An evolutionary and structural characterization of mammalian protein complex organization
Autor: | Matthias Oesterheld, Bernd Geissler, Philip Wong, Dmitrij Frishman, Andreas Kirschner, Andrea Hildebrand, Philipp Pagel, Andreas Ruepp, Thorsten Schmidt, Pawel Smialowski, Normann Strack, Florian Blöchl, Fabian J. Theis, Sonja Althammer |
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Rok vydání: | 2008 |
Předmět: |
Models
Molecular Proteomics lcsh:QH426-470 lcsh:Biotechnology Computational biology Biology Protein Structure Secondary Evolution Molecular Sequence Analysis Protein lcsh:TP248.13-248.65 Protein Interaction Mapping Genetics Animals Databases Protein Gene Protein secondary structure Mammals Substitution (logic) Computational Biology Yeast lcsh:Genetics Isoelectric point Multiprotein Complexes Linear Models DNA microarray Synonymous substitution Biotechnology Research Article |
Zdroj: | BMC Genomics BMC Genomics, Vol 9, Iss 1, p 629 (2008) BMC Genomics 9:629 (2008) |
ISSN: | 1471-2164 |
Popis: | Background We have recently released a comprehensive, manually curated database of mammalian protein complexes called CORUM. Combining CORUM with other resources, we assembled a dataset of over 2700 mammalian complexes. The availability of a rich information resource allows us to search for organizational properties concerning these complexes. Results As the complexity of a protein complex in terms of the number of unique subunits increases, we observed that the number of such complexes and the mean non-synonymous to synonymous substitution ratio of associated genes tend to decrease. Similarly, as the number of different complexes a given protein participates in increases, the number of such proteins and the substitution ratio of the associated gene also tends to decrease. These observations provide evidence relating natural selection and the organization of mammalian complexes. We also observed greater homogeneity in terms of predicted protein isoelectric points, secondary structure and substitution ratio in annotated versus randomly generated complexes. A large proportion of the protein content and interactions in the complexes could be predicted from known binary protein-protein and domain-domain interactions. In particular, we found that large proteins interact preferentially with much smaller proteins. Conclusion We observed similar trends in yeast and other data. Our results support the existence of conserved relations associated with the mammalian protein complexes. |
Databáze: | OpenAIRE |
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