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

NucPred

Fetching Q9WUU9 from www.uniprot.org...

The NucPred score for your sequence is 0.94 (see score help below)

   1  MHPVNPFGGQQPSAFAVSSSTTGTYQTKSPFRFGQPSLFGQNSTPSKSLA    50
  51  FSQVPSFATPSGGSHSSSLPAFGLTQTSSVGLFSSLESTPSFAATSSSSV   100
 101  PGNTAFSFKSTSSVGVFPSGATFGPETGEVAGSGFRKTEFKFKPLENAVF   150
 151  KPIPGPESEPEKTQSQISSGFFTFSHPVGSGSGGLTPFSFPQVTNSSVTS   200
 201  SSFIFSKPVTSNTPAFASPLSNQNVEEEKRVSTSAFGSSNSSFSTFPTAS   250
 251  PGSLGEPFPANKPSLRQGCEEAISQVEPLPTLMKGLKRKEDQDRSPRRHC   300
 301  HEAAEDPDPLSRGDHPPDKRPVRLNRPRGGTLFGRTIQEVFKSNKEAGRL   350
 351  GSKESKESGFAEPGESDHAAVPGGSQSTMVPSRLPAVTKEEEESRDEKED   400
 401  SLRGKSVRQSKRREEWIYSLGGVSSLELTAIQCKNIPDYLNDRAILEKHF   450
 451  SKIAKVQRVFTRRSKKLAVIHFFDHASAALARKKGKGLHKDVVIFWHKKK   500
 501  ISPSKKLFPLKEKLGESEASQGIEDSPFQHSPLSKPIVRPAAGSLLSKSS   550
 551  PVKKPSLLKMHQFEADPFDSGSEGSEGLGSCVSSLSTLIGTVADTSEEKY   600
 601  RLLDQRDRIMRQARVKRTDLDKARAFVGTCPDMCPEKERYLRETRSQLSV   650
 651  FEVVPGTDQVDHAAAVKEYSRSSADQEEPLPHELRPSAVLSRTMDYLVTQ   700
 701  IMDQKEGSLRDWYDFVWNRTRGIRKDITQQHLCDPLTVSLIEKCTRFHIH   750
 751  CAHFMCEEPMSSFDAKINNENMTKCLQSLKEMYQDLRNKGVFCASEAEFQ   800
 801  GYNVLLNLNKGDILREVQQFHPDVRNSPEVNFAVQAFAALNSNNFVRFFK   850
 851  LVQSASYLNACLLHCYFNQIRKDALRALNVAYTVSTQRSTVFPLDGVVRM   900
 901  LLFRDSEEATNFLNYHGLTVADGCVELNRSAFLEPEGLCKARKSVFIGRK   950
 951  LTVSVGEVVNGGPLPPVPRHTPVCSFNSQNKYVGESLATELPISTQRAGG  1000
1001  DPAGGGRGEDCEAEVDVPTLAVLPQPPPASSATPALHVQPLAPAAAPSLL  1050
1051  QASTQPEVLLPKPAPVYSDSDLVQVVDELIQEALQVDCEEVSSAGAAYVA  1100
1101  AALGVSNAAVEDLITAATTGILRHVAAEEVSMERQRLEEEKQRAEEERLK  1150
1151  QERELMLTQLSEGLAAELTELTVTECVWETCSQELQSAVEIDQKVRVARC  1200
1201  CEAVCAHLVDLFLAEEIFQTAKETLQELQCFCKYLQRWREAVAARKKFRR  1250
1251  QMRAFPAAPCCVDVNDRLQALVPSAECPITEENLAKGLLDLGHAGKVGVS  1300
1301  CTRLRRLRNKTAHQIKVQHFHQQLLRNAAWAPLDLPSIVSEHLPMKQKRR  1350
1351  FWKLVLVLPDVEEQTPESPGRILENWLKVKFTGDDSMVGDIGDNAGDIQT  1400
1401  LSVFNTLSSKGDQTVSVNVCIKVAHGTLSDSALDAVETQKDLLGTSGLML  1450
1451  LLPPKVKSEEVAEEELSWLSALLQLKQLLQAKPFQPALPLVVLVPSSRGD  1500
1501  SAGRAVEDGLMLQDLVSAKLISDYIVVEIPDSVNDLQGTVKVSGAVQWLI  1550
1551  SRCPQALDLCCQTLVQYVEDGISREFSRRFFHDRRERRLASLPSQEPSTI  1600
1601  IELFNSVLQFLASVVSSEQLCDISWPVMEFAEVGGSQLLPHLHWNSPEHL  1650
1651  AWLKQAVLGFQLPQMDLPPPGAPWLPVCSMVIQYTSQIPSSSQTQPVLQS  1700
1701  QVENLLCRTYQKWKNKSLSPGQELGPSVAEIPWDDIITLCINHKLRDWTP  1750
1751  PRLPVTLEALSEDGQICVYFFKNLLRKYHVPLSWEQARMQTQRELQLSHG  1800
1801  RSGMRSIHPPTSTFPTPLLHVHQKGKKKEESGREGSLSTEDLLRGASAEE  1850
1851  LLAQSLSSSLLEEKEENKRFEDQLQQWLSQDSQAFTESTRLPLYLPQTLV  1900
1901  SFPDSIKTQTMVKTSTSPQNSGTGKQLRFSEASGSSLTEKLKLLERLIQS  1950
1951  SRAEEAASELHLSALLEMVDM                               1971

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.