1ub8 - Revision history

OCA at 06:05, 5 July 2023

OCA — Wed, 05 Jul 2023 06:05:21 GMT

←Older revision		Revision as of 06:05, 5 July 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1ub8]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UB8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1UB8 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1ub8]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UB8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1UB8 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NCO:COBALT+HEXAMMINE(III)'>NCO</scene></td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 1.6Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NCO:COBALT+HEXAMMINE(III)'>NCO</scene></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=1ub8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ub8 OCA], [https://pdbe.org/1ub8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ub8 RCSB], [https://www.ebi.ac.uk/pdbsum/1ub8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ub8 ProSAT]</span></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=1ub8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ub8 OCA], [https://pdbe.org/1ub8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ub8 RCSB], [https://www.ebi.ac.uk/pdbsum/1ub8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ub8 ProSAT]</span></td></tr>
	</table>		</table>
Line 21:		Line 22:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Hirao, I]]	+	[[Category: Hirao I]]
-	[[Category: Kondo, J]]	+	[[Category: Kondo J]]
-	[[Category: Miura, K]]	+	[[Category: Miura K]]
-	[[Category: Sunami, T]]	+	[[Category: Sunami T]]
-	[[Category: Takenaka, A]]	+	[[Category: Takenaka A]]
-	[[Category: Watanabe, K]]	+	[[Category: Watanabe K]]
-	~~[[Category: Bulge-in duplex]]~~	+
-	~~[[Category: Dna]]~~	+
-	~~[[Category: G:axa:g crossing]]~~	+
-	~~[[Category: Sheared g:a pair~~]]	+

OCA at 09:39, 29 September 2021

OCA — Wed, 29 Sep 2021 09:39:14 GMT

←Older revision		Revision as of 09:39, 29 September 2021
Line 3:		Line 3:
	<StructureSection load='1ub8' size='340' side='right'caption='[[1ub8]], [[Resolution\|resolution]] 1.60Å' scene=''>		<StructureSection load='1ub8' size='340' side='right'caption='[[1ub8]], [[Resolution\|resolution]] 1.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1ub8]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UB8 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1UB8 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1ub8]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UB8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1UB8 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NCO:COBALT+HEXAMMINE(III)'>NCO</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NCO:COBALT+HEXAMMINE(III)'>NCO</scene></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1ub8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ub8 OCA], [~~http~~://pdbe.org/1ub8 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1ub8 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1ub8 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1ub8 ProSAT]</span></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=1ub8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ub8 OCA], [https://pdbe.org/1ub8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ub8 RCSB], [https://www.ebi.ac.uk/pdbsum/1ub8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ub8 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 14:12, 25 December 2019

OCA — Wed, 25 Dec 2019 14:12:05 GMT

←Older revision		Revision as of 14:12, 25 December 2019
Line 1:		Line 1:

	==Crystal structure of d(GCGAAGC), bending duplex with a bulge-in residue==		==Crystal structure of d(GCGAAGC), bending duplex with a bulge-in residue==
-	<StructureSection load='1ub8' size='340' side='right' caption='[[1ub8]], [[Resolution\|resolution]] 1.60Å' scene=''>	+	<StructureSection load='1ub8' size='340' side='right'caption='[[1ub8]], [[Resolution\|resolution]] 1.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1ub8]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UB8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1UB8 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1ub8]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UB8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1UB8 FirstGlance]. <br>
Line 20:		Line 20:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Hirao, I]]		[[Category: Hirao, I]]
	[[Category: Kondo, J]]		[[Category: Kondo, J]]

OCA at 09:00, 21 March 2018

OCA — Wed, 21 Mar 2018 09:00:38 GMT

←Older revision		Revision as of 09:00, 21 March 2018
Line 1:		Line 1:
		+
	==Crystal structure of d(GCGAAGC), bending duplex with a bulge-in residue==		==Crystal structure of d(GCGAAGC), bending duplex with a bulge-in residue==
	<StructureSection load='1ub8' size='340' side='right' caption='[[1ub8]], [[Resolution\|resolution]] 1.60Å' scene=''>		<StructureSection load='1ub8' size='340' side='right' caption='[[1ub8]], [[Resolution\|resolution]] 1.60Å' scene=''>
Line 4:		Line 5:
	<table><tr><td colspan='2'>[[1ub8]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UB8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1UB8 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1ub8]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UB8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1UB8 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NCO:COBALT+HEXAMMINE(III)'>NCO</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NCO:COBALT+HEXAMMINE(III)'>NCO</scene></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ub8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ub8 OCA], [http://pdbe.org/1ub8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1ub8 RCSB], [http://www.ebi.ac.uk/pdbsum/1ub8 PDBsum]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ub8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ub8 OCA], [http://pdbe.org/1ub8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1ub8 RCSB], [http://www.ebi.ac.uk/pdbsum/1ub8 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1ub8 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 07:22, 10 September 2015

OCA — Thu, 10 Sep 2015 07:22:32 GMT

←Older revision		Revision as of 07:22, 10 September 2015
Line 4:		Line 4:
	<table><tr><td colspan='2'>[[1ub8]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UB8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1UB8 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1ub8]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UB8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1UB8 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NCO:COBALT+HEXAMMINE(III)'>NCO</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NCO:COBALT+HEXAMMINE(III)'>NCO</scene></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ub8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ub8 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1ub8 RCSB], [http://www.ebi.ac.uk/pdbsum/1ub8 PDBsum]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ub8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ub8 OCA], [http://pdbe.org/1ub8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1ub8 RCSB], [http://www.ebi.ac.uk/pdbsum/1ub8 PDBsum]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 14:		Line 14:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 1ub8" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 22:09, 3 January 2015

OCA — Sat, 03 Jan 2015 22:09:57 GMT

←Older revision		Revision as of 22:09, 3 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1ub8]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UB8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1UB8 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1ub8]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UB8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1UB8 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NCO:COBALT+HEXAMMINE(III)'>NCO</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NCO:COBALT+HEXAMMINE(III)'>NCO</scene></td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ub8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ub8 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1ub8 RCSB], [http://www.ebi.ac.uk/pdbsum/1ub8 PDBsum]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ub8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ub8 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1ub8 RCSB], [http://www.ebi.ac.uk/pdbsum/1ub8 PDBsum]</span></td></tr>
-	<table>	+	</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 18:		Line 18:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Hirao, I.]]	+	[[Category: Hirao, I]]
-	[[Category: Kondo, J.]]	+	[[Category: Kondo, J]]
-	[[Category: Miura, K.]]	+	[[Category: Miura, K]]
-	[[Category: Sunami, T.]]	+	[[Category: Sunami, T]]
-	[[Category: Takenaka, A.]]	+	[[Category: Takenaka, A]]
-	[[Category: Watanabe, K.]]	+	[[Category: Watanabe, K]]
	[[Category: Bulge-in duplex]]		[[Category: Bulge-in duplex]]
	[[Category: Dna]]		[[Category: Dna]]
	[[Category: G:axa:g crossing]]		[[Category: G:axa:g crossing]]
	[[Category: Sheared g:a pair]]		[[Category: Sheared g:a pair]]

OCA at 07:10, 9 June 2014

OCA — Mon, 09 Jun 2014 07:10:13 GMT

←Older revision		Revision as of 07:10, 9 June 2014
Line 1:		Line 1:
-	[[~~Image:~~1ub8.~~png~~\|~~left\|200px~~]]	+	==Crystal structure of d(GCGAAGC), bending duplex with a bulge-in residue==
		+	<StructureSection load='1ub8' size='340' side='right' caption='[[1ub8]], [[Resolution\|resolution]] 1.60Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1ub8]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UB8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1UB8 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NCO:COBALT+HEXAMMINE(III)'>NCO</scene><br>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ub8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ub8 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1ub8 RCSB], [http://www.ebi.ac.uk/pdbsum/1ub8 PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The DNA fragments d(GCGAAGC) and d(GCGAAAGC) are known to exhibit several extraordinary properties. Their crystal structures have been determined at 1.6 and 1.65 A resolution, respectively. Two heptamers aligned in an antiparallel fashion associate to form a duplex having molecular twofold symmetry. In the crystallographic asymmetric unit, there are three structurally identical duplexes. At both ends of each duplex, two Watson-Crick G.C pairs constitute the stem regions. In the central part, two sheared G.A pairs are crossed and stacked on each other, so that the stacked two guanine bases of the G.AxA.G crossing expose their Watson-Crick and major-groove sites into solvent, suggesting a functional role. The adenine moieties of the A(5) residues are inside the duplex, wedged between the A(4) and G(6) residues, but there are no partners for interactions. To close the open space on the counter strand, the duplex is strongly bent. In the asymmetric unit of the d(GCGAAAGC) crystal (tetragonal form), there is only one octamer chain. However, the two chains related by the crystallographic twofold symmetry associate to form an antiparallel duplex, similar to the base-intercalated duplex found in the hexagonal crystal form of the octamer. It is interesting to note that the significant difference between the present bulge-in structure of d(GCGAAGC) and the base-intercalated duplex of d(GCGAAAGC) can be ascribed to a switching of partners of the sheared G.A pairs.

-	~~{{STRUCTURE_1ub8\| PDB=1ub8 \| SCENE= }}~~	+	Structures of d(GCGAAGC) and d(GCGAAAGC) (tetragonal form): a switching of partners of the sheared G.A pairs to form a functional G.AxA.G crossing.,Sunami T, Kondo J, Hirao I, Watanabe K, Miura K, Takenaka A Acta Crystallogr D Biol Crystallogr. 2004 Mar;60(Pt 3):422-31. Epub 2004, Feb 25. PMID:14993665<ref>PMID:14993665</ref>

-	~~===Crystal structure of d(GCGAAGC)~~, ~~bending duplex with~~ a ~~bulge-in residue===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_14993665}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[1ub8]] is a 6 chain structure~~. ~~Full crystallographic information is available from [http://oca~~.~~weizmann~~.~~ac.il~~/~~oca-bin/ocashort?id=1UB8 OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:014993665<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Hirao, I.]]		[[Category: Hirao, I.]]
	[[Category: Kondo, J.]]		[[Category: Kondo, J.]]

OCA: Protected "1ub8" [edit=sysop:move=sysop]

OCA — Tue, 14 Aug 2012 16:45:13 GMT

Protected "1ub8" [edit=sysop:move=sysop]

←Older revision

Revision as of 16:45, 14 August 2012

OCA at 16:45, 14 August 2012

OCA — Tue, 14 Aug 2012 16:45:12 GMT

←Older revision		Revision as of 16:45, 14 August 2012
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-	{{Seed}}
	[[Image:1ub8.png\|left\|200px]]		[[Image:1ub8.png\|left\|200px]]

-	<!--
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	{{STRUCTURE_1ub8\| PDB=1ub8 \| SCENE= }}		{{STRUCTURE_1ub8\| PDB=1ub8 \| SCENE= }}

	===Crystal structure of d(GCGAAGC), bending duplex with a bulge-in residue===		===Crystal structure of d(GCGAAGC), bending duplex with a bulge-in residue===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_14993665}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 14993665 is the PubMed ID number.
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	{{ABSTRACT_PUBMED_14993665}}		{{ABSTRACT_PUBMED_14993665}}

	==About this Structure==		==About this Structure==
-	Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UB8 OCA].	+	[[1ub8]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UB8 OCA].

	==Reference==		==Reference==
-	Structures of d(GCGAAGC) and d(GCGAAAGC) (tetragonal form): a switching of partners of the sheared G.A pairs to form a functional G.AxA.G crossing., Sunami T, Kondo J, Hirao I, Watanabe K, Miura K, Takenaka A, Acta Crystallogr D Biol Crystallogr. 2004 Mar;60(Pt 3):422-31. Epub 2004, Feb 25. PMID:~~[http://www.ncbi.nlm.nih.gov~~/~~pubmed~~/~~14993665 14993665]~~	+	<ref group="xtra">PMID:014993665</ref><references group="xtra"/>
	[[Category: Hirao, I.]]		[[Category: Hirao, I.]]
	[[Category: Kondo, J.]]		[[Category: Kondo, J.]]
Line 34:		Line 22:
	[[Category: G:axa:g crossing]]		[[Category: G:axa:g crossing]]
	[[Category: Sheared g:a pair]]		[[Category: Sheared g:a pair]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Jul 27 22:31:45 2008''

OCA at 19:31, 27 July 2008

OCA — Sun, 27 Jul 2008 19:31:51 GMT

←Older revision		Revision as of 19:31, 27 July 2008
Line 1:		Line 1:
-	[[Image:1ub8.~~gif~~\|left\|200px]]	+	{{Seed}}
		+	[[Image:1ub8.png\|left\|200px]]

	<!--		<!--
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	{{STRUCTURE_1ub8\| PDB=1ub8 \| SCENE= }}		{{STRUCTURE_1ub8\| PDB=1ub8 \| SCENE= }}

-	~~'''~~Crystal structure of d(GCGAAGC), bending duplex with a bulge-in residue~~'''~~	+	===Crystal structure of d(GCGAAGC), bending duplex with a bulge-in residue===


-	~~==Overview==~~	+	<!--
-	The ~~DNA fragments d(GCGAAGC) and d(GCGAAAGC) are known to exhibit several extraordinary properties. Their crystal structures have been determined at 1.6 and 1.65 A resolution~~, ~~respectively. Two heptamers aligned in an antiparallel fashion associate to form a duplex having molecular twofold symmetry. In the crystallographic asymmetric unit~~, ~~there are three structurally identical duplexes. At both ends of each duplex, two Watson-Crick G.C pairs constitute~~ the ~~stem regions. In~~ the ~~central part, two sheared G.A pairs are crossed and stacked~~ on ~~each other, so that the stacked two guanine bases of the G~~.~~AxA~~.~~G crossing expose their Watson-Crick and major-groove sites into solvent, suggesting a functional role. The adenine moieties of the A(5~~) ~~residues are inside the duplex~~, ~~wedged between the A(4) and G(6) residues, but there are no partners for interactions. To close the open space on the counter strand, the duplex~~ is ~~strongly bent. In~~ the ~~asymmetric unit of the d(GCGAAAGC) crystal (tetragonal form), there is only one octamer chain~~. ~~However, the two chains related by the crystallographic twofold symmetry associate to form an antiparallel duplex, similar to the base~~-~~intercalated duplex found in the hexagonal crystal form of the octamer. It is interesting to note that the significant difference between the present bulge~~-~~in structure of d(GCGAAGC) and the base-intercalated duplex of d(GCGAAAGC) can be ascribed to a switching of partners of the sheared G.A pairs.~~	+	The line below this paragraph, {{ABSTRACT_PUBMED_14993665}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 14993665 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_14993665}}

	==About this Structure==		==About this Structure==
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	[[Category: G:axa:g crossing]]		[[Category: G:axa:g crossing]]
	[[Category: Sheared g:a pair]]		[[Category: Sheared g:a pair]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sat May 3 10~~:59:37 2008''	+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Jul 27 22:31:45 2008''