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

NucPred

Fetching Q9JI57 from www.uniprot.org...

The NucPred score for your sequence is 0.75 (see score help below)

   1  MALLGKHCDIPTNGCGSERWNSTFARKDELINSLVSALDSMCSALSKLNT    50
  51  EVACVAVHNESVFVMGTEKGRVFLNTRKELQSDFLRFCRGPLWNDPEAGH   100
 101  PKKVQRCEGGGRSLPRSSLEQCSDVYLLQKMVEEVFDVLYSEAMGRATVV   150
 151  PLPYERLLREPGLLAVQGLPEGLAFRRPAEYDPKALMAILEHSHRIRFKL   200
 201  RRPPDDGGQDTKALVEMNGISLLPKGSRDCGLHGQASKVAPQDLTPTATP   250
 251  SSMANFLYSTSMPNHTIRELKQEVPTCPLTPSDLGMGWPVPEPHVPSTQD   300
 301  FSDCCGQTPAGPAGPLIQNVHASKRILFSIVHDKSEKWDPFIKEMEDINT   350
 351  LRECVQILFNSRYAEALGLDHMVPVPYRKIACDPEAVEIVGIPDKIPFKR   400
 401  PCTYGVPKLKRILEERHSIHFIIKRMFDERIFTGNKFTKDPMKLEPASPP   450
 451  EDTSTEVCRDSMLDLAGTAWSDMSSVSEDCGPGTSGEIAMLRPIKIEPEE   500
 501  LDIIQVTVSDPSPTSEEMTDSLPGHLPSEDSGYGMEMPADKGPSEEPWSE   550
 551  ERPAEESPGDVIRPLRKQVEMLFNTKYAKAIGTSEPVKVPYSKFLMHPEE   600
 601  LFVLGLPEGISLRRPNCFGIAKLRKILEASNSIQFVIKRPELLTDGVKEP   650
 651  VLDTQERDSWDRLVDETPKRQGLQENYNTRLSRIDIANTLREQVQDLFNK   700
 701  KYGEALGIKYPVQVPYKRIKSNPGSVIIEGLPPGIPFRKPCTFGSQNLER   750
 751  ILSVADKIKFTVTRPFQGLIPKPETKILTTGHEAGKTTRPRRLQQDTWQP   800
 801  DEDDANRLGEKVILREQVKELFNEKYGEALGLNRPVLVPYKLIRDSPDAV   850
 851  EVKGLPDDIPFRNPNTYDIHRLEKILKAREHVRMVIINQLQPFAEVCNDP   900
 901  KVPEEDDSNKLGKKVILREQVKELFNEKYGEALGLNRPVLVPYKLIRDSP   950
 951  DAVEVKGLPDDIPFRNPNTYDIHRLEKILKAREHVRMVIINQLQPFGDVC  1000
1001  NNAKVPAKDNIPKRKRKRVSEGNSVSSSSSSSSSSSNPESVASTNQISLV  1050
1051  VKSRGSELHPNSVWPLPLPRAGPSTAPGTGRHWALRGTQPTTEGQAHPLV  1100
1101  LPTR                                                1104

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.)

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