1uhx
From Proteopedia
(New page: 200px<br /><applet load="1uhx" size="450" color="white" frame="true" align="right" spinBox="true" caption="1uhx, resolution 2.0Å" /> '''Crystal structure of ...) |
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- | [[Image:1uhx.gif|left|200px]]<br /><applet load="1uhx" size=" | + | [[Image:1uhx.gif|left|200px]]<br /><applet load="1uhx" size="350" color="white" frame="true" align="right" spinBox="true" |
caption="1uhx, resolution 2.0Å" /> | caption="1uhx, resolution 2.0Å" /> | ||
'''Crystal structure of d(GCGAGAGC): the base-intercalated duplex'''<br /> | '''Crystal structure of d(GCGAGAGC): the base-intercalated duplex'''<br /> | ||
==Overview== | ==Overview== | ||
- | DNA fragments containing the sequence d(GCGAAAGC) prefer to adopt a | + | DNA fragments containing the sequence d(GCGAAAGC) prefer to adopt a base-intercalated (zipper-like) duplex in the crystalline state. To investigate effects of point mutation at the 5th residue on the structure, two crystal structures of d(GCGAGAGC) and d(GCGATAGC) have been determined by X-ray crystallography. In the respective crystals, the two octamers related by a crystallographic two-fold symmetry are aligned in an anti-parallel fashion and associated to each other to form a duplex, suggesting that the base-intercalated duplex is stable even when the 5th residue is mutated with other bases. The sheared G3:A6 pair formation makes the two phosphate backbones closer and facilitates formation of the A-X*-X-A* base-intercalated motif. The three duplexes are assembled around the three-fold axis, and their 3rd and 4th residues are bound to the hexamine cobalt chloride. The central 5th residues are bound to another cation. |
==About this Structure== | ==About this Structure== | ||
- | 1UHX is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with MG, CL, NA and NCO as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http:// | + | 1UHX is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with <scene name='pdbligand=MG:'>MG</scene>, <scene name='pdbligand=CL:'>CL</scene>, <scene name='pdbligand=NA:'>NA</scene> and <scene name='pdbligand=NCO:'>NCO</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UHX OCA]. |
==Reference== | ==Reference== | ||
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[[Category: Sunami, T.]] | [[Category: Sunami, T.]] | ||
[[Category: Takenaka, A.]] | [[Category: Takenaka, A.]] | ||
- | [[Category: Umeda, S | + | [[Category: Umeda, S I.]] |
[[Category: CL]] | [[Category: CL]] | ||
[[Category: MG]] | [[Category: MG]] | ||
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[[Category: sheared g:a pair]] | [[Category: sheared g:a pair]] | ||
- | ''Page seeded by [http:// | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 15:24:40 2008'' |
Revision as of 13:24, 21 February 2008
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Crystal structure of d(GCGAGAGC): the base-intercalated duplex
Overview
DNA fragments containing the sequence d(GCGAAAGC) prefer to adopt a base-intercalated (zipper-like) duplex in the crystalline state. To investigate effects of point mutation at the 5th residue on the structure, two crystal structures of d(GCGAGAGC) and d(GCGATAGC) have been determined by X-ray crystallography. In the respective crystals, the two octamers related by a crystallographic two-fold symmetry are aligned in an anti-parallel fashion and associated to each other to form a duplex, suggesting that the base-intercalated duplex is stable even when the 5th residue is mutated with other bases. The sheared G3:A6 pair formation makes the two phosphate backbones closer and facilitates formation of the A-X*-X-A* base-intercalated motif. The three duplexes are assembled around the three-fold axis, and their 3rd and 4th residues are bound to the hexamine cobalt chloride. The central 5th residues are bound to another cation.
About this Structure
1UHX is a Protein complex structure of sequences from [1] with , , and as ligands. Full crystallographic information is available from OCA.
Reference
X-ray analyses of d(GCGAXAGC) containing G and T at X: the base-intercalated duplex is still stable even in point mutants at the fifth residue., Kondo J, Umeda S, Fujita K, Sunami T, Takenaka A, J Synchrotron Radiat. 2004 Jan 1;11(Pt 1):117-20. Epub 2003 Nov 28. PMID:14646150
Page seeded by OCA on Thu Feb 21 15:24:40 2008
Categories: Protein complex | Fujita, K. | Kondo, J. | Sunami, T. | Takenaka, A. | Umeda, S I. | CL | MG | NA | NCO | Base-intercalated duplex | Base-intercalated motif | Deoxyribonucleic acid | Dna | Sheared g:a pair