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| | {{STRUCTURE_1d13| PDB=1d13 | SCENE= }} | | {{STRUCTURE_1d13| PDB=1d13 | SCENE= }} |
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| - | '''MOLECULAR STRUCTURE OF AN A-DNA DECAMER D(ACCGGCCGGT)'''
| + | ===MOLECULAR STRUCTURE OF AN A-DNA DECAMER D(ACCGGCCGGT)=== |
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| - | ==Overview==
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| - | The molecular structure of the DNA decamer d(ACCGGCCGGT) has been solved and refined by single-crystal X-ray-diffraction analysis at 0.20 nm to a final R-factor of 18.0%. The decamer crystallizes as an A-DNA double helical fragment with unit-cell dimensions of a = b = 3.923 nm and c = 7.80 nm in the space group P6(1)22. The overall conformation of this A-DNA decamer is very similar to that of the fiber model for A-DNA which has a large average base-pair tilt and hence a wide and shallow minor groove. This structure is in contrast to that of several A-DNA octamers in which the molecules all have low base-pair-tilt angles (8-12 degrees) resulting in an appearance intermediate between B-DNA and A-DNA. The average helical parameters of this decamer are typical of A-DNA with 10.9 base pairs/turn of helix, an average helical twist angle of 33.1 degrees, and a base-pair-tilt angle of 18.2 degrees. However, the CpG step in this molecule has a low local-twist angle of 24.5 degrees, similar to that seen in other A-DNA oligomers, and therefore appears to be an intrinsic stacking pattern for this step. The molecules pack in the crystal using a recurring binding motif, namely, the terminal base pair of one helix abuts the surface of the shallow minor groove of another helix. In addition, the GC base pairs have large propeller-twist angles, unlike those found most other A-DNA structures.
| + | The line below this paragraph, {{ABSTRACT_PUBMED_2714286}}, adds the Publication Abstract to the page |
| | + | (as it appears on PubMed at http://www.pubmed.gov), where 2714286 is the PubMed ID number. |
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| | + | {{ABSTRACT_PUBMED_2714286}} |
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| | ==About this Structure== | | ==About this Structure== |
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| | [[Category: A-dna]] | | [[Category: A-dna]] |
| | [[Category: Double helix]] | | [[Category: Double helix]] |
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 13:19:54 2008'' | + | |
| | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jun 30 22:01:00 2008'' |
Revision as of 19:01, 30 June 2008
Template:STRUCTURE 1d13
MOLECULAR STRUCTURE OF AN A-DNA DECAMER D(ACCGGCCGGT)
Template:ABSTRACT PUBMED 2714286
About this Structure
Full crystallographic information is available from OCA.
Reference
Molecular structure of an A-DNA decamer d(ACCGGCCGGT)., Frederick CA, Quigley GJ, Teng MK, Coll M, Van der Marel GA, Van Boom JH, Rich A, Wang AH, Eur J Biochem. 1989 May 1;181(2):295-307. PMID:2714286
Page seeded by OCA on Mon Jun 30 22:01:00 2008
