1d93: Difference between revisions

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[[Image:1d93.gif|left|200px]]<br /><applet load="1d93" size="~~450~~" color="white" frame="true" align="right" spinBox="true"

[[Image:1d93.gif|left|200px]]<br /><applet load="1d93" size="350" color="white" frame="true" align="right" spinBox="true"

caption="1d93, resolution 2.150Å" />

'''STRUCTURAL VARIATION IN D(CTCTAGAG). IMPLICATIONS FOR PROTEIN-DNA INTERACTIONS'''<br />

==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.

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 [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://~~ispc~~.weizmann.ac.il/oca-bin/ocashort?id=1D93 OCA].

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==

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: Estaintot, B.Langlois.D.]]

[[Category: Estaintot, B Langlois D.]]

[[Category: Hunter, W.N.]]

[[Category: Hunter, W N.]]

[[Category: Kennard, O.]]

[[Category: a-dna]]

[[Category: double helix]]

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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 12:14:14 2008''

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@@ Line 1: / Line 1: @@
-[[Image:1d93.gif|left|200px]]<br /><applet load="1d93" size="450" color="white" frame="true" align="right" spinBox="true"
+[[Image:1d93.gif|left|200px]]<br /><applet load="1d93" size="350" color="white" frame="true" align="right" spinBox="true"
 caption="1d93, resolution 2.150&Aring;" />
 '''STRUCTURAL VARIATION IN D(CTCTAGAG). IMPLICATIONS FOR PROTEIN-DNA INTERACTIONS'''<br />
 ==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.
+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==
-D93 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://ispc.weizmann.ac.il/oca-bin/ocashort?id=1D93 OCA].
+D93 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==
 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: Estaintot, B.Langlois.D.]]
+[[Category: Estaintot, B Langlois D.]]
-[[Category: Hunter, W.N.]]
+[[Category: Hunter, W N.]]
 [[Category: Kennard, O.]]
 [[Category: a-dna]]
 [[Category: double helix]]
-''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Sun Nov 25 02:47:34 2007''
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 12:14:14 2008''