8VJT

Structure of the poly-UG quadruplex (GUGUGU)4

Summary for 8VJT

• Entry DOI: 10.2210/pdb8vjt/pdb
• Descriptor: RNA (5'-R(*GP*UP*GP*UP*GP*U)-3'), POTASSIUM ION, SODIUM ION, ... (4 entities in total)
• Functional Keywords: rna quadruplex, rna
• Biological source: synthetic construct
• Total number of polymer chains: 2
• Total formula weight: 4137.98

Authors

Bingman, C.A.,Montemayor, E.J.,Roschdi, S.,Nomura, Y.,Butcher, S.E. (deposition date: 2024-01-08, release date: 2024-10-16, Last modification date: 2024-11-27)

Primary citation

Roschdi, S.,Montemayor, E.J.,Vivek, R.,Bingman, C.A.,Butcher, S.E.
Self-assembly and condensation of intermolecular poly(UG) RNA quadruplexes.
Nucleic Acids Res., 52:12582-12591, 2024

PubMed Abstract: Poly(UG) or 'pUG' dinucleotide repeats are highly abundant sequences in eukaryotic RNAs. In Caenorhabditis elegans, pUGs are added to RNA 3' ends to direct gene silencing within Mutator foci, a germ granule condensate. Here, we show that pUG RNAs efficiently self-assemble into gel condensates through quadruplex (G4) interactions. Short pUG sequences form right-handed intermolecular G4s (pUG G4s), while longer pUGs form left-handed intramolecular G4s (pUG folds). We determined a 1.05 Å crystal structure of an intermolecular pUG G4, which reveals an eight stranded G4 dimer involving 48 nucleotides, 7 different G and U quartet conformations, 7 coordinated potassium ions, 8 sodium ions and a buried water molecule. A comparison of the intermolecular pUG G4 and intramolecular pUG fold structures provides insights into the molecular basis for G4 handedness and illustrates how a simple dinucleotide repeat sequence can form complex structures with diverse topologies.

PubMed: 39373474
DOI: 10.1093/nar/gkae870

Experimental method

X-RAY DIFFRACTION (1.052 Å)