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Whole proteome identification of plant candidate G-protein coupled receptors in Arabidopsis, rice, and poplar: computational prediction and in-vivo protein coupling

Timothy E Gookin1, Junhyong Kim2 and Sarah M Assmann1*

Author Affiliations

1 Department of Biology, The Pennsylvania State University, Mueller Laboratory, University Park, PA 16802, USA

2 Department of Biology and Penn Genome Frontiers Institute, University of Pennsylvania, South University Avenue, Philadelphia, PA 19104, USA

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Genome Biology 2008, 9:R120  doi:10.1186/gb-2008-9-7-r120

Published: 31 July 2008

Additional files

Additional data file 1:

Bioinformatic characterization of our second tier candidate G-protein coupled receptors from the Arabidopsis proteome.

Format: DOC Size: 215KB Download file

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Additional data file 2:

Bioinformatic characterization of our second tier candidate G-protein coupled receptors from the Oryza proteome.

Format: DOC Size: 259KB Download file

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Additional data file 3:

Bioinformatic characterization of our second tier candidate G-protein coupled receptors from the Populus proteome.

Format: DOC Size: 333KB Download file

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Additional data file 4:

Reconstructed phylogenetic tree of the Cand6/7 GPCR 'superfamily'.

Format: DOC Size: 25KB Download file

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Additional data file 5:

Multiple sequence alignment of Cand7 (At5g18520) and its closest homologs.

Format: RTF Size: 333KB Download file

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Additional data file 6:

Results from our Pfam A database analysis.

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Additional data file 7:

Results from our Pfam B database analysis.

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Additional data file 8:

Arabidopsis sequences removed from our analysis by our QFC ion channel filter.

Format: DOC Size: 108KB Download file

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Additional data file 9:

PredCouple 2 predicted coupling specificities of our candidate GPCRs from all three proteomes.

Format: XLS Size: 75KB Download file

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Additional data file 10:

Bioinformatic characterization of the Arabidopsis proteome (version 6) sequences predicted to be candidate GPCRs by PRED-GPCR.

Format: DOC Size: 58KB Download file

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Additional data file 11:

Venn diagram detailing the extent of overlap between candidate GPCRs predicted by our analysis and that of Moriyama et al. [49].

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Additional data file 12:

Also listed are Arabidopsis protein sequence identifiers, including splice variant identifiers, used in this study

Format: XLS Size: 1.9MB Download file

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Additional data file 13:

Also listed are Oryza protein sequence identifiers, including splice variant identifiers, used in this study

Format: XLS Size: 3.9MB Download file

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Additional data file 14:

Also listed are Populus protein sequence identifiers, including splice variant identifiers, used in this study

Format: XLS Size: 2.7MB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data