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Structural similarity of E. coli 5S rRNA in solution and within the ribosome.
Biopolymers. 2004 Feb 15; 73(3):316-25.B

Abstract

The article presents translational and rotational diffusion coefficients of 5S rRNA determined experimentally by the method of dynamic light scattering (DLS) and its comparison with the values predicted for different models of this molecule. The tertiary structure of free 5S rRNA was proposed on the basis of the atomic structures of the 5S rRNA from E. coli and H. marismortui extracted from the ribosome. A comparison of the values of DT, tauR, and Rg predicted for different models with experimental results for the free molecule in solution suggests that free 5S rRNA is less compact than that in the complex with ribosomal proteins. In general, the molecules of 5S rRNA consist of three domains: a short one and two longer ones. As follows from a comparison of the results of our simulations with experimental values, in the molecule in solution the two closest helical fragments of the longer domains remain collinear, whereas the short domain takes a position significantly deviated from them.

Authors+Show Affiliations

Skibinska L
Institute of Physics, Adam Mickiewicz University, ul. Umultowska 85, 61-614 Poznan, Poland.
Banachowicz E
No affiliation info available
Gapiński J
No affiliation info available
Patkowski A
No affiliation info available
Barciszewski J
No affiliation info available

MeSH

Base SequenceEscherichia coliLightModels, MolecularMolecular Sequence DataNucleic Acid ConformationRNA, BacterialRNA, Ribosomal, 5SRibosomesScattering, RadiationSolutions

Pub Type(s)

Comparative Study
Journal Article

Language

eng

PubMed ID

14755567

Citation

Skibinska, Lidia, et al. "Structural Similarity of E. Coli 5S rRNA in Solution and Within the Ribosome." Biopolymers, vol. 73, no. 3, 2004, pp. 316-25.
Skibinska L, Banachowicz E, Gapiński J, et al. Structural similarity of E. coli 5S rRNA in solution and within the ribosome. Biopolymers. 2004;73(3):316-25.
Skibinska, L., Banachowicz, E., Gapiński, J., Patkowski, A., & Barciszewski, J. (2004). Structural similarity of E. coli 5S rRNA in solution and within the ribosome. Biopolymers, 73(3), 316-25.
Skibinska L, et al. Structural Similarity of E. Coli 5S rRNA in Solution and Within the Ribosome. Biopolymers. 2004 Feb 15;73(3):316-25. PubMed PMID: 14755567.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Structural similarity of E. coli 5S rRNA in solution and within the ribosome. AU - Skibinska,Lidia, AU - Banachowicz,Ewa, AU - Gapiński,Jacek, AU - Patkowski,Adam, AU - Barciszewski,Jan, PY - 2004/2/3/pubmed PY - 2004/3/26/medline PY - 2004/2/3/entrez SP - 316 EP - 25 JF - Biopolymers JO - Biopolymers VL - 73 IS - 3 N2 - The article presents translational and rotational diffusion coefficients of 5S rRNA determined experimentally by the method of dynamic light scattering (DLS) and its comparison with the values predicted for different models of this molecule. The tertiary structure of free 5S rRNA was proposed on the basis of the atomic structures of the 5S rRNA from E. coli and H. marismortui extracted from the ribosome. A comparison of the values of DT, tauR, and Rg predicted for different models with experimental results for the free molecule in solution suggests that free 5S rRNA is less compact than that in the complex with ribosomal proteins. In general, the molecules of 5S rRNA consist of three domains: a short one and two longer ones. As follows from a comparison of the results of our simulations with experimental values, in the molecule in solution the two closest helical fragments of the longer domains remain collinear, whereas the short domain takes a position significantly deviated from them. SN - 0006-3525 UR - https://www.unboundmedicine.com/medline/citation/14755567/Structural_similarity_of_E__coli_5S_rRNA_in_solution_and_within_the_ribosome_ DB - PRIME DP - Unbound Medicine ER -