Methylation of the nucleobases in RNA oligonucleotides mediates duplex-hairpin conversion

Nucleic Acids Research

Volumn 29, Issue 19, 2001, Pages 3997-4005

  Micura, Ronald ^a,b   Pils, Werner ^b   Höbartner, Claudia ^a   Grubmayr, Karl ^b   Ebert, Marc Olivier ^c   Jaun, Bernhard ^c  

^a UNIVERSITY OF INNSBRUCK   (Austria)

^b JOHANNES KEPLER UNIVERSITY LINZ   (Austria)

^c ETH ZURICH   (Switzerland)

Author keywords

[No Author keywords available]

Indexed keywords

ADENOSINE; CYTIDINE; GUANOSINE; METHYL GROUP; NUCLEIC ACID BASE; OLIGORIBONUCLEOTIDE; URIDINE;

ARTICLE; BASE PAIRING; CHEMICAL STRUCTURE; CONFORMATION; CONTROLLED STUDY; METHYLATION; MODULATION; PRIORITY JOURNAL; PROTEIN MOTIF; PROTEIN SECONDARY STRUCTURE; RNA SEQUENCE; RNA STRUCTURE;

EID: 0035476599     PISSN: 03051048     EISSN: None     Source Type: Journal    
DOI: 10.1093/nar/29.19.3997     Document Type: Article

References (56)

1. The RNA modification database
2. Biosynthesis and function of modified nucleosides
3. Modified nucleosides and codon recognition
4. Appendix 1: Chemical structures and classification of post-transcriptionally modified nucleosides in RNA
5. Bridged cyclic oligoribonucleotides as model compounds for codon-anticodon pairing
6. Historical perspectives on RNA nucleoside modifications
7. Nucleotide modification and base conversion of RNA: Summary and outlook
8. 2+ in RNA structure and function
9. Unique structural and stabilizing roles for the individual pseudouridine residues in the 1920 region of Escherichia coli 23S rRNA
10. 6A and pseudouridine using phosphoramidite chemistry
11. Impact of CpG methylation on structure, dynamics and solvation of cAMP DNA responsive element
12. 2-dimethylguanosine by reductive carbon-sulfur bond cleavage with tributyltin hydride
13. Site-selected introduction of modified purine and pyrimidine ribonucleosides into RNA by automated phosphoramidite chemistry
14. Phe anticodon stem loop analogs
15. 6-dimethyl-adenosine
16. 2-dimethylguanosine
17. Convenient intermediates for the preparation of C-4 modified derivatives of pyrimidine nucleosides
18. 4-methylcytosine
19. Nucleic acid components and their analogs. CXXXII. Alkylation of some nuclei acid components and their analogs with dimethylformamide acetals. Collect
20. Fast and reliable automated synthesis of RNA and partially 2′-O-protected precursors ('caged RNA') based on two novel, orthogonal 2′-O-protecting groups
21. Synthesis and pairing properties of oligoribonucleotide analogues containing a metal-binding site attached to β-D-allofuranosyl cytosine
22. Calculating thermodynamic data for transitions of any molecularity from equilibrium melting curves
23. Thermodynamics of RNA secondary structure formation
24. Base-stacking and base-pairing contributions to helix stability: Thermodynamics of double-helix formation with CCGG, CCGGp, CCGGAp, ACCGGp, CCGGUp and ACCGGUp
25. Water suppression that works. Using excitation sculpting with gradients
26. Gaussian pulse cascades: New analytical functions for rectangular selective inversion and in-phase excitation in NMR
27. Band-selective radiofrequency pulses
28. 4CGCG) oligonucleotides
29. The duplex-hairpin conformational transition of d(CGCGCGATCGCGCG) and d(CGCGCGTACGCGCG): A thermodynamic and kinetic study
30. 1H NMR of 5′CGCGTATATACGCG3′, a duplex and a four-membered loop
31. Structural polymorphism and dynamism in the DNA segment GATCTTCCCCCCGGAA: NMR investigations of hairpin, dumbell, nicked duplex, parallel strands and i-motif
32. Hairpin and duplex formation in DNA fragments CCAATTTTGG, CCAATTTTTTGG and CCATTTTTGG: A proton NMR study
33. Energetics of the hairpin to mismatched duplex transition of d(GCCGCAGC) in NaCl solution
34. Minor groove functional groups are critical for the B-form conformation of duplex DNA
35. Secondary structure dimorphism and interconversion between hairpin and duplex form of oligoribonucleotides
36. Solution structure of the conserved 16S-like ribosomal RNA UGAA tetraloop
37. Structure of an RNA hairpin loop with a 5′-CGUUUCG-3′ loop motif by heteronuclear NMR spectroscopy and distance geometry
38. Phe
39. Purine-purine mismatches in RNA helices: Evidence for protonated G·A pairs and next-nearest neighbor effects
40. Solid-phase synthesis and high-resolution NMR studies of two synthetic double-helical RNA dodecamers: R(CGCGAAUUCGCG) and r(CGCGUAUACGCG)
41. Effects of methylation on the stability of nucleic acid conformations: Studies at the monomer level
42. 2-methylguanosine is isoenergetic with guanosine in RNA duplexes and GNRA tetraloops
43. Biosynthesis and functions of modified nucleosides in eucaryotic mRNA
44. Appendix 1: Structures of base pairs involving at least two hydrogen bonds
45. 6ATTCGCG) at 2.0-Å resolution
46. 6G]AATTCGCG)-netropsin complex
47. High-resolution structure of a mutagenic lesion in DNA
48. 2I]AATTCGCG)
49. Thermodynamics of single mismatches in RNA duplexes
50. Functional links between nuclear structure, gene expression, DNA replication and methylation
51. Effects of DNA methylation on DNA binding proteins and gene expression
52. The structure of a methylated tetraloop in 16S ribosomal RNA
53. RNA folding at elementary step resolution
54. Complete suboptimal folding of RNA and the stability of secondary structures