Primary Citation PubMed: 14745440
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Solution structure of a purine rich hexaloop hairpin belonging to PGY/MDR1 mRNA and targeted by antisense oligonucleotides.
(2006) Nucleic Acids Res 34
PubMed: 17041234 | PubMedCentral: PMC1694020 | DOI: 10.1093/nar/gkl617
This trend for purine stacking is common to 1R2P and 1BVJ hexaloops, and can occur even in the case where the purine tract is interrupted by a cytosine as shown by the GUAACA loop solution structure [... U2A, ( 63 )].
Publication Year: 2006
Molecular dynamics re-refinement of two different small RNA loop structures using the original NMR data suggest a common structure.
(2012) J Biomol NMR 53
PubMed: 22714631 | PubMedCentral: PMC3405240 | DOI: 10.1007/s10858-012-9642-5
A complete listing of the simulations is given in Table 1 , noting that the five independent runs originated from the first five representative NMR structures from the 1R2P and 2F88 PDB files...
Materials and methods Coordinates and restraint data The coordinates and restraint data for the ai5γ_NMR and PL_NMR structures were retrieved from the RCSB Protein Data Bank website using the PDB codes 1R2P and 2F88, respectively.
The “NMR” code denotes the original ensemble from earlier refinement (ai5γ_NMR is PDB: 1R2P, PL_NMR is PDB: 2F88).
1 Comparison of the secondary and 3D structures for domain 5 of the Group II Intron from yeast ai5γ (ai5γ_NMR, PDB code 1R2P, left ) and Pylaiella littoralis (PL_NMR, PDB code 2F88, right ).
2006 ) was performed, specifically on structures with the PDB codes of 1R2P (Sigel et al.
Publication Year: 2012
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