Solution Structure of an RNA Internal Loop with Three Consecutive Sheared GA Pairs†,‡

Biochemistry ◽  
2005 ◽  
Vol 44 (8) ◽  
pp. 2845-2856 ◽  
Author(s):  
Gang Chen ◽  
Brent M. Znosko ◽  
Scott D. Kennedy ◽  
Thomas R. Krugh ◽  
Douglas H. Turner
Keyword(s):  
Solution Structure ◽  
Internal Loop ◽  
Rna Internal Loop

Structure of an RNA Internal Loop Consisting of Tandem C-A+Base Pairs†,‡

Biochemistry ◽  
1998 ◽  
Vol 37 (34) ◽  
pp. 11726-11731 ◽  
Author(s):  
Se Bok Jang ◽  
Li-Wei Hung ◽  
Young-In Chi ◽  
Elizabeth L. Holbrook ◽  
Richard J. Carter ◽  
...  
Keyword(s):  
Base Pairs ◽  
Internal Loop ◽  
Rna Internal Loop

scholarly journals Molecular dynamics correctly models the unusual major conformation of the GAGU RNA internal loop and with NMR reveals an unusual minor conformation

RNA ◽  
2018 ◽  
Vol 24 (5) ◽  
pp. 656-672 ◽  
Author(s):  
Aleksandar Spasic ◽  
Scott D. Kennedy ◽  
Laura Needham ◽  
Muthiah Manoharan ◽  
Ryszard Kierzek ◽  
...  
Keyword(s):  
Molecular Dynamics ◽  
Internal Loop ◽  
Rna Internal Loop ◽  
Major Conformation

scholarly journals T he U5 sn RNA internal loop 1 is a platform for Brr2, Snu114 and Prp8 protein binding during U5 sn RNP assembly

2013 ◽  
Vol 114 (12) ◽  
pp. 2770-2784 ◽  
Author(s):  
Verity Nancollis ◽  
Jayalath P.D. Ruckshanthi ◽  
Lily Novak Frazer ◽  
Raymond T. O'Keefe
Keyword(s):  
Protein Binding ◽  
Internal Loop ◽  
Rna Internal Loop

scholarly journals Structure and sequence elements of the CR4/5 domain of medaka telomerase RNA important for telomerase function

2013 ◽  
Vol 42 (5) ◽  
pp. 3395-3408 ◽  
Author(s):  
Nak-Kyoon Kim ◽  
Qi Zhang ◽  
Juli Feigon
Keyword(s):  
Nuclear Magnetic Resonance ◽  
Catalytic Activity ◽  
Reverse Transcriptase ◽  
Solution Structure ◽  
Telomerase Activity ◽  
Telomerase Reverse Transcriptase ◽  
Nucleotide Substitutions ◽  
Base Pairs ◽  
Internal Loop ◽  
Sequence Elements

Abstract Telomerase is a unique reverse transcriptase that maintains the 3′ ends of eukaryotic chromosomes by adding tandem telomeric repeats. The RNA subunit (TR) of vertebrate telomerase provides a template for reverse transcription, contained within the conserved template/pseudoknot domain, and a conserved regions 4 and 5 (CR4/5) domain, all essential for catalytic activity. We report the nuclear magnetic resonance (NMR) solution structure of the full-length CR4/5 domain from the teleost fish medaka (Oryzias latipes). Three helices emanate from a structured internal loop, forming a Y-shaped structure, where helix P6 stacks on P5 and helix P6.1 points away from P6. The relative orientations of the three helices are Mg2+ dependent and dynamic. Although the three-way junction is structured and has unexpected base pairs, telomerase activity assays with nucleotide substitutions and deletions in CR4/5 indicate that none of these are essential for activity. The results suggest that the junction is likely to change conformation in complex with telomerase reverse transcriptase and that it provides a flexible scaffold that allows P6 and P6.1 to correctly fold and interact with telomerase reverse transcriptase.

scholarly journals NMR structure of a 4 x 4 nucleotide RNA internal loop from an R2 retrotransposon: Identification of a three purine-purine sheared pair motif and comparison to MC-SYM predictions

RNA ◽  
2011 ◽  
Vol 17 (9) ◽  
pp. 1664-1677 ◽  
Author(s):  
Y. V. Lerman ◽  
S. D. Kennedy ◽  
N. Shankar ◽  
M. Parisien ◽  
F. Major ◽  
...  
Keyword(s):  
Nmr Structure ◽  
Internal Loop ◽  
Rna Internal Loop

A Small Molecule Microarray Platform To Select RNA Internal Loop−Ligand Interactions

2007 ◽  
Vol 2 (11) ◽  
pp. 745-754 ◽  
Author(s):  
Jessica L. Childs-Disney ◽  
Meilan Wu ◽  
Alexei Pushechnikov ◽  
Olga Aminova ◽  
Matthew D. Disney
Keyword(s):  
Small Molecule ◽  
Microarray Platform ◽  
Internal Loop ◽  
Ligand Interactions ◽  
Rna Internal Loop
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