1ixj

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[[Image:1ixj.gif|left|200px]]
[[Image:1ixj.gif|left|200px]]
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{{Structure
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|PDB= 1ixj |SIZE=350|CAPTION= <scene name='initialview01'>1ixj</scene>, resolution 2.5&Aring;
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The line below this paragraph, containing "STRUCTURE_1ixj", creates the "Structure Box" on the page.
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{{STRUCTURE_1ixj| PDB=1ixj | SCENE= }}
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|RELATEDENTRY=
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ixj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ixj OCA], [http://www.ebi.ac.uk/pdbsum/1ixj PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1ixj RCSB]</span>
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'''Crystal Structure of d(GCGAAAGCT) Containing Parallel-stranded Duplex with Homo Base Pairs and Anti-Parallel Duplex with Watson-Crick Base pairs'''
'''Crystal Structure of d(GCGAAAGCT) Containing Parallel-stranded Duplex with Homo Base Pairs and Anti-Parallel Duplex with Watson-Crick Base pairs'''
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==About this Structure==
==About this Structure==
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1IXJ 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=1IXJ OCA].
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Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1IXJ OCA].
==Reference==
==Reference==
Crystal structure of d(GCGAAAGCT) containing a parallel-stranded duplex with homo base pairs and an anti-parallel duplex with Watson-Crick base pairs., Sunami T, Kondo J, Kobuna T, Hirao I, Watanabe K, Miura K, Takenaka A, Nucleic Acids Res. 2002 Dec 1;30(23):5253-60. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/12466550 12466550]
Crystal structure of d(GCGAAAGCT) containing a parallel-stranded duplex with homo base pairs and an anti-parallel duplex with Watson-Crick base pairs., Sunami T, Kondo J, Kobuna T, Hirao I, Watanabe K, Miura K, Takenaka A, Nucleic Acids Res. 2002 Dec 1;30(23):5253-60. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/12466550 12466550]
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[[Category: Protein complex]]
 
[[Category: Hirao, I.]]
[[Category: Hirao, I.]]
[[Category: Kobuna, T.]]
[[Category: Kobuna, T.]]
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[[Category: Takenaka, A.]]
[[Category: Takenaka, A.]]
[[Category: Watanabe, K.]]
[[Category: Watanabe, K.]]
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[[Category: homo base pair]]
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[[Category: Homo base pair]]
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[[Category: parallel dna]]
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[[Category: Parallel dna]]
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[[Category: parallel duplex]]
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[[Category: Parallel duplex]]
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[[Category: parallel-stranded helix]]
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[[Category: Parallel-stranded helix]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 20:32:54 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 21:26:08 2008''
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Revision as of 17:32, 2 May 2008

Image:1ixj.gif

Template:STRUCTURE 1ixj

Crystal Structure of d(GCGAAAGCT) Containing Parallel-stranded Duplex with Homo Base Pairs and Anti-Parallel Duplex with Watson-Crick Base pairs


Overview

A DNA fragment d(GCGAAAGCT), known to adopt a stable mini-hairpin structure in solution, has been crystallized in the space group I4(1)22 with the unit-cell dimensions a = b = 53.4 A and c = 54.0 A, and the crystal structure has been determined at 2.5 A resolution. The four nucleotide residues CGAA of the first half of the oligomer form a parallel duplex with another half through the homo base pairs, C2:C2+ (singly-protonated between the Watson- Crick sites), G3:G3 (between the minor groove sites), A4:A4 (between the major groove sites) and A5:A5 (between the Watson-Crick sites). The two strands remaining in the half of the parallel duplex are split away in different directions, and they pair in an anti-parallel B-form duplex with the second half extending from a neighboring parallel duplex, so that an infinite column is formed in a head-to-tail fashion along the c-axis. It seems that a hexa-ammine cobalt cation supports such a branched and bent conformation of the oligomer. One end of the parallel duplex is stacked on the corresponding end of the adjacent parallel duplex; between them, the guanine base of the first residue is stacked on the fourth ribose of another duplex.

About this Structure

Full crystallographic information is available from OCA.

Reference

Crystal structure of d(GCGAAAGCT) containing a parallel-stranded duplex with homo base pairs and an anti-parallel duplex with Watson-Crick base pairs., Sunami T, Kondo J, Kobuna T, Hirao I, Watanabe K, Miura K, Takenaka A, Nucleic Acids Res. 2002 Dec 1;30(23):5253-60. PMID:12466550 Page seeded by OCA on Fri May 2 20:32:54 2008

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