1GE9

SOLUTION STRUCTURE OF THE RIBOSOME RECYCLING FACTOR

Summary for 1GE9

• Entry DOI: 10.2210/pdb1ge9/pdb
• Descriptor: RIBOSOME RECYCLING FACTOR (1 entity in total)
• Functional Keywords: three-helix bundle, ribosome
• Biological source: Aquifex aeolicus
• Total number of polymer chains: 1
• Total formula weight: 21529.89

Authors

Yoshida, T.,Uchiyama, S.,Nakano, H.,Kashimori, H.,Kijima, H.,Ohshima, T.,Saihara, Y.,Ishino, T.,Shimahara, T.,Yoshida, T.,Yokose, K.,Ohkubo, T.,Kaji, A.,Kobayashi, Y. (deposition date: 2000-10-19, release date: 2001-05-16, Last modification date: 2023-12-27)

Primary citation

Yoshida, T.,Uchiyama, S.,Nakano, H.,Kashimori, H.,Kijima, H.,Ohshima, T.,Saihara, Y.,Ishino, T.,Shimahara, H.,Yoshida, T.,Yokose, K.,Ohkubo, T.,Kaji, A.,Kobayashi, Y.
Solution structure of the ribosome recycling factor from Aquifex aeolicus.
Biochemistry, 40:2387-2396, 2001

PubMed Abstract: The solution structure of ribosome recycling factor (RRF) from hyperthermophilic bacterium, Aquifex aeolicus, was determined by heteronuclear multidimensional NMR spectroscopy. Fifteen structures were calculated using restraints derived from NOE, J-coupling, and T1/T2 anisotropies. The resulting structure has an overall L-shaped conformation with two domains and is similar to that of a tRNA molecule. The domain I (corresponding to the anticodon stem of tRNA) is a rigid three alpha-helix bundle. Being slightly different from usual coiled-coil arrangements, each helix of domain I is not twisted but straight and parallel to the main axis. The domain II (corresponding to the portion with the CCA end of tRNA) is an alpha/beta domain with an alpha-helix and two beta-sheets, that has some flexible regions. The backbone atomic root-mean-square deviation (rmsd) values of both domains were 0.7 A when calculated separately, which is smaller than that of the molecule as a whole (1.4 A). Measurement of 15N-[1H] NOE values show that the residues in the corner of the L-shaped molecule are undergoing fast internal motion. These results indicate that the joint region between two domains contributes to the fluctuation in the orientation of two domains. Thus, it was shown that RRF remains the tRNA mimicry in solution where it functions.

PubMed: 11327859
DOI: 10.1021/bi002474g

Experimental method

SOLUTION NMR