6LSF

Crystal structure of the enterovirus 71 polymerase elongation complex (C2S6RA/C2S6RB form)

Summary for 6LSF

• Entry DOI: 10.2210/pdb6lsf/pdb
• Descriptor: Genome polyprotein, RNA (35-MER), RNA (5'-R(*UP*GP*UP*UP*CP*GP*AP*CP*GP*AP*GP*AP*GP*AP*GP*AP*CP*C)-3'), ... (6 entities in total)
• Functional Keywords: polymerase-rna complex, elongation, translocation intermediate, transferase-dna complex, transferase/dna
• Biological source: Human enterovirus 71 (EV71); More
• Total number of polymer chains: 3
• Total formula weight: 70642.20

Authors

Wang, M.,Shu, B.,Jing, X.,Gong, P. (deposition date: 2020-01-17, release date: 2020-04-29, Last modification date: 2023-11-29)

Primary citation

Wang, M.,Li, R.,Shu, B.,Jing, X.,Ye, H.Q.,Gong, P.
Stringent control of the RNA-dependent RNA polymerase translocation revealed by multiple intermediate structures.
Nat Commun, 11:2605-2605, 2020

PubMed Abstract: Each polymerase nucleotide addition cycle is associated with two primary conformational changes of the catalytic complex: the pre-chemistry active site closure and post-chemistry translocation. While active site closure is well interpreted by numerous crystallographic snapshots, translocation intermediates are rarely captured. Here we report three types of intermediate structures in an RNA-dependent RNA polymerase (RdRP). The first two types, captured in forward and reverse translocation events, both highlight the role of RdRP-unique motif G in restricting the RNA template movement, corresponding to the rate-limiting step in translocation. By mutating two critical residues in motif G, we obtain the third type of intermediates that may mimic the transition state of this rate-limiting step, demonstrating a previously unidentified movement of the template strand. We propose that a similar strategy may be utilized by other classes of nucleic acid polymerases to ensure templating nucleotide positioning for efficient catalysis through restricting interactions with template RNA.

PubMed: 32451382
DOI: 10.1038/s41467-020-16234-4

Experimental method

X-RAY DIFFRACTION (2.152 Å)