5NO2

RsgA-GDPNP bound to the 30S ribosomal subunit (RsgA assembly intermediate)

Summary for 5NO2

• Entry DOI: 10.2210/pdb5no2/pdb
• EMDB information: 3661
• Descriptor: 16S ribosomal RNA, 30S ribosomal protein S12, 30S ribosomal protein S13, ... (22 entities in total)
• Functional Keywords: ribosome
• Biological source: Escherichia coli (strain K12); More
• Cellular location: Cytoplasm : P39286
• Total number of polymer chains: 19
• Total formula weight: 733041.84

Authors

Lopez-Alonso, J.P.,Kaminishi, T.,Kikuchi, T.,Hirata, Y.,Iturrioz, I.,Dhimole, N.,Schedlbauer, A.,Hase, Y.,Goto, S.,Kurita, D.,Muto, A.,Zhou, S.,Naoe, C.,Mills, D.J.,Gil-Carton, D.,Takemoto, C.,Himeno, H.,Fucini, P.,Connell, S.R. (deposition date: 2017-04-10, release date: 2017-05-24, Last modification date: 2024-04-24)

Primary citation

Lopez-Alonso, J.P.,Kaminishi, T.,Kikuchi, T.,Hirata, Y.,Iturrioz, I.,Dhimole, N.,Schedlbauer, A.,Hase, Y.,Goto, S.,Kurita, D.,Muto, A.,Zhou, S.,Naoe, C.,Mills, D.J.,Gil-Carton, D.,Takemoto, C.,Himeno, H.,Fucini, P.,Connell, S.R.
RsgA couples the maturation state of the 30S ribosomal decoding center to activation of its GTPase pocket.
Nucleic Acids Res., 45:6945-6959, 2017

PubMed Abstract: During 30S ribosomal subunit biogenesis, assembly factors are believed to prevent accumulation of misfolded intermediate states of low free energy that slowly convert into mature 30S subunits, namely, kinetically trapped particles. Among the assembly factors, the circularly permuted GTPase, RsgA, plays a crucial role in the maturation of the 30S decoding center. Here, directed hydroxyl radical probing and single particle cryo-EM are employed to elucidate RsgA΄s mechanism of action. Our results show that RsgA destabilizes the 30S structure, including late binding r-proteins, providing a structural basis for avoiding kinetically trapped assembly intermediates. Moreover, RsgA exploits its distinct GTPase pocket and specific interactions with the 30S to coordinate GTPase activation with the maturation state of the 30S subunit. This coordination validates the architecture of the decoding center and facilitates the timely release of RsgA to control the progression of 30S biogenesis.

PubMed: 28482099
DOI: 10.1093/nar/gkx324

Experimental method

ELECTRON MICROSCOPY (5.16 Å)