8VCI

SARS-CoV-2 Frameshift Stimulatory Element with Upstream Multibranch Loop

Summary for 8VCI

• Entry DOI: 10.2210/pdb8vci/pdb
• EMDB information: 43137
• Descriptor: Frameshift Stimulatory Element with Upstream Multi-branch Loop (1 entity in total)
• Functional Keywords: rna, coronavirus, sars-cov-2, programmed -1 ribosomal frameshifting, -1 prf, frameshift stimulatory element, fse, attenuator hairpin
• Biological source: Severe acute respiratory syndrome coronavirus 2 (2019-nCoV, SARS-CoV-2)
• Total number of polymer chains: 1
• Total formula weight: 37901.41

Authors

Peterson, J.M.,Becker, S.T.,O'Leary, C.A.,Juneja, P.,Yang, Y.,Moss, W.N. (deposition date: 2023-12-14, release date: 2024-01-17, Last modification date: 2024-05-29)

Primary citation

Peterson, J.M.,Becker, S.T.,O'Leary, C.A.,Juneja, P.,Yang, Y.,Moss, W.N.
Structure of the SARS-CoV-2 Frameshift Stimulatory Element with an Upstream Multibranch Loop.
Biochemistry, 63:1287-1296, 2024

PubMed Abstract: The severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) frameshift stimulatory element (FSE) is necessary for programmed -1 ribosomal frameshifting (-1 PRF) and optimized viral efficacy. The FSE has an abundance of context-dependent alternate conformations, but two of the structures most crucial to -1 PRF are an attenuator hairpin and a three-stem H-type pseudoknot structure. A crystal structure of the pseudoknot alone features three RNA stems in a helically stacked linear structure, whereas a 6.9 Å cryo-EM structure including the upstream heptameric slippery site resulted in a bend between two stems. Our previous research alluded to an extended upstream multibranch loop that includes both the attenuator hairpin and the slippery site-a conformation not previously modeled. We aim to provide further context to the SARS-CoV-2 FSE via computational and medium resolution cryo-EM approaches, by presenting a 6.1 Å cryo-EM structure featuring a linear pseudoknot structure and a dynamic upstream multibranch loop.

PubMed: 38727003
DOI: 10.1021/acs.biochem.3c00716

Experimental method

ELECTRON MICROSCOPY (6.1 Å)