1k2j

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[[Image:1k2j.gif|left|200px]]
[[Image:1k2j.gif|left|200px]]
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{{Structure
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<!--
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|PDB= 1k2j |SIZE=350|CAPTION= <scene name='initialview01'>1k2j</scene>
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The line below this paragraph, containing "STRUCTURE_1k2j", creates the "Structure Box" on the page.
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|SITE=
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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|LIGAND= <scene name='pdbligand=DA:2&#39;-DEOXYADENOSINE-5&#39;-MONOPHOSPHATE'>DA</scene>, <scene name='pdbligand=DC:2&#39;-DEOXYCYTIDINE-5&#39;-MONOPHOSPHATE'>DC</scene>, <scene name='pdbligand=DG:2&#39;-DEOXYGUANOSINE-5&#39;-MONOPHOSPHATE'>DG</scene>, <scene name='pdbligand=DT:THYMIDINE-5&#39;-MONOPHOSPHATE'>DT</scene>
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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|ACTIVITY=
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or leave the SCENE parameter empty for the default display.
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|GENE=
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|DOMAIN=
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{{STRUCTURE_1k2j| PDB=1k2j | SCENE= }}
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|RELATEDENTRY=[[1k2k|1K2K]]
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1k2j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1k2j OCA], [http://www.ebi.ac.uk/pdbsum/1k2j PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1k2j RCSB]</span>
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}}
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'''NMR MINIMIZED AVERAGE STRUCTURE OF d(CGTACG)2'''
'''NMR MINIMIZED AVERAGE STRUCTURE OF d(CGTACG)2'''
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==About this Structure==
==About this Structure==
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1K2J is a [[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=1K2J OCA].
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Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1K2J OCA].
==Reference==
==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://www.ncbi.nlm.nih.gov/pubmed/11922844 11922844]
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://www.ncbi.nlm.nih.gov/pubmed/11922844 11922844]
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[[Category: Protein complex]]
 
[[Category: Ip, L N.]]
[[Category: Ip, L N.]]
[[Category: Lam, S L.]]
[[Category: Lam, S L.]]
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[[Category: self-complementary dna]]
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[[Category: Self-complementary dna]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 22:13:18 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 21:42:29 2008''
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Revision as of 19:13, 2 May 2008

Image:1k2j.gif

Template:STRUCTURE 1k2j

NMR MINIMIZED AVERAGE STRUCTURE OF d(CGTACG)2


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.

About this Structure

Full crystallographic information is available from 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:11922844 Page seeded by OCA on Fri May 2 22:13:18 2008

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