Zipper-like Watson-Crick base-pairs

Journal of Molecular Biology

Volumn 312, Issue 4, 2001, Pages 753-768

  Chou, Shan Ho ^a   Chin, Ko Hsin ^a  

^a NATIONAL CHUNG HSING UNIVERSITY   (Taiwan)

Author keywords

Cross strand stacks; Intercalation; NMR structure; Sheared GA pairing; Zipper like DNA motif

Indexed keywords

DNA; DNA BASE;

ARTICLE; BASE PAIRING; DNA CONFORMATION; HYDROGEN BOND; MOLECULAR INTERACTION; MOLECULAR STABILITY; NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY; NUCLEAR OVERHAUSER EFFECT; PRIORITY JOURNAL; TANDEM REPEAT;

EID: 0035965121     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1006/jmbi.2001.4962     Document Type: Article

References (66)

1. Highly conserved repetitive DNA sequences are present at human centromeres
2. The telomeres of streptomyces chromosomes contain conserved palindromic sequences with potential to form complex secondary structures
3. Structure and function of telomeres
4. Unusual structures of the tandem repetitive DNA sequences located at human centromeres
5. The unusual structure of the human centromere (GGA)2 motif: Unpaired guanosines stacked between sheared GA pairs
6. Structural polymophism of homopurine DNA sequences. d(GGA)n and d(GGGA)n repeats form intramolecular hairpins stabilized by different base-pairing interactions
7. Telomeric DNA oligonucleotides form novel intramolecular structures containing guanine-guanine base-pairs
8. A common motif organizes the structures of multi-helix loops in 16 S and 23 S rRNAs
9. Comparative sequence analysis and the structure of 16 S and 23 S rRNA
10. A story: Unpaired adenosine bases in ribosomal RNAs
11. Conformation and dynamics of an RNA internal loop
12. The conformation of loop E of eukaryotic 5 S ribosomal RNA
13. On the relative ability of centromeric GNA triplets to form hairpins versus self-paired duplexes
14. The structure of a novel DNA duplex formed by human centromere d(TGGAA) repeats with possible implications for chromosome attachment during mitosis
15. A single G-to-C change causes human centromere TGGAA repeats to fold back into hairpins
16. The loop E - loop D region of Escherichia coli: 5 S rRNA: The solution structure reveals an unusual loop that may be important for binding ribosomal proteins
17. Solution structure of the loop B domain from the hairpin ribozyme
18. Structure of the most conserved internal loop in SRP RNA
19. Solution structure of a DNA quadruplex containing the fragile X syndrome triplet repeat
20. A dimeric DNA interface stabilized by stacked A(GGGG)A hexads and coordinated monovalent cations
21. A two-stranded template-based approach to G(CA) triad formation: Designing novel structural elements into an existing DNA framework
22. A diamond-shaped zipper-like DNA architecture containing triads sandwiched between mismatches and tetrads
23. Tertiary motifs in RNA structure and folding
24. Structural motifs in RNA
25. Metals, motifs, and recognition in the crystal structure of a 5 S rRNA domain
26. Crystal structure of the ribosomal RNA domain essential for binding elongation factors
27. A zipper-like duplex in DNA: The crystal structure of d(GCGAAAGCT) at 2.1 Å resolution
28. The 2 Å structure of helix 6 of the human signal recognition particle RNA
29. Crystal structure of a group I ribozyme domain: Principles of RNA packing
30. RNA tertiary structure mediation by adenosine platforms
31. Alternating d(GA)n DNA sequences form antiparallel stranded homoduplexes stabilized by the formation of G:A base-pairs
32. Centromeric dedeca-satellite DNA sequences form fold-back structures
33. Tandem 5′-GA:GA-3′ mismatches account for the high stability of the foldback structures formed by the centromeric Drosophila dodeca-satellite
34. Structure and function analysis of the converved 690 hairpin in E. coli 16 S rRNA. III. Functional analysis of the 690 loop
35. Mining treasures from "Junk DNA"
36. Sheared purine:purine pairing in biology
37. RNA folding: Beyond Watson-Crick pairs
38. Stitching together RNA tertiary architectures
39. The 5S rRNA loop E: Chemical probing and phylogenetic data versus cyrstal structure
40. 11 phosphate groups
41. Hairpin loops consisting of single adenine residues closed by sheared A:A and G:G pairs formed by the DNA triplets AAA and GAG: Solution structure of the d(GTACAAAGTAC) hairpin
42. Cross-strand pruine-pyrimidine stack and sheared purine:pyrimidine pairing in the human HIV-1 reverse transcriptase inhibitors
43. Stable sheared A:C pair in DNA hairpins
44. Structural studies of symmetric DNA undecamers containing non-symmetrical sheared (PuGAPu):(PyGAPy) motifs
45. NMR studies of DNA structures containing sheared purine:purine and purine:pyrimidine base-pairs
46. Structure of a single-cytidine hairpin loop formed by the DNA triplet GCA
47. Base pairing geometry in GA mismatches depends entirely on the neighboring sequence
48. 31P]-NMR and restrained molecular dynamics of two DNA hairpins from a strong DNA topoisomerase II cleavage site
49. Assignment of the non-exchangeable proton resonances of d(CGCG AATTCGCG) using two-dimensional nuclear magnetic resonance methods
50. 11 phosphodiesters in solution
51. 1H coupling
52. Conformational analysis of nucleic acids. Determination of backbone geometry of single-helical RNA and DNA in aqueous solution
53. DNA sequence GCGAATGAGC containing the human centromere core sequence GAAT forms a self-complementary duplex with sheared G:A pairs in solution
54. Structure and recognition of sheared tandem GA base-pairs associated with human centromere DNA sequence at atomic resolution
55. A proposal for a specific double-helical structure in which the polynucleotide strands intercalate instead of forming base-pairs
56. Structure and assembly of filamentous bacterial viruses
57. Macromolecular structural transitions in Pf1 filamentous bacterial virus
58. Two forms of PF1 Inovirus: X-ray diffraction studies on a structural phase transition and a calculated liberation normal mode of the asymmetric unit
59. Nanosecond molecular dynamics of zipper-like DNA duplex structures containing sheared GA mismatch pairs
60. Interlocking structural motifs mediate molecular discrimination by a theophylline-binding RNA
61. Solution structure of a GAAA tetraloop receptor RNA
62. Exchangeable proton NMR without base-line distortion, using new strong-pulse sequences
63. 1H resonances in oligonucleotides by two-dimensional NMR spectroscopy
64. 31P chemical shifts of double-helical nucleic acids
65. Systematic NMR assignment pathways for DNA exchangeable protons
66. NMR investigation of RNA structure