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| - | [[Image:251d.jpg|left|200px]] | |
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| - | <!--
| + | ==SINGLE CRYSTAL AND MOLECULAR STRUCTURE OF D(CTCGAG)== |
| - | The line below this paragraph, containing "STRUCTURE_251d", creates the "Structure Box" on the page.
| + | <StructureSection load='251d' size='340' side='right'caption='[[251d]], [[Resolution|resolution]] 1.90Å' scene=''> |
| - | You may change the PDB parameter (which sets the PDB file loaded into the applet)
| + | == Structural highlights == |
| - | or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
| + | <table><tr><td colspan='2'>[[251d]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=251D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=251D FirstGlance]. <br> |
| - | or leave the SCENE parameter empty for the default display.
| + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.9Å</td></tr> |
| - | -->
| + | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=251d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=251d OCA], [https://pdbe.org/251d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=251d RCSB], [https://www.ebi.ac.uk/pdbsum/251d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=251d ProSAT]</span></td></tr> |
| - | {{STRUCTURE_251d| PDB=251d | SCENE= }}
| + | </table> |
| - | | + | __TOC__ |
| - | '''SINGLE CRYSTAL AND MOLECULAR STRUCTURE OF D(CTCGAG)'''
| + | </StructureSection> |
| - | | + | [[Category: Large Structures]] |
| - | | + | [[Category: Rao ST]] |
| - | ==Overview== | + | [[Category: Sundaralingam M]] |
| - | The crystal structure of the B-DNA hexamer d(CTCGAG) has been solved at 1.9 A resolution by iterative single isomorphous replacement, using the brominated derivative d(CG5BrCGAG), and refined to an R-factor of 18.6% for 120 nonhydrogen nucleic acid atoms and 32 water molecules. Although the central four base pairs form a typical B-form helix, several parameters suggest a transition to an A-like conformation at the termini. Based on this observation, a B-to-A transition was modeled, maintaining efficient base stacking across the junction. The wide minor groove (approximately 6.9 A) is reminiscent of that in the side-by-side double drug-DNA complexes and hosts a double spine of hydration. The global helix axes of the pseudo-continuous helices are at an acute angle of 60 degrees. The pseudocontinuous stacking is reinforced by the minor groove water structure extending between the two duplexes. The crossover point of two pairs of stacked duplexes is at the stacking junction, unlike that observed in the B-DNA decamers and dodecamers. This arrangement may have implications for the structure of a four-way DNA junction. The duplexes are arranged around a large (approximately 20 A diameter) channel centered on a 6(2) screw axis.
| + | [[Category: Wahl MC]] |
| - | | + | |
| - | ==About this Structure== | + | |
| - | Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=251D OCA]. | + | |
| - | | + | |
| - | ==Reference== | + | |
| - | Crystal structure of the B-DNA hexamer d(CTCGAG): model for an A-to-B transition., Wahl MC, Rao ST, Sundaralingam M, Biophys J. 1996 Jun;70(6):2857-66. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/8744323 8744323]
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| - | [[Category: Rao, S T.]] | + | |
| - | [[Category: Sundaralingam, M.]] | + | |
| - | [[Category: Wahl, M C.]] | + | |
| - | [[Category: A-dna like conformation at termini]] | + | |
| - | [[Category: B-dna]] | + | |
| - | [[Category: Double helix]] | + | |
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May 3 18:23:09 2008''
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