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| | {{STRUCTURE_1d81| PDB=1d81 | SCENE= }} | | {{STRUCTURE_1d81| PDB=1d81 | SCENE= }} |
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| - | '''THE CONFORMATIONAL VARIABILITY OF AN ADENOSINE. INOSINE BASE-PAIR IN A SYNTHETIC DNA DODECAMER'''
| + | ===THE CONFORMATIONAL VARIABILITY OF AN ADENOSINE. INOSINE BASE-PAIR IN A SYNTHETIC DNA DODECAMER=== |
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| - | ==Overview==
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| - | A crystal structure analysis of the synthetic deoxydodecamer d(CGCAAATTIGCG) which contains two adenosine.inosine (A.I) mispairs has revealed that, in this sequence, the A.I base-pairs adopt a A(anti).I(syn) configuration. The refinement converged at R = 0.158 for 2004 reflections with F greater than or equal to 2 sigma(F) in the range 7.0-2.5A for a model consisting of the DNA duplex and 71 water molecules. A notable feature of the structure is the presence of an almost complete spine of hydration spanning the minor groove of the whole of the (AAATTI)2 core region of the duplex. pH-dependent ultraviolet melting studies have suggested that the base-pair observed in the crystal structure is, in fact, a protonated AH+ (anti).I(syn) species and that the A.I base-pairs in the sequence studied display the same conformational variability as A.G mispairs in the sequence d(CGCAAATTGGCG). The AH+(anti).I(syn) base-pair predominates below pH 6.5 and an A(anti).I(anti) mispair is the major species present between pH 6.5 and 8.0. The protonated base-pairs are held together by two hydrogen bonds one between N6(A) and O6(I) and the other between N1(A) and N7(I). This second hydrogen bond is a direct result of the protonation of the N1 of adenosine. The ultraviolet melting studies indicate that the A(anti).I(anti) base-pair is more stable than the A(anti).G(anti) base-pair but that the AH+(anti).I(syn) base pair is less stable than its AH+(anti).G(syn) analogue. Possible reasons for this observation are discussed.
| + | The line below this paragraph, {{ABSTRACT_PUBMED_1408788}}, adds the Publication Abstract to the page |
| | + | (as it appears on PubMed at http://www.pubmed.gov), where 1408788 is the PubMed ID number. |
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| | + | {{ABSTRACT_PUBMED_1408788}} |
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| | ==About this Structure== | | ==About this Structure== |
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| | [[Category: Mismatched]] | | [[Category: Mismatched]] |
| | [[Category: Modified]] | | [[Category: Modified]] |
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 13:33:16 2008'' | + | |
| | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jun 30 22:39:08 2008'' |
Revision as of 19:39, 30 June 2008
Template:STRUCTURE 1d81
THE CONFORMATIONAL VARIABILITY OF AN ADENOSINE. INOSINE BASE-PAIR IN A SYNTHETIC DNA DODECAMER
Template:ABSTRACT PUBMED 1408788
About this Structure
Full crystallographic information is available from OCA.
Reference
The conformational variability of an adenosine.inosine base-pair in a synthetic DNA dodecamer., Leonard GA, Booth ED, Hunter WN, Brown T, Nucleic Acids Res. 1992 Sep 25;20(18):4753-9. PMID:1408788
Page seeded by OCA on Mon Jun 30 22:39:08 2008
