7KGA image
Deposition Date 2020-10-16
Release Date 2021-06-23
Last Version Date 2024-03-06
Entry Detail
PDB ID:
7KGA
Keywords:
Title:
Crystal structure of a mosquito-borne flavivirus dumbbell RNA
Biological Source:
Source Organism:
Method Details:
Experimental Method:
Resolution:
2.10 Å
R-Value Free:
0.25
R-Value Work:
0.22
R-Value Observed:
0.22
Space Group:
P 1 21 1
Macromolecular Entities
Polymer Type:polyribonucleotide
Molecule:RNA (90-MER)
Chain IDs:A, B
Chain Length:90
Number of Molecules:2
Biological Source:Donggang virus
Ligand Molecules
Primary Citation
Three-dimensional structure of a flavivirus dumbbell RNA reveals molecular details of an RNA regulator of replication.
Nucleic Acids Res. 49 7122 7138 (2021)
PMID: 34133732 DOI: 10.1093/nar/gkab462

Abstact

Mosquito-borne flaviviruses (MBFVs) including dengue, West Nile, yellow fever, and Zika viruses have an RNA genome encoding one open reading frame flanked by 5' and 3' untranslated regions (UTRs). The 3' UTRs of MBFVs contain regions of high sequence conservation in structured RNA elements known as dumbbells (DBs). DBs regulate translation and replication of the viral RNA genome, functions proposed to depend on the formation of an RNA pseudoknot. To understand how DB structure provides this function, we solved the x-ray crystal structure of the Donggang virus DB to 2.1Å resolution and used structural modeling to reveal the details of its three-dimensional fold. The structure confirmed the predicted pseudoknot and molecular modeling revealed how conserved sequences form a four-way junction that appears to stabilize the pseudoknot. Single-molecule FRET suggests that the DB pseudoknot is a stable element that can regulate the switch between translation and replication during the viral lifecycle by modulating long-range RNA conformational changes.

Legend

Protein

Chemical

Disease

Primary Citation of related structures