Protein building blocks preserved by recombination

By Christopher A. Voigt, Carlos Martinez, Zhen‐Gang Wang, Stephen L. Mayo, Frances H. Arnold. 2002

372 citations recorded by the source corpus.

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In Molecular Biology

Citations in the corpus

Exploring protein fitness landscapes by directed evolution (2009, positive): “Naturally-occurring homologous proteins can be recombined to create genetic diversity within protein sequence librarie”
More than the sum of their parts: On the evolution of proteins from peptides (2003, neutral): “(27) The idea that the first protein domains evolved by recombination from a limited ‘vocabulary’ of such structural units is attractive for several reasons: (1) The combinatorial complexity of evolving a whole domain in one piece is forbidding; there are 20 100 possible sequences for a domain of…”
Chemical and biochemical strategies for the randomization of protein encoding DNA sequences: library construction methods for directed evolution. (2004, neutral): “Arnold and coworkers have reported and validated a general approach to identifying optimal crossover sites based on a computational analysis of the structures of the parental proteins to identify regions with minimal interactions with the rest of the protein (78,79), whereas O'Maille et al.”
Protein sequence design with a learned potential (2020, background): “for library design for directed evolution [47], and could be particularly useful in the case of de novo design, where starting backbones have no known corresponding sequence and might have errors that limit the accuracy of energy-function-based design.”
Graphical models of residue coupling in protein families (2005, background): “Today, projects undertake ambitious large-scale recombination [28] or site-directed and combinatorial mutagenesis studies [23] to identify entire building blocks of proteins important to preserve function.”
Machine learning to design integral membrane channelrhodopsins for efficient eukaryotic expression and plasma membrane localization (2017, methodology): “These libraries were prepared by the SCHEMA algorithm to define sequence blocks for recombination that minimize the library-average disruption of tertiary protein structure [31,32].”
Graphical Models of Residue Coupling in Protein Families (2008, background): “Today, projects undertake ambitious large-scale recombination [ 28 ] or site-directed and combinatorial mutagenesis studies [23] to identify entire building blocks of proteins important to preserve function.”
RDP4: Detection and analysis of recombination patterns in virus genomes (2015, background): “Tests of purifying selection acting against recombination induced misfolding of either proteins (Voigt et al. 2002; Lefeuvre et al. 2007) or nucleic acid secondary structures (Golden et al. 2014).”
Why do RNA viruses recombine? (2011, background): “This risk increases with phylogenetic distance between the parental strains but also varies according to the specific position of the recombination site with respect to genes, proteins and protein domain”