Patricia Lynn Babin

author keywords: molecular modelling; RNA structure; ribosomal RNA; comparative sequence analysis

MeSH headings : Base Pairing; Base Sequence; Computer Simulation; Escherichia coli / genetics; Models, Molecular; Molecular Sequence Data; Nucleic Acid Conformation; RNA; RNA, Bacterial / chemistry; RNA, Ribosomal, 16S / chemistry; Ribosomes

TL;DR: These molecular models provide insight into the connection between patterns of H-bonding, the presence of unpaired nucleotides, and the overall geometry of each element. (via Semantic Scholar)

author keywords: initiation factor 3; UV-induced crosslinking; 16 S rRNA coformational change; molecular model; 16 S rRNA-tRNA interaction

MeSH headings : Alkalies / metabolism; Anticodon / genetics; Bacterial Proteins / chemistry; Bacterial Proteins / metabolism; Base Sequence; Binding Sites / radiation effects; Escherichia coli / chemistry; Escherichia coli / genetics; Hydrolysis; Models, Molecular; Nucleic Acid Conformation; Peptide Initiation Factors / chemistry; Peptide Initiation Factors / metabolism; Prokaryotic Initiation Factor-3; Protein Binding / radiation effects; Protein Structure, Tertiary; RNA, Bacterial / chemistry; RNA, Bacterial / genetics; RNA, Bacterial / metabolism; RNA, Messenger / genetics; RNA, Messenger / metabolism; RNA, Ribosomal, 16S / chemistry; RNA, Ribosomal, 16S / genetics; RNA, Ribosomal, 16S / metabolism; RNA, Transfer, Met / genetics; RNA, Transfer, Met / metabolism; RNA-Binding Proteins / chemistry; RNA-Binding Proteins / metabolism; Ribosomal Proteins / chemistry; Ribosomal Proteins / metabolism; Ribosomes / chemistry; Ribosomes / genetics; Ribosomes / metabolism; Transcription, Genetic / genetics; Ultraviolet Rays

TL;DR: Initiation factor 3 (IF3) acts to switch the decoding preference of the small ribosomal subunit from elongator to initiator tRNA, indicating they are not mediated through tRNA(f)(Met) or mRNA. (via Semantic Scholar)

MeSH headings : Anti-Bacterial Agents / pharmacology; Base Sequence; Electrophoresis, Polyacrylamide Gel; Escherichia coli / drug effects; Escherichia coli / genetics; Escherichia coli / radiation effects; Models, Molecular; Molecular Sequence Data; Nucleic Acid Conformation; RNA, Bacterial / drug effects; RNA, Bacterial / metabolism; RNA, Bacterial / radiation effects; RNA, Ribosomal, 16S / drug effects; RNA, Ribosomal, 16S / radiation effects; RNA, Ribosomal, 16S / ultrastructure; Ribosomes / radiation effects; Ribosomes / ultrastructure; Spectinomycin / pharmacology; Tetracycline / pharmacology; Ultraviolet Rays

TL;DR: Structural analysis of the 16 S rRNA in the 30 S subunit and 70 S Ribosome in the presence of ribosome-specific antibiotics was performed to determine whether they produced rRNA structural changes that might provide further insight to their action. (via Semantic Scholar)

author keywords: 16S rRNA; base triple; comparative sequence analysis; molecular modeling

MeSH headings : Base Pairing; Base Sequence; Escherichia coli / genetics; Hydrogen Bonding; Models, Molecular; Nucleic Acid Conformation; RNA, Bacterial / chemistry; RNA, Ribosomal, 16S / chemistry; Ribosomes / genetics; Sequence Homology, Nucleic Acid

TL;DR: Molecular modeling shows that U121 interacts with C124 in the U121 (C124:G237) base triple, which maintains isomorphic structures for the three most frequent sequence motifs, is consistent with chemical reactivity of U121 in E. coli ribosomes, and is geometrically favorable. (via Semantic Scholar)