2bna - Revision history

OCA at 09:17, 14 February 2024

2024-02-14T09:17:18Z

←Older revision		Revision as of 09:17, 14 February 2024
Line 7:		Line 7:
	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2bna FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bna OCA], [https://pdbe.org/2bna PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2bna RCSB], [https://www.ebi.ac.uk/pdbsum/2bna PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2bna 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=2bna FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bna OCA], [https://pdbe.org/2bna PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2bna RCSB], [https://www.ebi.ac.uk/pdbsum/2bna PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2bna ProSAT]</span></td></tr>
	</table>		</table>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The crystal structure of the B-DNA dodecamer C-G-C-G-A-A-T-T-C-G-C-G, previously solved and refined at room temperature (290 K), has been analyzed at 16 K (-257 degrees C). The end-to-end winding of the helix does not vary with temperature but remains constant at 10.1 base pairs per turn. Negatively charged phosphate groups throughout the structure do move closer together on cooling, however, probably because of increase in the dielectric constant of water as the temperature is lowered. This has the two-fold effect of reducing the spacing between neighboring double helices from 24.0 to 22.9 A and of narrowing the helix grooves within any isolated molecule. Overall lattice displacements as deduced from crystallographic temperature factors are very much decreased in the 16 K structure, yet displacements at phosphates continue to exceed those of deoxyribose sugars by B = 9 A2 and those of base pairs by B = 22 A2, even at this very low temperature at which practically all thermal motion has been eliminated. These differences, formerly interpreted as evidence for thermal vibration, must now be attributed to static disorder.
-
-	Structure of a B-DNA dodecamer at 16 K.,Drew HR, Samson S, Dickerson RE Proc Natl Acad Sci U S A. 1982 Jul;79(13):4040-4. PMID:6955789<ref>PMID:6955789</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 2bna" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 13:35, 30 August 2023

2023-08-30T13:35:13Z

←Older revision		Revision as of 13:35, 30 August 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2bna]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BNA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2BNA FirstGlance]. <br>		<table><tr><td colspan='2'>[[2bna]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BNA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2BNA FirstGlance]. <br>
-	</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=2bna FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bna OCA], [https://pdbe.org/2bna PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2bna RCSB], [https://www.ebi.ac.uk/pdbsum/2bna PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2bna ProSAT]</span></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]] 2.7Å</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=2bna FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bna OCA], [https://pdbe.org/2bna PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2bna RCSB], [https://www.ebi.ac.uk/pdbsum/2bna PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2bna ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 20:		Line 21:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Dickerson~~, R E~~]]	+	[[Category: Dickerson RE]]
-	[[Category: Drew~~, H R~~]]	+	[[Category: Drew HR]]
-	[[Category: Samson, S]]	+	[[Category: Samson S]]
-	~~[[Category: B-dna]]~~	+
-	~~[[Category: Dna]]~~	+
-	~~[[Category: Double helix~~]]	+

OCA at 13:13, 24 November 2021

2021-11-24T13:13:40Z

←Older revision		Revision as of 13:13, 24 November 2021
Line 3:		Line 3:
	<StructureSection load='2bna' size='340' side='right'caption='[[2bna]], [[Resolution\|resolution]] 2.70Å' scene=''>		<StructureSection load='2bna' size='340' side='right'caption='[[2bna]], [[Resolution\|resolution]] 2.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2bna]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BNA OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2BNA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2bna]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BNA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2BNA FirstGlance]. <br>
-	</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=2bna FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bna OCA], [~~http~~://pdbe.org/2bna PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2bna RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2bna PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2bna ProSAT]</span></td></tr>	+	</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=2bna FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bna OCA], [https://pdbe.org/2bna PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2bna RCSB], [https://www.ebi.ac.uk/pdbsum/2bna PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2bna ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 07:54, 19 February 2020

2020-02-19T07:54:16Z

←Older revision		Revision as of 07:54, 19 February 2020
Line 1:		Line 1:

	==STRUCTURE OF A B-DNA DODECAMER AT 16 KELVIN==		==STRUCTURE OF A B-DNA DODECAMER AT 16 KELVIN==
-	<StructureSection load='2bna' size='340' side='right' caption='[[2bna]], [[Resolution\|resolution]] 2.70Å' scene=''>	+	<StructureSection load='2bna' size='340' side='right'caption='[[2bna]], [[Resolution\|resolution]] 2.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2bna]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BNA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2BNA FirstGlance]. <br>		<table><tr><td colspan='2'>[[2bna]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BNA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2BNA FirstGlance]. <br>
Line 19:		Line 19:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Dickerson, R E]]		[[Category: Dickerson, R E]]
	[[Category: Drew, H R]]		[[Category: Drew, H R]]

OCA at 06:11, 16 May 2018

2018-05-16T06:11:51Z

←Older revision		Revision as of 06:11, 16 May 2018
Line 1:		Line 1:
		+
	==STRUCTURE OF A B-DNA DODECAMER AT 16 KELVIN==		==STRUCTURE OF A B-DNA DODECAMER AT 16 KELVIN==
	<StructureSection load='2bna' size='340' side='right' caption='[[2bna]], [[Resolution\|resolution]] 2.70Å' scene=''>		<StructureSection load='2bna' size='340' side='right' caption='[[2bna]], [[Resolution\|resolution]] 2.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2bna]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BNA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2BNA FirstGlance]. <br>		<table><tr><td colspan='2'>[[2bna]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BNA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2BNA FirstGlance]. <br>
-	</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=2bna FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bna OCA], [http://pdbe.org/2bna PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2bna RCSB], [http://www.ebi.ac.uk/pdbsum/2bna PDBsum]</span></td></tr>	+	</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=2bna FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bna OCA], [http://pdbe.org/2bna PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2bna RCSB], [http://www.ebi.ac.uk/pdbsum/2bna PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2bna ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 23:05, 10 September 2015

2015-09-10T23:05:17Z

←Older revision		Revision as of 23:05, 10 September 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2bna]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BNA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2BNA FirstGlance]. <br>		<table><tr><td colspan='2'>[[2bna]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BNA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2BNA FirstGlance]. <br>
-	</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=2bna FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bna OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2bna RCSB], [http://www.ebi.ac.uk/pdbsum/2bna PDBsum]</span></td></tr>	+	</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=2bna FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bna OCA], [http://pdbe.org/2bna PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2bna RCSB], [http://www.ebi.ac.uk/pdbsum/2bna PDBsum]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 13:		Line 13:
	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 2bna" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 22:31, 3 January 2015

2015-01-03T22:31:25Z

←Older revision		Revision as of 22:31, 3 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2bna]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BNA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2BNA FirstGlance]. <br>		<table><tr><td colspan='2'>[[2bna]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BNA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2BNA FirstGlance]. <br>
-	</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=2bna FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bna OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2bna RCSB], [http://www.ebi.ac.uk/pdbsum/2bna PDBsum]</span></td></tr>	+	</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=2bna FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bna OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2bna RCSB], [http://www.ebi.ac.uk/pdbsum/2bna 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 17:		Line 17:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Dickerson, R E.]]	+	[[Category: Dickerson, R E]]
-	[[Category: Drew, H R.]]	+	[[Category: Drew, H R]]
-	[[Category: Samson, S.]]	+	[[Category: Samson, S]]
	[[Category: B-dna]]		[[Category: B-dna]]
	[[Category: Dna]]		[[Category: Dna]]
	[[Category: Double helix]]		[[Category: Double helix]]

OCA at 06:46, 9 June 2014

2014-06-09T06:46:46Z

←Older revision		Revision as of 06:46, 9 June 2014
Line 1:		Line 1:
-	[[~~Image~~:2bna.~~png\|left\|200px~~]]	+	==STRUCTURE OF A B-DNA DODECAMER AT 16 KELVIN==
		+	<StructureSection load='2bna' size='340' side='right' caption='[[2bna]], [[Resolution\|resolution]] 2.70Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2bna]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BNA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2BNA FirstGlance]. <br>
		+	</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=2bna FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bna OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2bna RCSB], [http://www.ebi.ac.uk/pdbsum/2bna PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The crystal structure of the B-DNA dodecamer C-G-C-G-A-A-T-T-C-G-C-G, previously solved and refined at room temperature (290 K), has been analyzed at 16 K (-257 degrees C). The end-to-end winding of the helix does not vary with temperature but remains constant at 10.1 base pairs per turn. Negatively charged phosphate groups throughout the structure do move closer together on cooling, however, probably because of increase in the dielectric constant of water as the temperature is lowered. This has the two-fold effect of reducing the spacing between neighboring double helices from 24.0 to 22.9 A and of narrowing the helix grooves within any isolated molecule. Overall lattice displacements as deduced from crystallographic temperature factors are very much decreased in the 16 K structure, yet displacements at phosphates continue to exceed those of deoxyribose sugars by B = 9 A2 and those of base pairs by B = 22 A2, even at this very low temperature at which practically all thermal motion has been eliminated. These differences, formerly interpreted as evidence for thermal vibration, must now be attributed to static disorder.

-	~~{{STRUCTURE_2bna\| PDB=2bna \| SCENE= }}~~	+	Structure of a B-DNA dodecamer at 16 K.,Drew HR, Samson S, Dickerson RE Proc Natl Acad Sci U S A. 1982 Jul;79(13):4040-4. PMID:6955789<ref>PMID:6955789</ref>

-	~~===STRUCTURE OF A B-DNA DODECAMER AT 16 KELVIN===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_6955789}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[2bna]] is~~ a ~~2 chain structure~~. ~~Full crystallographic information is available from [http://oca~~.~~weizmann~~.~~ac.il~~/~~oca-bin/ocashort?id=2BNA OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:006955789<~~/~~ref~~><~~ref group="xtra">PMID:009622486</ref><references group="xtra"~~/>	+
	[[Category: Dickerson, R E.]]		[[Category: Dickerson, R E.]]
	[[Category: Drew, H R.]]		[[Category: Drew, H R.]]

OCA: Protected "2bna" [edit=sysop:move=sysop]

2012-08-14T17:16:38Z

Protected "2bna" [edit=sysop:move=sysop]

←Older revision

Revision as of 17:16, 14 August 2012

OCA at 17:16, 14 August 2012

2012-08-14T17:16:37Z

←Older revision		Revision as of 17:16, 14 August 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2bna.png\|left\|200px]]		[[Image:2bna.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2bna", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_2bna\| PDB=2bna \| SCENE= }}		{{STRUCTURE_2bna\| PDB=2bna \| SCENE= }}

	===STRUCTURE OF A B-DNA DODECAMER AT 16 KELVIN===		===STRUCTURE OF A B-DNA DODECAMER AT 16 KELVIN===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_6955789}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 6955789 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_6955789}}		{{ABSTRACT_PUBMED_6955789}}

	==About this Structure==		==About this Structure==
-	Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BNA OCA].	+	[[2bna]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BNA OCA].

	==Reference==		==Reference==
-	~~Structure of a B-DNA dodecamer at 16 K., Drew HR, Samson S, Dickerson RE, Proc Natl Acad Sci U S A. 1982 Jul;79(13)~~:~~4040-4.~~ PMID:~~[http://www.ncbi.nlm.nih.gov~~/~~pubmed~~/~~6955789 6955789]~~	+	<ref group="xtra">PMID:006955789</ref><ref group="xtra">PMID:009622486</ref><references group="xtra"/>
	[[Category: Dickerson, R E.]]		[[Category: Dickerson, R E.]]
	[[Category: Drew, H R.]]		[[Category: Drew, H R.]]
	[[Category: Samson, S.]]		[[Category: Samson, S.]]
	[[Category: B-dna]]		[[Category: B-dna]]
		+	[[Category: Dna]]
	[[Category: Double helix]]		[[Category: Double helix]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jul 28 14:17:37 2008''