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Literature DB >> 2395870

Crystal structure and sequence-dependent conformation of the A.G mispaired oligonucleotide d(CGCAAGCTGGCG).

G D Webster¹, M R Sanderson, J V Skelly, S Neidle, P F Swann, B F Li, I J Tickle.

Abstract

The crystal structure of the dodecanucleotide d(CGCAAGCTGGCG) has been determined to a resolution of 2.5 A and refined to an R factor of 19.3% for 1710 reflections. The sequence crystallizes as a B-type double helix, with two G(anti).A(syn) base pairs. These are stabilized by three-center hydrogen bonds to pyrimidines that induce perturbations in base-pair geometry. The central AGCT region of the helix has a wide (greater than 6 A) minor groove.

Entities: Chemical

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Year: 1990 PMID： 2395870 PMCID： PMC54603 DOI： 10.1073/pnas.87.17.6693

Source DB: PubMed Journal: Proc Natl Acad Sci U S A ISSN： 0027-8424 Impact factor: 11.205

22 in total

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Authors: M D Topal; J R Fresco
Journal: Nature Date: 1976-09-23 Impact factor: 49.962

2. Structural features and hydration of d(C-G-C-G-A-A-T-T-A-G-C-G); a double helix containing two G.A mispairs.

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Journal: J Biomol Struct Dyn Date: 1986-10

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

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Authors: B Kramer; W Kramer; H J Fritz
Journal: Cell Date: 1984-10 Impact factor: 41.582

5. Molecular-mechanical studies of the mismatched base analogs of d(CGCGAATTCGCG)2:d(CGTGAATTCGCG)2, d(CGAGAATTCGCG)2, d(CGCGAATTCACG)2, d(CGCGAATTCTCG)2, and d(CGCAGAATTCGCG).d(CGCGAATTCGCG).

Authors: J W Keepers; P Schmidt; T L James; P A Kollman
Journal: Biopolymers Date: 1984-12 Impact factor: 2.505

6. Possible conformations of double-helical polynucleotides containing incorrect base pairs.

Authors: V P Chuprina; V I Poltev
Journal: Nucleic Acids Res Date: 1983-08-11 Impact factor: 16.971

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Authors: W Traub; J L Sussman
Journal: Nucleic Acids Res Date: 1982-04-24 Impact factor: 16.971

8. Deoxyguanosine-deoxyadenosine pairing in the d(C-G-A-G-A-A-T-T-C-G-C-G) duplex: conformation and dynamics at and adjacent to the dG X dA mismatch site.

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Journal: Biochemistry Date: 1984-07-03 Impact factor: 3.162

9. Detection of a guanine X adenine base pair in a decadeoxyribonucleotide by proton magnetic resonance spectroscopy.

Authors: L S Kan; S Chandrasegaran; S M Pulford; P S Miller
Journal: Proc Natl Acad Sci U S A Date: 1983-07 Impact factor: 11.205

10. Methyl-directed repair of DNA base-pair mismatches in vitro.

Authors: A L Lu; S Clark; P Modrich
Journal: Proc Natl Acad Sci U S A Date: 1983-08 Impact factor: 11.205

13 in total

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Authors: María V Borgogno; Mariela R Monti; Weixing Zhao; Patrick Sung; Carlos E Argaraña; Roberto J Pezza
Journal: J Biol Chem Date: 2015-12-26 Impact factor: 5.157

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Authors: A N Lane; T C Jenkins; D J Brown; T Brown
Journal: Biochem J Date: 1991-10-01 Impact factor: 3.857

3. "...the tyranny of the lattice...".

Authors: R E Dickerson; D S Goodsell; S Neidle
Journal: Proc Natl Acad Sci U S A Date: 1994-04-26 Impact factor: 11.205

4. A systematic method for studying the spatial distribution of water molecules around nucleic acid bases.

Authors: B Schneider; D M Cohen; L Schleifer; A R Srinivasan; W K Olson; H M Berman
Journal: Biophys J Date: 1993-12 Impact factor: 4.033

5. Recurrent RNA motifs as probes for studying RNA-protein interactions in the ribosome.

Authors: Matthieu G Gagnon; Yury I Boutorine; Sergey V Steinberg
Journal: Nucleic Acids Res Date: 2010-02-05 Impact factor: 16.971

6. DNA methylation by N-methyl-N-nitrosourea: methylation pattern changes in single- and double-stranded DNA, and in DNA with mismatched or bulged guanines.

Authors: R L Wurdeman; M C Douskey; B Gold
Journal: Nucleic Acids Res Date: 1993-10-25 Impact factor: 16.971

7. Cleavage of fragments containing DNA mismatches by enzymic and chemical probes.

Authors: James Brown; Tom Brown; Keith R Fox
Journal: Biochem J Date: 2003-05-01 Impact factor: 3.857

8. Synthesis and characterization of 8-methoxy-2'- deoxyadenosine-containing oligonucleotides to probe the syn glycosidic conformation of 2'-deoxyadenosine within DNA.

Authors: R G Eason; D M Burkhardt; S J Phillips; D P Smith; S S David
Journal: Nucleic Acids Res Date: 1996-03-01 Impact factor: 16.971

9. Tetraplex folding of telomere sequences and the inclusion of adenine bases.

Authors: A I Murchie; D M Lilley
Journal: EMBO J Date: 1994-02-15 Impact factor: 11.598

10. Alternating d(GA)n DNA sequences form antiparallel stranded homoduplexes stabilized by the formation of G.A base pairs.

Authors: D Huertas; L Bellsolell; J M Casasnovas; M Coll; F Azorín
Journal: EMBO J Date: 1993-10 Impact factor: 11.598