Warning: Undefined array key "mm" in /www/wwwroot/www.ai-bt.com/si.php on line 10 Deprecated: trim(): Passing null to parameter #1 ($string) of type string is deprecated in /www/wwwroot/www.ai-bt.com/si.php on line 10 Crystal and solution structures of the oligonucleotide d(ATGCGCAT)2: a combined X-ray and NMR study.

Literature DB >> 2216724

Crystal and solution structures of the oligonucleotide d(ATGCGCAT)2: a combined X-ray and NMR study.

G R Clark¹, D G Brown, M R Sanderson, T Chwalinski, S Neidle, J M Veal, R L Jones, W D Wilson, G Zon, E Garman.

Abstract

A combined crystal-structure determination and NMR analysis of the octanucleotide d(ATGCGCAT)2 is reported. The X-ray analysis shows that the structure is A-form duplex in crystal state. The NMR study shows that in solution this sequence is B-type. The conformational results from each technique are presented in detail. The implications of these findings in terms of conformational flexibility and ligand binding are discussed.

Entities: Chemical

Mesh：

Substances：

Year: 1990 PMID： 2216724 PMCID： PMC332232 DOI： 10.1093/nar/18.18.5521

Source DB: PubMed Journal: Nucleic Acids Res ISSN： 0305-1048 Impact factor: 16.971

27 in total

1. NMR studies of echinomycin bisintercalation complexes with d(A1-C2-G3-T4) and d(T1-C2-G3-A4) duplexes in aqueous solution: sequence-dependent formation of Hoogsteen A1.T4 and Watson--Crick T1.A4 base pairs flanking the bisintercalation site.

Authors: X L Gao; D J Patel
Journal: Biochemistry Date: 1988-03-08 Impact factor: 3.162

2. Conformational analysis of the sugar ring in nucleosides and nucleotides. A new description using the concept of pseudorotation.

Authors: C Altona; M Sundaralingam
Journal: J Am Chem Soc Date: 1972-11-15 Impact factor: 15.419

Review 3. The effect of the base sequence on the fine structure of the DNA double helix.

Authors: Z Shakked; D Rabinovich
Journal: Prog Biophys Mol Biol Date: 1986 Impact factor: 3.667

4. Crystallographic refinement of yeast aspartic acid transfer RNA.

Authors: E Westhof; P Dumas; D Moras
Journal: J Mol Biol Date: 1985-07-05 Impact factor: 5.469

5. Assignment of the non-exchangeable proton resonances of d(C-G-C-G-A-A-T-T-C-G-C-G) using two-dimensional nuclear magnetic resonance methods.

Authors: D R Hare; D E Wemmer; S H Chou; G Drobny; B R Reid
Journal: J Mol Biol Date: 1983-12-15 Impact factor: 5.469

6. Molecular structure of the octamer d(G-G-C-C-G-G-C-C): modified A-DNA.

Authors: A H Wang; S Fujii; J H van Boom; A Rich
Journal: Proc Natl Acad Sci U S A Date: 1982-07 Impact factor: 11.205

7. An underlying repeat in some transcriptional control sequences corresponding to half a double helical turn of DNA.

Authors: D Rhodes; A Klug
Journal: Cell Date: 1986-07-04 Impact factor: 41.582

8. The crystal structure of d(GGATGGGAG): an essential part of the binding site for transcription factor IIIA.

Authors: M McCall; T Brown; W N Hunter; O Kennard
Journal: Nature Date: 1986 Aug 14-20 Impact factor: 49.962

9. Crystal structure analysis of an A-DNA fragment at 1.8 A resolution: d(GCCCGGGC).

Authors: U Heinemann; H Lauble; R Frank; H Blöcker
Journal: Nucleic Acids Res Date: 1987-11-25 Impact factor: 16.971

10. Deoxyribose conformation in [d(GTATATAC)]2: evaluation of sugar pucker by simulation of double-quantum-filtered COSY cross-peaks.

Authors: U Schmitz; G Zon; T L James
Journal: Biochemistry Date: 1990-03-06 Impact factor: 3.162

7 in total

Crystal and solution structures of the oligonucleotide d(ATGCGCAT)2: a combined X-ray and NMR study.

1. NMR studies of echinomycin bisintercalation complexes with d(A1-C2-G3-T4) and d(T1-C2-G3-A4) duplexes in aqueous solution: sequence-dependent formation of Hoogsteen A1.T4 and Watson--Crick T1.A4 base pairs flanking the bisintercalation site.

2. Conformational analysis of the sugar ring in nucleosides and nucleotides. A new description using the concept of pseudorotation.

Review 3. The effect of the base sequence on the fine structure of the DNA double helix.

4. Crystallographic refinement of yeast aspartic acid transfer RNA.

5. Assignment of the non-exchangeable proton resonances of d(C-G-C-G-A-A-T-T-C-G-C-G) using two-dimensional nuclear magnetic resonance methods.

6. Molecular structure of the octamer d(G-G-C-C-G-G-C-C): modified A-DNA.

7. An underlying repeat in some transcriptional control sequences corresponding to half a double helical turn of DNA.

8. The crystal structure of d(GGATGGGAG): an essential part of the binding site for transcription factor IIIA.

9. Crystal structure analysis of an A-DNA fragment at 1.8 A resolution: d(GCCCGGGC).

10. Deoxyribose conformation in [d(GTATATAC)]2: evaluation of sugar pucker by simulation of double-quantum-filtered COSY cross-peaks.

1. Curved DNA without AA/TT dinucleotide step.

2. Hydration of the phosphate group in double-helical DNA.

3. Comparison of the solution and crystal conformations of (G + C)-rich fragments of DNA.

4. Crystal structure of the self-complementary 5'-purine start decamer d(GCGCGCGCGC) in the Z-DNA conformation. I.

5. Solution structure of the Dickerson DNA dodecamer containing a single ribonucleotide.

6. A nicked duplex decamer DNA with a PEG(6) tether.

7. Influence of counter-ions on the crystal structures of DNA decamers: binding of [Co(NH3)6]3+ and Ba2+ to A-DNA.