1k2k: Difference between revisions

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[[Image:1k2k.gif|left|200px]]<br /><applet load="1k2k" size="~~450~~" color="white" frame="true" align="right" spinBox="true"

[[Image:1k2k.gif|left|200px]]<br /><applet load="1k2k" size="350" color="white" frame="true" align="right" spinBox="true"

caption="1k2k" />

'''NMR MINIMIZED AVERAGE STRUCTURE OF d(CGTACG)2'''<br />

==Overview==

Solution structures and base pair stacking of a self- complementary DNA, hexamer d(CGTACG)(2) have been studied at 5, 10 and 15 degrees C, respectively. The stacking interactions among the center base pair steps, of the DNA duplex are found to improve when the terminal base pairs became, less stable due to end fraying. A new structural quantity, the stacking, sum (Sigma(s)), is introduced to indicate small changes in the stacking, overlaps between base pairs. The improvements in the stacking overlaps to, maintain the double helical conformation are probably the cause for the, observed temperature dependent structural changes in double helical DNA, molecule. A detailed analysis of the helical parameters, backbone torsion, angles, base orientations and sugar conformations of these structures has, been performed.

Solution structures and base pair stacking of a self- complementary DNA hexamer d(CGTACG)(2) have been studied at 5, 10 and 15 degrees C, respectively. The stacking interactions among the center base pair steps of the DNA duplex are found to improve when the terminal base pairs became less stable due to end fraying. A new structural quantity, the stacking sum (Sigma(s)), is introduced to indicate small changes in the stacking overlaps between base pairs. The improvements in the stacking overlaps to maintain the double helical conformation are probably the cause for the observed temperature dependent structural changes in double helical DNA molecule. A detailed analysis of the helical parameters, backbone torsion angles, base orientations and sugar conformations of these structures has been performed.

==About this Structure==

1K2K 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=1K2K OCA].

1K2K 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=1K2K OCA].

==Reference==

Low temperature solution structures and base pair stacking of double helical d(CGTACG)(2)., Lam SL, Ip LN, J Biomol Struct Dyn. 2002 Apr;19(5):907-17. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=11922844 11922844]

[[Category: Protein complex]]

[[Category: Ip, L.N.]]

[[Category: Ip, L N.]]

[[Category: Lam, S.L.]]

[[Category: Lam, S L.]]

[[Category: self-complementary dna]]

''Page seeded by [http://~~ispc~~.weizmann.ac.il/oca OCA ] on ~~Sun Nov 25 00~~:37:~~45 2007~~''

''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 13:29:28 2008''

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@@ Line 1: / Line 1: @@
-[[Image:1k2k.gif|left|200px]]<br /><applet load="1k2k" size="450" color="white" frame="true" align="right" spinBox="true"
+[[Image:1k2k.gif|left|200px]]<br /><applet load="1k2k" size="350" color="white" frame="true" align="right" spinBox="true"
 caption="1k2k" />
 '''NMR MINIMIZED AVERAGE STRUCTURE OF d(CGTACG)2'''<br />
 ==Overview==
-Solution structures and base pair stacking of a self- complementary DNA, hexamer d(CGTACG)(2) have been studied at 5, 10 and 15 degrees C, respectively. The stacking interactions among the center base pair steps, of the DNA duplex are found to improve when the terminal base pairs became, less stable due to end fraying. A new structural quantity, the stacking, sum (Sigma(s)), is introduced to indicate small changes in the stacking, overlaps between base pairs. The improvements in the stacking overlaps to, maintain the double helical conformation are probably the cause for the, observed temperature dependent structural changes in double helical DNA, molecule. A detailed analysis of the helical parameters, backbone torsion, angles, base orientations and sugar conformations of these structures has, been performed.
+Solution structures and base pair stacking of a self- complementary DNA hexamer d(CGTACG)(2) have been studied at 5, 10 and 15 degrees C, respectively. The stacking interactions among the center base pair steps of the DNA duplex are found to improve when the terminal base pairs became less stable due to end fraying. A new structural quantity, the stacking sum (Sigma(s)), is introduced to indicate small changes in the stacking overlaps between base pairs. The improvements in the stacking overlaps to maintain the double helical conformation are probably the cause for the observed temperature dependent structural changes in double helical DNA molecule. A detailed analysis of the helical parameters, backbone torsion angles, base orientations and sugar conformations of these structures has been performed.
 ==About this Structure==
-K2K 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=1K2K OCA].
+K2K 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=1K2K OCA].
 ==Reference==
 Low temperature solution structures and base pair stacking of double helical d(CGTACG)(2)., Lam SL, Ip LN, J Biomol Struct Dyn. 2002 Apr;19(5):907-17. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=11922844 11922844]
 [[Category: Protein complex]]
-[[Category: Ip, L.N.]]
+[[Category: Ip, L N.]]
-[[Category: Lam, S.L.]]
+[[Category: Lam, S L.]]
 [[Category: self-complementary dna]]
-''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Sun Nov 25 00:37:45 2007''
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 13:29:28 2008''