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

NucPred

Fetching Q9HAW4 from www.uniprot.org...

The NucPred score for your sequence is 0.95 (see score help below)

   1  MTGEVGSEVHLEINDPNVISQEEADSPSDSGQGSYETIGPLSEGDSDEEI    50
  51  FVSKKLKNRKVLQDSDSETEDTNASPEKTTYDSAEEENKENLYAGKNTKI   100
 101  KRIYKTVADSDESYMEKSLYQENLEAQVKPCLELSLQSGNSTDFTTDRKS   150
 151  SKKHIHDKEGTAGKAKVKSKRRLEKEERKMEKIRQLKKKETKNQEDDVEQ   200
 201  PFNDSGCLLVDKDLFETGLEDENNSPLEDEESLESIRAAVKNKVKKHKKK   250
 251  EPSLESGVHSFEEGSELSKGTTRKERKAARLSKEALKQLHSETQRLIRES   300
 301  ALNLPYHMPENKTIHDFFKRKPRPTCHGNAMALLKSSKYQSSHHKEIIDT   350
 351  ANTTEMNSDHHSKGSEQTTGAENEVETNALPVVSKETQIITGSDESCRKD   400
 401  LVKNEELEIQEKQKQSDIRPSPGDSSVLQQESNFLGNNHSEECQVGGLVA   450
 451  FEPHALEGEGPQNPEETDEKVEEPEQQNKSSAVGPPEKVRRFTLDRLKQL   500
 501  GVDVSIKPRLGADEDSFVILEPETNRELEALKQRFWKHANPAAKPRAGQT   550
 551  VNVNVIVKDMGTDGKEELKADVVPVTLAPKKLDGASHTKPGEKLQVLKAK   600
 601  LQEAMKLRRFEERQKRQALFKLDNEDGFEEEEEEEEEMTDESEEDGEEKV   650
 651  EKEEKEEELEEEEEKEEEEEEEGNQETAEFLLSSEEIETKDEKEMDKENN   700
 701  DGSSEIGKAVGFLSVPKSLSSDSTLLLFKDSSSKMGYFPTEEKSETDENS   750
 751  GKQPSKLDEDDSCSLLTKESSHNSSFELIGSTIPSYQPCNRQTGRGTSFF   800
 801  PTAGGFRSPSPGLFRASLVSSASKSSGKLSEPSLPIEDSQDLYNASPEPK   850
 851  TLFLGAGDFQFCLEDDTQSQLLDADGFLNVRNHRNQYQALKPRLPLASMD   900
 901  ENAMDANMDELLDLCTGKFTSQAEKHLPRKSDKKENMEELLNLCSGKFTS   950
 951  QDASTPASSELNKQEKESSMGDPMEEALALCSGSFPTDKEEEDEEEEFGD  1000
1001  FRLVSNDNEFDSDEDEHSDSGNDLALEDHEDDDEEELLKRSEKLKRQMRL  1050
1051  RKYLEDEAEVSGSDVGSEDEYDGEEIDEYEEDVIDEVLPSDEELQSQIKK  1100
1101  IHMKTMLDDDKRQLRLYQERYLADGDLHSDGPGRMRKFRWKNIDDASQMD  1150
1151  LFHRDSDDDQTEEQLDESEARWRKERIEREQWLRDMAQQGKITAEEEEEI  1200
1201  GEDSQFMILAKKVTAKALQKNASRPMVIQESKSLLRNPFEAIRPGSAQQV  1250
1251  KTGSLLNQPKAVLQKLAALSDHNPSAPRNSRNFVFHTLSPVKAEAAKESS  1300
1301  KSQVKKRGPSFMTSPSPKHLKTDDSTSGLTRSIFKYLES             1339

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.