Origin and evolution of protein fold designs inferred from phylogenomic analysis of CATH domain structures in proteomes.

ABSTRACT: The spatial arrangements of secondary structures in proteins, irrespective of their connectivity, depict the overall shape and organization of protein domains. These features have been used in the CATH and SCOP classifications to hierarchically partition fold space and define the architectural make up of proteins. Here we use phylogenomic methods and a census of CATH structures in hundreds of genomes to study the origin and diversification of protein architectures (A) and their associated topologies (T) and superfamilies (H). Phylogenies that describe the evolution of domain structures and proteomes were reconstructed from the structural census and used to generate timelines of domain discovery. Phylogenies of CATH domains at T and H levels of structural abstraction and associated chronolo

SUBMITTER: Bukhari SA 

PROVIDER: S-EPMC3610613 | biostudies-literature | 2013

REPOSITORIES: biostudies-literature