The following sections are included:THE BINDING OF mRNATHE tRNA BINDING SITESTHE PEPTIDYL TRANSFER CENTER (PTC)THE POLYPEPTIDE EXIT TUNNELTHE GTPASE BINDING SITETHE RIBOSOMAL STATES THE BINDING OF mRNA THE tRNA
James N. Yelland Arlen W. Johnson ResearchOpen Access03 Feb 2025Nature Communications Volume: 16, P: 1278 Stalled disomes marked by Hel2-dependent ubiquitin chains undergo Ubp2/Ubp3-mediated deubiquitination upon translational run-off The yeast E3 ligase Hel2 translates the duration of ribosome ...
we also investigate the effect of the above RNC/r-protein interactions on the bacterial ribosome. The apparent stability of the complexes between RNCs of foldable and intrinsically disordered protein sequences and specific r-proteins is weak and, surprisingly, does not vary significantly with RNC se...
In addition to the regulation of nucleolin stability by these two phosphorylation residues, we were interested in whether these two phosphorylation sites affect IRES-mediated translational activity of Sp1-5′UTR. Data shown in Supplementary Fig. 3D and 4 indicated that the translational activity of ...
These mutations appear to alter the local rRNA structure[29], and are therefore likely to be within the RNA-binding sites. Finally, NMR spectroscopy and protein–RNA crosslinking are now being used to probe the complexes directly. Putative RNA-binding sites on each of the proteins identified ...
A. A section through D50S (in light purple) with docked A- and P-sites tRNA and modeled polyalanine nascent chain (yellow). The approximate positions of the PTC (P), the hydrophobic crevice (C), and the macrolide pocket (m) are marked. The main chains of proteins L4 and L22 are ...
Comparative sequence analysis revealed numerous sites in ribosomal RNAs with distinct combinations of nucleotides capable of forming this specific structure. In some cases, the sequence variations provide strong evidence for the sheared tandem structure occurring. Interestingly, the sequence changes would ...
Furthermore, these websites currently do not return data in advanced formats to be used in programs like Unifrac [22], Cytoscape [46] or heat map visualization. They also do not report ecological calculations like diversity metrics, rarefaction analysis or rank-abundance curves. Recently a new ...
Although isolated reports have called for community-wide standardization of part of the 16 S rDNA analysis process [28], in the past most microbial ecologists have cobbled together software tools from different websites and individual software downloads in an ad-hoc manner that is hard to compare...
Analysis of the distribution of reads mapping to the rDNA sequence encoding the 35S pre-rRNA transcript revealed specific crosslinking sites in the 25S rRNA sequence for each of the helicases as well as crosslinking sites of Has1 in the 18S rRNA sequence (Fig. 3b). The binding of a ...