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

NucPred

Fetching Q6BI82 from www.uniprot.org...

The NucPred score for your sequence is 0.96 (see score help below)

   1  MMIKEEAEGILKQRNSKLEELLHLAADPLLTDISSHKSRVSEFLNDNDIT    50
  51  KEKTFVVSSLPGVSGSGSFAEAMSQSVSKSIYKVEEAKERTENAAIEQGL   100
 101  KRRTESISDDRKLKISRKSSSQLSDSRSGSISKSTSEITKPVAPPVKSQK   150
 151  ENIHLETKDFLNRDIGELEILSVPEHYPTKPPNVSSLAELYYLTQTLPLI   200
 201  KLLPGSHKTLITENYELALLEGKIAVLYSRIEELKRQGKWSLRQPKRYYD   250
 251  PYIYTKSNNGKKTFHGDSLLEEGKWMAADFKEGSKYKKACCVTMAQAVND   300
 301  YWTYGKVMCIRRKRIWHIGERREEEEIHGDLETDLVDGADSMAIDDINVD   350
 351  NDCAPLEITGNELQNIVVSDDKVSTEPISNDEPQRKEEDDIDSAEVADQE   400
 401  VSEDPSQDKPVDELIPEEEVELSSIDVKLLLSRPKPEDEIVPTNLPTFSE   450
 451  DDLKEMGRDSKDSAPFKLHANLNDLKKIDQSIIKNLPKFTAFDNEDSNMP   500
 501  APALKPVDSPMIAVSRLLHPFEEDDEWYKIVLKEGDSHKSKSNVSSGPPE   550
 551  YQKGLFGFQSHRRFNYLKPPKPPLIKNIEFRSPTIWLPQDDKHLIHYVAE   600
 601  FCFNWDLISEHLSPSAATLRKYESNIERRTPWQCFERYIQLNEKFQFSDM   650
 651  KGIYSYQAQSWLEHAHRAQSTTKRRISPLGVGNESIQRGHRRLRWASLFD   700
 701  AMRKSMKKREDAIAKLNHRRTPVDYSANNTNVNSPEASNNGTPGPNNGKR   750
 751  PMDRVPTPAELSKLKFERDKSIQEAYLNQQATRSRMIAAVAQQQKQQQNN   800
 801  QGNIPRPPSQGPGPNVGVPPPQRGQIGVQGGPTNTPTGSLGNQVPPSQQP   850
 851  SQAAQGGMTKRPTTPNGTAYTAEQIQQLLQIQKQRRLMQQQNQPGKTGIS   900
 901  PSQPNTPALMQNMPLSSNKTTVGGSNMPLSGMPNSTQQVSLSQQGQKQQL   950
 951  GPSQRQQVPVSQPSQGQGSSTGVPANKSRIHFAPAQVSAIINSIQTKNPN  1000
1001  LTKEQVTKLAATYLANIQQQQQNRANQQQQQPPSQHSGAIGQGPAAHRPG  1050
1051  QSQSPSNQKKPQVATLTPQERNQLQMLKAAKTAQQQQLQHQQQQQQQQQQ  1100
1101  QQQQQQQRRPGSPMVPNAPLDPNNMAKLEYEQRKNLLIQKHQQQQRLGNN  1150
1151  SNIPGQSTPNLASMPPSSSSSPSSSVSGPASNLPNSNKNVPKK         1193

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.