Reconstructing enzyme evolution by protein engineering
FEBS Letters, EarlyView.Natural enzyme evolution can be retraced by protein engineering methods such as directed evolution, rational design, and ancestral sequence reconstruction. These approaches reveal how enzymes emerged from ligand‐binding scaffolds, developed varying substrate preferences, formed oligomeric complexes, adapted to environmental changes, and evolved novel ...
Lukas Drexler +2 more
wiley +1 more source
DNA sequences classification and computation scheme based on the symmetry principle [PDF]
, 2009 The DNA sequences containing multifarious novel symmetrical structure frequently play crucial role in how genomes work. Here we present a new scheme for understanding the structural features and potential mathematical rules of symmetrical DNA sequences ...
Xiao-Gang Song, Wen-Yuan Qiu
core +1 more source
Electronic transport in DNA [PDF]
, 2005 We study the electronic properties of DNA by way of a tight-binding model applied to four particular DNA sequences. The charge transfer properties are presented in terms of localization lengths (crudely speaking, the length over which electrons travel).
Klotsa, Daphne +3 more
core +1 more source
Thyreophagus tauricus sp. n., a New Subcortical Mite Species (Acari: Acaridae), with a COX1 DNA Sequence Analysis of Several Economically Important Species of Thyreophagus. [PDF]
Animals (Basel), 2023 Klimov PB +3 more
europepmc +1 more source
Investigating transcription factor dynamics in health and disease using FRAP
FEBS Letters, EarlyView.FRAP analysis of GFP‐tagged transcription factors reveals how molecular mobility and target engagement change in response to drug treatment. By combining live‐cell imaging, quantitative model fitting, and statistical analysis, this approach uncovers transcription factor dynamics linked to disease mechanisms, providing a powerful framework for ...
Kannan Govindaraj +3 more
wiley +1 more source
Escherichia coli σ70 senses sequence and conformation of the promoter spacer region [PDF]
, 2010 In bacteria, promoter identification by RNA polymerase is mediated by a dissociable p factor. The housekeeping σ70 factor of Escherichia coli recognizes two well characterized DNA sequence elements, known as the ‘-10’ and ‘-35’ hexamers.
Shivani S. Singh +11 more
core +1 more source
Multiplexed Small-Molecule-Ligand Binding Assays by Affinity Labeling and DNA Sequence Analysis. [PDF]
Angew Chem Int Ed Engl, 2022 Cai B, Krusemark CJ.
europepmc +1 more source
Conserved binding mode but diverse interfaces of MreC‐PBP2 interactions
FEBS Letters, EarlyView.The crystal structure of abMreC reveals a conserved two β‐barrel architecture and provides structural insights into its role within the bacterial elongasome. The abMreC–abPBP2 complex model identifies the molecular basis of MreC‐mediated PBP2 recognition, contributing to the regulation of peptidoglycan synthesis.
Hyunseok Jang +4 more
wiley +1 more source
Accurate Reconstruction of Molecular Phylogenies for Proteins Using Codon and Amino Acid Unified Sequence Alignments (CAUSA) [PDF]
, 2011 Based on molecular clock hypothesis, and neutral theory of molecular evolution, molecular phylogenies have been widely used for inferring evolutionary history of organisms and individual genes.
Jingjie Hu +7 more
core +1 more source
abc4pwm: affinity based clustering for position weight matrices in applications of DNA sequence analysis. [PDF]
BMC Bioinformatics, 2022 Ali O +5 more
europepmc +1 more source