1k2j
From Proteopedia
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|PDB= 1k2j |SIZE=350|CAPTION= <scene name='initialview01'>1k2j</scene> | |PDB= 1k2j |SIZE=350|CAPTION= <scene name='initialview01'>1k2j</scene> | ||
|SITE= | |SITE= | ||
| - | |LIGAND= | + | |LIGAND= <scene name='pdbligand=DA:2'-DEOXYADENOSINE-5'-MONOPHOSPHATE'>DA</scene>, <scene name='pdbligand=DC:2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE'>DC</scene>, <scene name='pdbligand=DG:2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE'>DG</scene>, <scene name='pdbligand=DT:THYMIDINE-5'-MONOPHOSPHATE'>DT</scene> |
|ACTIVITY= | |ACTIVITY= | ||
|GENE= | |GENE= | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY=[[1k2k|1K2K]] | ||
| + | |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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[[Category: self-complementary dna]] | [[Category: self-complementary dna]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 21:42:29 2008'' |
Revision as of 18:42, 30 March 2008
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| Ligands: | , , , | ||||||
| Related: | 1K2K
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| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
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
1K2J is a Protein complex structure of sequences from [1]. 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
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