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

NucPred

Fetching P61406 from www.uniprot.org...

The NucPred score for your sequence is 1.00 (see score help below)

   1  MAEGLERVRISASELRGILATLAPQAGSRENMKELKEPRQRKDNRRPDLE    50
  51  IYKPGLSRLRNRPKTKEASGNEEFKDEIVNDRDSSAVGNDTQLIQVCKEL   100
 101  DSQQQNGPIDAENSQAQETFPKTVGLEDRSLKIIKRSKKPDLQIYQPGRR   150
 151  LQTITKESAGRADEEEILNQVEQLRIEEDECKGEAIKEEVNNKPDKTEIE   200
 201  KHQSNDRVRTAKGEKGKKIEKGEGSKKVADDSVPGKPGSVKRYSRSDKRR   250
 251  NRYRTCSTSSAGSNNSAEGAGLTDNGCRRRRQDRAKERPRLKKQVSLSST   300
 301  DSLDEDRVDEPDVLGSRRSSERKKHLERNWSGCGEGEQKSNGKENRSALR   350
 351  VTFDAETMSKDSPVVRSVKDNVDRMKSDKGPSSGGKGSEKQELRHPRQEL   400
 401  RDRGRGILILPAHTALSVSSSGSPESTPLGPRLLFGSGSKGSRSWGRGGT   450
 451  TRRLWDPNNPDQKPALKSQTPQLHFLDTDDEISPTSWGDSRQAQASYYKF   500
 501  QNSDNPYYYPRTPGPASQYPYAGYSPLQYPVGPTNGMYPGAYYPGYPAPS   550
 551  GQYVCSPLPASTMSPEEIEQHVRNMQQQELHRLLRVADNQELQLSNLLSR   600
 601  DRISTEGMEKMAQLRTELLQLYERCILLDIEFSDSQNVDQILWKNAFYQV   650
 651  IEKFRQLLKDPNSENPEQIRNRLLELLDEGSDFFDSLLQKLQVTYKFKLE   700
 701  DYMDGLAIRSKPLRKTVKYALISAQRSMICQGDISRYREQANDTANYGKA   750
 751  RSWYLKAQHIAPKNGRPYNQLALLAVYTRRKLDAVYYYMRSLAASNPILT   800
 801  AKESLMSLFEETKRKAEQMEKKQHEEFDMSPDKWRKGKKSTFRHVGDDTT   850
 851  RLEIWIHPSHSRSAQGTESGKDSEQENGLGSLSPSDLNKRFILSFLHAHG   900
 901  KLFTRIGMETFPAVAEKVLKEFQVLLQHSPSPIGSTRMLQLMTINMFAVH   950
 951  NSQLKDCFSEECRSVIQEQAASLGLAMFSLLVQRCTCLLKDSAKAQLSSP  1000
1001  EDQEDQDDIKVSSFVPDLKELLPSVKVWSDWMLGYPDTWNPPPTSLDLPL  1050
1051  QVAVDVWSTLADFCNILTAVNQSEVPLYKDPDDDLTLLILEEDRLLSGFV  1100
1101  PLLAAPQDPCYVEKTSDKVIAADCKRVTVLKYFLEALCGQEEPLLAFKGG  1150
1151  KYVSVAPVPDTMGKEMGSQEGKQLEDEEEDVVIEDFEEDSEAEGSGGEDD  1200
1201  IRELRAKKLALARKIAEQQRRQEKIQAVLEDQSQMRQMELEIRPLFLVPD  1250
1251  TNGFIDHLASLARLLESRKYILVVPLIVINELDGLAKGQETDHRAGGYAR  1300
1301  VVQEKARKSIEFLERRFESRDSCLRALTSRGNELESIAFRSEDITGQLGN  1350
1351  NDDLILSCCLHYCKDKAKDYMPTSKEEPIRLLREVVLLTDDRNLRVKALT  1400
1401  RNVPVRDIPAFLTWAQVG                                  1418

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.