1d93
From Proteopedia
(New page: 200px<br /><applet load="1d93" size="450" color="white" frame="true" align="right" spinBox="true" caption="1d93, resolution 2.150Å" /> '''STRUCTURAL VARIATIO...) |
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| - | [[Image:1d93.gif|left|200px]]<br /><applet load="1d93" size=" | + | [[Image:1d93.gif|left|200px]]<br /><applet load="1d93" size="350" color="white" frame="true" align="right" spinBox="true" |
caption="1d93, resolution 2.150Å" /> | caption="1d93, resolution 2.150Å" /> | ||
'''STRUCTURAL VARIATION IN D(CTCTAGAG). IMPLICATIONS FOR PROTEIN-DNA INTERACTIONS'''<br /> | '''STRUCTURAL VARIATION IN D(CTCTAGAG). IMPLICATIONS FOR PROTEIN-DNA INTERACTIONS'''<br /> | ||
==Overview== | ==Overview== | ||
| - | Single-crystal X-ray diffraction techniques have been used to characterize | + | Single-crystal X-ray diffraction techniques have been used to characterize the structure of the self-complementary DNA oligomer d(CTCTAGAG). The structure was refined to an R factor of 14.7% using data to 2.15-A resolution. The tetragonal unit cell, space group P4(3)2(1)2, has dimensions a = 42.53 and c = 24.33 A. The asymmetric unit consists of a single strand or four base pairs. Two strands, related by a crystallographic dyad axis, coil about each other to form a right-handed duplex. This octamer duplex has a mean helix rotation of 32 degrees, 11.3 base pairs per turn, an average rise of 3.1 A, C3'-endo furanose conformations, a shallow minor groove, and a deep major groove. Such averaged parameters suggest classification of the octamer as a member of the A-DNA family. However, the global parameters tend to mask variations in conformational parameters observed at the level of the base pairs. In particular, the central TpA (= TpA) step displays extensive interstrand purine-purine overlap and an unusual sugar-phosphate backbone conformation. These structural features may be directly related to certain sequence-specific protein-DNA interactions involving nucleases and repressors. |
==About this Structure== | ==About this Structure== | ||
| - | 1D93 is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http:// | + | 1D93 is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1D93 OCA]. |
==Reference== | ==Reference== | ||
Structural variation in d(CTCTAGAG). Implications for protein-DNA interactions., Hunter WN, D'Estaintot BL, Kennard O, Biochemistry. 1989 Mar 21;28(6):2444-51. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=2730875 2730875] | Structural variation in d(CTCTAGAG). Implications for protein-DNA interactions., Hunter WN, D'Estaintot BL, Kennard O, Biochemistry. 1989 Mar 21;28(6):2444-51. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=2730875 2730875] | ||
[[Category: Protein complex]] | [[Category: Protein complex]] | ||
| - | [[Category: Estaintot, B | + | [[Category: Estaintot, B Langlois D.]] |
| - | [[Category: Hunter, W | + | [[Category: Hunter, W N.]] |
[[Category: Kennard, O.]] | [[Category: Kennard, O.]] | ||
[[Category: a-dna]] | [[Category: a-dna]] | ||
[[Category: double helix]] | [[Category: double helix]] | ||
| - | ''Page seeded by [http:// | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 12:14:14 2008'' |
Revision as of 10:14, 21 February 2008
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STRUCTURAL VARIATION IN D(CTCTAGAG). IMPLICATIONS FOR PROTEIN-DNA INTERACTIONS
Overview
Single-crystal X-ray diffraction techniques have been used to characterize the structure of the self-complementary DNA oligomer d(CTCTAGAG). The structure was refined to an R factor of 14.7% using data to 2.15-A resolution. The tetragonal unit cell, space group P4(3)2(1)2, has dimensions a = 42.53 and c = 24.33 A. The asymmetric unit consists of a single strand or four base pairs. Two strands, related by a crystallographic dyad axis, coil about each other to form a right-handed duplex. This octamer duplex has a mean helix rotation of 32 degrees, 11.3 base pairs per turn, an average rise of 3.1 A, C3'-endo furanose conformations, a shallow minor groove, and a deep major groove. Such averaged parameters suggest classification of the octamer as a member of the A-DNA family. However, the global parameters tend to mask variations in conformational parameters observed at the level of the base pairs. In particular, the central TpA (= TpA) step displays extensive interstrand purine-purine overlap and an unusual sugar-phosphate backbone conformation. These structural features may be directly related to certain sequence-specific protein-DNA interactions involving nucleases and repressors.
About this Structure
1D93 is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
Reference
Structural variation in d(CTCTAGAG). Implications for protein-DNA interactions., Hunter WN, D'Estaintot BL, Kennard O, Biochemistry. 1989 Mar 21;28(6):2444-51. PMID:2730875
Page seeded by OCA on Thu Feb 21 12:14:14 2008
