Evolution of protein architectures inferred from phylogenomic analysis of CATH

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Abstract

Protein architecture refers to similar secondary structural arrangements irrespective of their connectivity. Here we aim to explore the evolution of protein architectures by benchmarking CATH and SCOP annotations. For example, we explore the appearance and diversification of protein architectures such as sandwiches, bundles, barrels, solenoids, ribbons, trefoils, prisms and propellers. Structural phylogenies generated at CATH "A", "T" and "H" levels of structural abstraction revealed patterns of reductive evolution and three epochs in the evolution of protein world. Although CATH and SCOP differ significantly in their protein domain definitions and in the hierarchical partitioning of fold space, our findings strongly support the fact that both protein structural classification systems classify a protein on a very similar theoretical basis by taking into account their structural, functional and evolutionary roles. The tree of "A" showed that the 3-layer (aba) sandwich (3.40), the orthogonal bundle (1.10) and the alpha-beta complex (3.90) harbor simple secondary structure arrangements that are the most ancient, popular and abundant architectures in the protein world.

Original languageEnglish (US)
Title of host publication2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2011
Pages1029-1031
Number of pages3
DOIs
StatePublished - Dec 1 2011
Event2011 IEEE International Conference onBioinformatics and Biomedicine Workshops, BIBMW 2011 - Atlanta, GA, United States
Duration: Nov 12 2011Nov 15 2011

Publication series

Name2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2011

Other

Other2011 IEEE International Conference onBioinformatics and Biomedicine Workshops, BIBMW 2011
CountryUnited States
CityAtlanta, GA
Period11/12/1111/15/11

Fingerprint

Proteins
Benchmarking
Phylogeny
Solenoids
Propellers
Ports and harbors
Prisms

Keywords

  • Last Universal Common Ancestor
  • Tree of Architectures

ASJC Scopus subject areas

  • Biomedical Engineering
  • Health Informatics
  • Health Information Management

Cite this

Bukhari, S. A., & Caetano-Anolles, G. (2011). Evolution of protein architectures inferred from phylogenomic analysis of CATH. In 2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2011 (pp. 1029-1031). [6112548] (2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2011). https://doi.org/10.1109/BIBMW.2011.6112548

Evolution of protein architectures inferred from phylogenomic analysis of CATH. / Bukhari, S. A.; Caetano-Anolles, Gustavo.

2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2011. 2011. p. 1029-1031 6112548 (2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2011).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Bukhari, SA & Caetano-Anolles, G 2011, Evolution of protein architectures inferred from phylogenomic analysis of CATH. in 2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2011., 6112548, 2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2011, pp. 1029-1031, 2011 IEEE International Conference onBioinformatics and Biomedicine Workshops, BIBMW 2011, Atlanta, GA, United States, 11/12/11. https://doi.org/10.1109/BIBMW.2011.6112548
Bukhari SA, Caetano-Anolles G. Evolution of protein architectures inferred from phylogenomic analysis of CATH. In 2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2011. 2011. p. 1029-1031. 6112548. (2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2011). https://doi.org/10.1109/BIBMW.2011.6112548
Bukhari, S. A. ; Caetano-Anolles, Gustavo. / Evolution of protein architectures inferred from phylogenomic analysis of CATH. 2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2011. 2011. pp. 1029-1031 (2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2011).
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