4Y1O

Oceanobacillus iheyensis group II intron domain 1

Summary for 4Y1O

• Entry DOI: 10.2210/pdb4y1o/pdb
• Related: 4Y1N
• Descriptor: group II intron, domain 1, MAGNESIUM ION, POTASSIUM ION, ... (4 entities in total)
• Functional Keywords: group ii intron, domain 1, rna, transferase
• Biological source: Oceanobacillus iheyensis HTE831
• Total number of polymer chains: 2
• Total formula weight: 178937.84

Authors

Zhao, C.,Rajashankar, K.R.,Marcia, M.,Pyle, A.M. (deposition date: 2015-02-08, release date: 2015-10-14, Last modification date: 2024-02-28)

Primary citation

Zhao, C.,Rajashankar, K.R.,Marcia, M.,Pyle, A.M.
Crystal structure of group II intron domain 1 reveals a template for RNA assembly.
Nat.Chem.Biol., 11:967-972, 2015

PubMed Abstract: Although the importance of large noncoding RNAs is increasingly appreciated, our understanding of their structures and architectural dynamics remains limited. In particular, we know little about RNA folding intermediates and how they facilitate the productive assembly of RNA tertiary structures. Here, we report the crystal structure of an obligate intermediate that is required during the earliest stages of group II intron folding. Composed of domain 1 from the Oceanobacillus iheyensis group II intron (266 nucleotides), this intermediate retains native-like features but adopts a compact conformation in which the active site cleft is closed. Transition between this closed and the open (native) conformation is achieved through discrete rotations of hinge motifs in two regions of the molecule. The open state is then stabilized by sequential docking of downstream intron domains, suggesting a 'first come, first folded' strategy that may represent a generalizable pathway for assembly of large RNA and ribonucleoprotein structures.

PubMed: 26502156
DOI: 10.1038/nchembio.1949

Experimental method

X-RAY DIFFRACTION (2.95 Å)