5lfs - Revision history

OCA at 08:58, 11 October 2023

OCA — Wed, 11 Oct 2023 08:58:52 GMT

←Older revision		Revision as of 08:58, 11 October 2023
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	<StructureSection load='5lfs' size='340' side='right'caption='[[5lfs]], [[Resolution\|resolution]] 1.85Å' scene=''>		<StructureSection load='5lfs' size='340' side='right'caption='[[5lfs]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5lfs]] is a 2 chain structure. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4izr 4izr]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5LFS OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5LFS FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5lfs]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4izr 4izr]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5LFS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5LFS FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=BA:BARIUM+ION'>BA</scene>~~, ~~<scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=R1Z:DELTA-~~[~~RU(BPY)2DPPZ~~]~~2+'>R1Z</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]] 1.85Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=5BT:5-BROMO-2-DEOXYCYTIDINE'>5BT</scene></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=5BT:5-BROMO-2-DEOXYCYTIDINE'>5BT</scene>, <scene name='pdbligand=BA:BARIUM+ION'>BA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=R1Z:DELTA-[RU(BPY)2DPPZ]2+'>R1Z</scene></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=5lfs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5lfs OCA], [~~http~~://pdbe.org/5lfs PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5lfs RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5lfs PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5lfs 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=5lfs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5lfs OCA], [https://pdbe.org/5lfs PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5lfs RCSB], [https://www.ebi.ac.uk/pdbsum/5lfs PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5lfs ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Cardin, C J~~]]	+	[[Category: Synthetic construct]]
-	[[Category: ~~Hall, J P~~]]	+	[[Category: Cardin CJ]]
-	[[Category: ~~Dna]]~~	+	[[Category: Hall JP]]
-	~~[[Category: Intercalation]]~~	+
-	~~[[Category: Light-switch]]~~	+
-	~~[[Category: Ruthenium~~]]	+

OCA at 07:09, 5 August 2020

OCA — Wed, 05 Aug 2020 07:09:37 GMT

←Older revision		Revision as of 07:09, 5 August 2020
Line 1:		Line 1:

	==Lambda-[Ru(bpy)2(dppz)]2+ bound to brominated DNA==		==Lambda-[Ru(bpy)2(dppz)]2+ bound to brominated DNA==
-	<StructureSection load='5lfs' size='340' side='right' caption='[[5lfs]], [[Resolution\|resolution]] 1.85Å' scene=''>	+	<StructureSection load='5lfs' size='340' side='right'caption='[[5lfs]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5lfs]] is a 2 chain structure. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4izr 4izr]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5LFS OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5LFS FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5lfs]] is a 2 chain structure. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4izr 4izr]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5LFS OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5LFS FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BA:BARIUM+ION'>BA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=R1Z:DELTA-[RU(BPY)2DPPZ]2+'>R1Z</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BA:BARIUM+ION'>BA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=R1Z:DELTA-[RU(BPY)2DPPZ]2+'>R1Z</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=5BT:5-BROMO-2-DEOXYCYTIDINE'>5BT</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=5BT:5-BROMO-2-DEOXYCYTIDINE'>5BT</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=5lfs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5lfs OCA], [http://pdbe.org/5lfs PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5lfs RCSB], [http://www.ebi.ac.uk/pdbsum/5lfs PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5lfs ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5lfs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5lfs OCA], [http://pdbe.org/5lfs PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5lfs RCSB], [http://www.ebi.ac.uk/pdbsum/5lfs PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5lfs ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Cardin, C J]]		[[Category: Cardin, C J]]
	[[Category: Hall, J P]]		[[Category: Hall, J P]]

OCA at 17:26, 10 March 2017

OCA — Fri, 10 Mar 2017 17:26:18 GMT

←Older revision		Revision as of 17:26, 10 March 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The~~ entry 5lfs is ~~ON HOLD~~	+	==Lambda-[Ru(bpy)2(dppz)]2+ bound to brominated DNA==
		+	<StructureSection load='5lfs' size='340' side='right' caption='[[5lfs]], [[Resolution\|resolution]] 1.85Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5lfs]] is a 2 chain structure. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4izr 4izr]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5LFS OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5LFS FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BA:BARIUM+ION'>BA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=R1Z:DELTA-[RU(BPY)2DPPZ]2+'>R1Z</scene></td></tr>
		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=5BT:5-BROMO-2-DEOXYCYTIDINE'>5BT</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=5lfs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5lfs OCA], [http://pdbe.org/5lfs PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5lfs RCSB], [http://www.ebi.ac.uk/pdbsum/5lfs PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5lfs ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	X-ray crystal structures of three Lambda-[Ru(L)2 dppz]2+ complexes (dppz=dipyridophenazine; L=1,10-phenanthroline (phen), 2,2'-bipyridine (bpy)) bound to d((5BrC)GGC/GCCG) showed the compounds intercalated at a 5'-CG-3' step. The compounds bind through canted intercalation, with the binding angle determined by the guanine NH2 group, in contrast to symmetrical intercalation previously observed at 5'-TA-3' sites. This result suggests that canted intercalation is preferred at 5'-CG-3' sites even though the site itself is symmetrical, and we hypothesise that symmetrical intercalation in a 5'-CG-3' step could give rise to a longer luminescence lifetime than canted intercalation.

-	~~Authors:~~ Hall, J.P., Cardin, C.J.	+	Guanine Can Direct Binding Specificity of Ru-dipyridophenazine (dppz) Complexes to DNA through Steric Effects.,Hall JP, Gurung SP, Henle J, Poidl P, Andersson J, Lincoln P, Winter G, Sorensen T, Cardin DJ, Brazier JA, Cardin CJ Chemistry. 2017 Jan 19. doi: 10.1002/chem.201605508. PMID:28105682<ref>PMID:28105682</ref>

-	~~Description: Lambda~~-~~[Ru(bpy)2(dppz)]2+ bound to brominated DNA~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
-	[[Category: Hall, J.P]]	+	<div class="pdbe-citations 5lfs" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Cardin, C.J~~]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Cardin, C J]]
		+	[[Category: Hall, J P]]
		+	[[Category: Dna]]
		+	[[Category: Intercalation]]
		+	[[Category: Light-switch]]
		+	[[Category: Ruthenium]]

OCA: Protected "5lfs" [edit=sysop:move=sysop]

OCA — Thu, 14 Jul 2016 10:04:45 GMT

Protected "5lfs" [edit=sysop:move=sysop]

←Older revision

Revision as of 10:04, 14 July 2016

OCA: New page: '''Unreleased structure''' The entry 5lfs is ON HOLD Authors: Hall, J.P., Cardin, C.J. Description: Lambda-[Ru(bpy)2(dppz)]2+ bound to brominated DNA [[Category: Unreleased Structures]...

OCA — Thu, 14 Jul 2016 10:04:43 GMT

New page: '''Unreleased structure''' The entry 5lfs is ON HOLD Authors: Hall, J.P., Cardin, C.J. Description: Lambda-[Ru(bpy)2(dppz)]2+ bound to brominated DNA [[Category: Unreleased Structures]...

New page

'''Unreleased structure'''

The entry 5lfs is ON HOLD

Authors: Hall, J.P., Cardin, C.J.

Description: Lambda-[Ru(bpy)2(dppz)]2+ bound to brominated DNA
[[Category: Unreleased Structures]]
[[Category: Hall, J.P]]
[[Category: Cardin, C.J]]