Motivation: Enzymes are complex catalytic machines, which perform sequences of elementary chemical transformations resulting in biochemical function. The building blocks of enzymes, elementary functional loops (EFLs), possess distinct functional signatures and provide catalytic and binding amino acids to the enzyme’s active sites. The goal of this work is to obtain primordial prototypes of EFLs that existed before the formation of enzymatic domains and served as their building blocks. Results: We developed a computational strategy for reconstructing ancient prototypes of EFLs based on the comparison of sequence segments on the proteomic scale, which goes beyond detection of conserved functional motifs in homologous proteins. We illustrate t...
A collection of computer tools designed for amino acid sequence analysis, model building and molecul...
Phylogenomic analysis of the occurrence and abundance of protein domains in proteomes has recently s...
Even a relatively short polypeptide of 75 amino acids has more unique sequence possibilities than th...
A central goal in biochemistry is to explain the causes of protein sequence, structure, and function...
Background: Despite recent progress in studies of the evolution of protein function, the questions w...
The study of proteins and their function is key to understanding how the cell works in normal and di...
Studying the evolution of enzymes and their functions improves our ability to determine the function...
The formation of protein structural domains requires that biochemical functions, defined by conserve...
Background: Structural genomics projects such as the Protein Structure Initiative (PSI) yield many n...
Protein engineering studies often suggest the emergence of completely new enzyme functionalities to ...
Abstract The structures and functions of proteins are embedded into the loop scaffolds of structural...
<div><p>In order to understand the evolution of enzyme reactions and to gain an overview of biologic...
A protein's function depends on functional residues that determine its binding specificity or its ca...
Phylogenomic analysis of the occurrence and abundance of protein domains in proteomes has recently s...
SummaryThe amino acid sequences of primordial enzymes from extinct organisms can be determined by an...
A collection of computer tools designed for amino acid sequence analysis, model building and molecul...
Phylogenomic analysis of the occurrence and abundance of protein domains in proteomes has recently s...
Even a relatively short polypeptide of 75 amino acids has more unique sequence possibilities than th...
A central goal in biochemistry is to explain the causes of protein sequence, structure, and function...
Background: Despite recent progress in studies of the evolution of protein function, the questions w...
The study of proteins and their function is key to understanding how the cell works in normal and di...
Studying the evolution of enzymes and their functions improves our ability to determine the function...
The formation of protein structural domains requires that biochemical functions, defined by conserve...
Background: Structural genomics projects such as the Protein Structure Initiative (PSI) yield many n...
Protein engineering studies often suggest the emergence of completely new enzyme functionalities to ...
Abstract The structures and functions of proteins are embedded into the loop scaffolds of structural...
<div><p>In order to understand the evolution of enzyme reactions and to gain an overview of biologic...
A protein's function depends on functional residues that determine its binding specificity or its ca...
Phylogenomic analysis of the occurrence and abundance of protein domains in proteomes has recently s...
SummaryThe amino acid sequences of primordial enzymes from extinct organisms can be determined by an...
A collection of computer tools designed for amino acid sequence analysis, model building and molecul...
Phylogenomic analysis of the occurrence and abundance of protein domains in proteomes has recently s...
Even a relatively short polypeptide of 75 amino acids has more unique sequence possibilities than th...