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

NucPred

Fetching Q867B5 from www.uniprot.org...

The NucPred score for your sequence is 0.99 (see score help below)

   1  MAVSLPPTLGLSSAPDEIQHPHIKFSEWKFKLFRVRSFEKAPEKAQTEKQ    50
  51  DSSEGKPSLEQSPAVLDKPGGQKSALPQPAFKPHPKFLKESHEDGKARDK   100
 101  AIHQANLRRLCRICGNSFNTTGHKRRYPVHGPVDGKTQVLLRKKEKRATS   150
 151  WPDLIAKVFRIDVKADVDSIHPTEFCHNCWSFMHRKFSSTPCEVYSPRNA   200
 201  AMEWHPHTLNCDICHIARRGLKRKSQQPNMQLSKKLKTVIDRARQARQRK   250
 251  RRAQARISSKELMKKIANCGQIHLSPKLLAVDFPAHFVKSISCQICEHIL   300
 301  ADPVETSCKHVFCRICILRCLKVMGSSCPSCHYPCFPTDLESPVKSFLSI   350
 351  LNTLMVKCPAKECNEEISLEKYNHHISSHKESKETFVHINKGGRPRQHLL   400
 401  SLTRRAQKHRLRELKLQVKAFADKEEGGDVKSVCLTLFLLVLRARNEHRQ   450
 451  ADELEAIMRGQGSGLQPAVCLAIRVNTFLSCSQYHKMYRTVKAITGRQIF   500
 501  QPLHALRNAEKVLLPGYHPFEWQPPLKNVSSSTDVGIIDGLSGLSSSVDD   550
 551  YPVDTIAKRFRYDSALVSALMDMEEDILEGMRAQDLDDYLNGPFTVVVKE   600
 601  SCDGMGDVSEKHGSGPVVPEKAVRFSFTVMKITIAHGSQNVKVFEEAKPN   650
 651  SELCCKPLCLMLADESDHETLTAILSPLIAEREAMKSSQLMLEMGGILRT   700
 701  FKFIFRGTGYDEKLVREVEGLEASGSVYICTLCDATRLEASQNLVFHSIT   750
 751  RSHAENLERYEVWRSNPYHETVDELRDRVKGVSAKPFIETVPSIDALHCD   800
 801  IGNAAEFYKIFQLEIGEAYKNPHASKEERKRWQATLDKHLRKKMNLKPIM   850
 851  RMNGNFARKLMTKETVEAVCELIPSEERHEALRELMDLYLKMKPVWRSSC   900
 901  PAKECPESLCQYSFNSQRFAELLSTKFKYRYEGKITNYFHKTLAHVPEII   950
 951  ERDGSIGAWASEGNESGNKLFRRFRKMNARQSKYYEMEDVLKHHWLYTSK  1000
1001  YLQKFMNAHKAFKNSGFTINLQRSSGDTLDLENSPESQDLMEF         1043

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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