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GPI Lipid Anchor Project Sequence analysis of GPI-anchored proteins on the proprotein level Prediction of potential GPI-modification sites in proprotein sequences Big-PI predictor Occurence of potentially GPI modified proteins in complete genomes Prediction of GPI lipid anchors in plants Big-PI Plant Predictor

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Occurence of potentially GPI modified proteins in plants

Contact:
Birgit Eisenhaber (IMP/Austria)
Michael Wildpaner (IMP/Austria)
Frank Eisenhaber (IMP/Austria)
Carolyn Schultz (University of Adelaide/Australia)
Paul Dupree and Georg Borner (University of Cambridge/UK)

Link to the big-PI Plant Predictor

Data sheets: Learning set and prediction results

1. Derivation of motif properties

Comparison with amino acid property scales
Analysis of volume compensation in the omega-site region

2. Details of prediction method derivation and validation

Prediction function parametrization
The plant learning set - a list of 219 proteins
The self-consistency-test of the plant learning set
Problem with COBRA-like CAA74765.1 protein - alignment of the COBRA-family
The jack-knife-test I over the whole plant learning set
The jack-knife-test II over the largest subset of non-homologous sequences only

3. Prediction results: Occurence of potentially GPI modified proteins in

the Arabidopsis thaliana genome (June 2002)
the Oryza sativa genome (June 2002)
the SPTrEMBL database (July 2002, pln.dat)
the SWISSPROT database (rel. 40, Viridiplantae)

4. Functional classification of

Arabidopsis thaliana hits
Oryza sativa hits

5. Comparison with previous published data

comparison with A.thaliana protein lists created by Borner GHH et al. (2002, 2003)

Acknowledgement:

Arabidopsis thaliana:
ftp://ftp.tigr.org/pub/data/a_thaliana/ath1/SEQUENCES/
Oryza sativa:
ftp://ftp.tigr.org/pub/data/o_sativa/irgsp/PUBLICATION_RELEASE/GENOME/OSA1.pep

Author: Birgit.Eisenhaber@imp.univie.ac.at

To the Home Page of Birgit Eisenhaber

Last modified: 7th March 2003