ArticleJournal of chemical theory and computation2008
Effects of protein subunits removal on the computed motions of partial 30S structures of the ribosome.
Article in Journal of chemical theory and computation, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
12 citing papers in PubMed, 19 citations in OpenAlex.
- Ribosomal allostery as a potential regulator of bacterial dormancy.Nature communications · 2026Article
- Normal Mode Analysis as a Routine Part of a Structural Investigation.Molecules (Basel, Switzerland) · 2019Review
- Protocols for Molecular Dynamics Simulations of RNA Nanostructures.Methods in molecular biology (Clifton, N.J.) · 2017Article
- Cellular Delivery of RNA Nanoparticles.ACS combinatorial science · 2016Review
- Elastic network models capture the motions apparent within ensembles of RNA structures.RNA (New York, N.Y.) · 2014Article
- Computational and experimental characterization of RNA cubic nanoscaffolds.Methods (San Diego, Calif.) · 2014Article
- Elastic network normal modes provide a basis for protein structure refinement.The Journal of chemical physics · 2012Article
- A computational investigation on the connection between dynamics properties of ribosomal proteins and ribosome assembly.PLoS computational biology · 2012Article
- Key intermolecular interactions in the E. coli 70S ribosome revealed by coarse-grained analysis.Journal of the American Chemical Society · 2011Article
- Models to Approximate the Motions of Protein Loops.Journal of chemical theory and computation · 2010Article
- Distance matrix-based approach to protein structure prediction.Journal of structural and functional genomics · 2009Article
- The ribosome structure controls and directs mRNA entry, translocation and exit dynamics.Physical biology · 2008Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
4 authors at 2 institutions in 1 country.
Funding
Abstract
The Anisotropic Network Model (ANM) is used to study motions of the 30S small ribosomal subunit. The effect of the absence of certain subunits on the motions of the remaining partial structures was investigated by removing one protein, pairs of proteins and selected sets of proteins at a time. Our results show that the removal of some proteins doesn't change the large-scale dynamics of the partial structures, but the removal of certain subunits does cause significant changes in motion of the remaining structure, and these changes can be reverted by the removal of other subunits, which indicates interdependence between motions of various parts of the 30S ribosomal structure. We further found that the subunits showing such interdependence have strong positive correlation of their motions, which indicates that these subunits function as a unit block in the 30S small ribosomal subunit. Dynamically interdependent subunit pairs identified in this paper are consistent with previous experimental observations that suggested dimerization of those subunits.
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.