEDEEELTAPEKFLGDQ   550
 551  RFSYGQPLILTFRVPPGDSPLPVQLRLEGTGLALSLRHSSLSGPQDAGHP   600
 601  REVELRFHLQETSEDVAPPLPPFHFQRLLANLTSLRLRVSPGPSPAGPVF   650
 651  LTEVRLTSARPGLSPPASWVEICSCPTGYTGQFCESCAPGYKREMPQGGP   700
 701  YASCVPCTCNQHGTCDPNTGICVCSHHTEGPSCERCLPGFYGNPFAGQAD   750
 751  DCQPCPCPGQSACTTIPESREVVCTHCPPGQRGRRCEVCDDGFFGDPLGL   800
 801  FGHPQPCHQCQCSGNVDPNAVGNCDPLSGHCLRCLHNTTGDHCEHCQEGF   850
 851  YGSALAPRPADKCMPCSCHPQGSVSEQMPCDPVTGQCSCLPHVTARDCSR   900
 901  CYPGFFDLQPGRGCRSCKCHPLGSQEDQCHPKTGQCTCRPGVTGQACDRC   950
 951  QLGFFGFSIKGCRACRCSPLGAASAQCHENGTCVCRPGFEGYKCDRCHDN  1000
1001  FFLTADGTHCQQCPSCYALVKEEAAKLKARLTLTEGWLQGSDCGSPWGPL  1050
1051  DILLGEAPRGDVYQGHHLLPGAREAFLEQMMSLEGAVKAAREQLQRLNKG  1100
1101  ARCAQAGSQKTCTQLADLEAVLESSEEEILHAAAILASLEIPQEGPSQPT  1150
1151  KWSHLATEARALARSHRDTATKIAATAWRALLASNTSYALLWNLLEGRVA  1200
1201  LETQRDLEDRYQEVQAAQKALRTAVAEVLPEAESVLATVQQVGADTAPYL  1250
1251  ALLASPGALPQKSRAEDLGLKAKALEKTVASWQHMATEAARTLQTAAQAT  1300
1301  LRQTEPLTKLHQEARAALTQASSSVQAATVTVMGARTLLADLEGMKLQFP  1350
1351  RPKDQAALQRKADSVSDRLLADTRKKTKQAERMLGNAAPLSSSAKKKGRE  1400
1401  AEVLAKDSAKLAKALLRERKQAHRRASRLTSQTQATLQQASQQVLASEAR  1450
1451  RQELEEAERVGAGLSEMEQQIRESRISLEKDIETLSELLARLGSLDTHQA  1500
1501  PAQALNETQWALERLRLQLGSPGSLQRKLSLLEQESQQQELQIQGFESDL  1550
1551  AEIRADKQNLEAILHSLPENCASWQ                           1575

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.