Open Access Research article

Comparative genomics of proteins involved in RNA nucleocytoplasmic export

Mariana Serpeloni12, Newton M Vidal12, Samuel Goldenberg12, Andréa R Ávila12* and Federico G Hoffmann234*

Author Affiliations

1 Departamento de Biologia Celular e Molecular, Universidade Federal do Paraná - UFPR, Curitiba, Brazil

2 Instituto Carlos Chagas - ICC, Curitiba, Brazil

3 School of Biological Sciences, University of Nebraska, Lincoln, USA

4 Department of Biochemistry and Molecular Biology, Mississippi State University, Mississippi State, USA

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BMC Evolutionary Biology 2011, 11:7  doi:10.1186/1471-2148-11-7

Published: 11 January 2011

Additional files

Additional File 1:

Spreadsheed file containing tables S1-S5. Table S1. Full list of human and yeast proteins used as queries. a- yeast orthologs in human, according to Ensembl. b- Not described as a yeast ortholog in Ensembl, used as negative control. Table S2. Results for all proteins in all species with BLASTP (BLOSUM62) and PSI-BLAST (2 iterations) ranked in 1-5 code according to Methods. Code: Category of similarity, from 1(most conserved) to 5. RBH: Reciprocal Best Hit, 1:True; 0: False. NC: Not Classified. NA: Not Analyzed. Table S3. Individual results for each protein, using different algorithms for ranking 1-5 code. I: %Identity, S: %Similarity. QC: Query Coverage. Table S4. Comparative analysis of U5snRNP spliceosomal complex using 1-5 ranking according to Methods in all species. Table S5. Comparison of the protein repertoire in relation to further evolutionary studies. In blue, common proteins analyzed in at least one study. In red, proteins that were not analyzed in previous works.

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Open Data

Additional File 2:

Exemplary alignments of proteins from the different categories.

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Open Data