[HTML][HTML] Challenges, advances, and opportunities in RNA structural biology by Cryo-EM

SL Bonilla, K Jang - Current Opinion in Structural Biology, 2024 - Elsevier
RNAs are remarkably versatile molecules that can fold into intricate three-dimensional (3D)
structures to perform diverse cellular and viral functions. Despite their biological importance …

Advances, Applications, and Perspectives in Small‐Angle X‐ray Scattering of RNA

JN Tants, A Schlundt - Chembiochem, 2023 - Wiley Online Library
RNAs exhibit a plethora of functions far beyond transmitting genetic information. Often, RNA
functions are entailed in their structure, be it as a regulatory switch, protein binding site, or …

Refining the RNA force field with small-angle X-ray scattering of helix–junction–helix RNA

W He, N Naleem, D Kleiman… - The Journal of Physical …, 2022 - ACS Publications
The growing recognition of the functional and therapeutic roles played by RNA and the
difficulties in gaining atomic-level insights by experiments are paving the way for all-atom …

Visualizing disordered single-stranded RNA: connecting sequence, structure, and electrostatics

A Plumridge, K Andresen, L Pollack - Journal of the American …, 2019 - ACS Publications
Disordered homopolymeric regions of single-stranded RNA, such as U or A tracts, are found
within functional RNAs where they play distinct roles in defining molecular structure and …

Pressure pushes tRNALys3 into excited conformational states

J Wang, T Koduru, B Harish… - Proceedings of the …, 2023 - National Acad Sciences
Conformational dynamics play essential roles in RNA function. However, detailed structural
characterization of excited states of RNA remains challenging. Here, we apply high …

Structure folding of RNA kissing complexes in salt solutions: predicting 3D structure, stability, and folding pathway

L Jin, YL Tan, Y Wu, X Wang, YZ Shi, ZJ Tan - RNA, 2019 - rnajournal.cshlp.org
RNA kissing complexes are essential for genomic RNA dimerization and regulation of gene
expression, and their structures and stability are critical to their biological functions. In this …

Salt dependence of A-form RNA duplexes: Structures and implications

YL Chen, L Pollack - The Journal of Physical Chemistry B, 2019 - ACS Publications
The biological functions of RNA range from gene regulation through catalysis and depend
critically on its structure and flexibility. Conformational variations of flexible, non-base-paired …

[PDF][PDF] Machine learning deciphers structural features of RNA duplexes measured with solution X-ray scattering

YL Chen, L Pollack - IUCrJ, 2020 - journals.iucr.org
Macromolecular structures can be determined from solution X-ray scattering. Small-angle X-
ray scattering (SAXS) provides global structural information on length scales of 10s to 100s …

Going beyond base-pairs: topology-based characterization of base-multiplets in RNA

S Bhattacharya, A Jhunjhunwala, A Halder… - RNA, 2019 - rnajournal.cshlp.org
Identification and characterization of base-multiplets, which are essentially mediated by
base-pairing interactions, can provide insights into the diversity in the structure and …

Exploring the multiple conformational states of RNA genome through interhelical dynamics and network analysis

O Singh, PP Venugopal, A Mathur… - Journal of Molecular …, 2022 - Elsevier
The structural variation of RNA is often very transient and can be easily missed in
experiments. Molecular dynamics simulation studies along with network analysis can be an …