4u3r - Revision history

OCA at 12:26, 20 December 2023

2023-12-20T12:26:33Z

←Older revision		Revision as of 12:26, 20 December 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4u3r]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4U3R OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4U3R FirstGlance]. <br>		<table><tr><td colspan='2'>[[4u3r]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4U3R OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4U3R FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CO:COBALT+(II)+ION'>CO</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]] 1.701Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CO:COBALT+(II)+ION'>CO</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=4u3r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4u3r OCA], [https://pdbe.org/4u3r PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4u3r RCSB], [https://www.ebi.ac.uk/pdbsum/4u3r PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4u3r 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=4u3r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4u3r OCA], [https://pdbe.org/4u3r PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4u3r RCSB], [https://www.ebi.ac.uk/pdbsum/4u3r PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4u3r ProSAT]</span></td></tr>
	</table>		</table>

OCA at 08:00, 22 March 2023

2023-03-22T08:00:36Z

←Older revision		Revision as of 08:00, 22 March 2023
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	<StructureSection load='4u3r' size='340' side='right'caption='[[4u3r]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='4u3r' size='340' side='right'caption='[[4u3r]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4u3r]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4U3R OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4U3R FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4u3r]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4U3R OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4U3R FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CO:COBALT+(II)+ION'>CO</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CO:COBALT+(II)+ION'>CO</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4u3l\|4u3l]], [[4u3o\|4u3o]], [[4u3p\|4u3p]]~~</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=4u3r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4u3r OCA], [https://pdbe.org/4u3r PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4u3r RCSB], [https://www.ebi.ac.uk/pdbsum/4u3r PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4u3r ProSAT]</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=4u3r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4u3r OCA], [~~http~~://pdbe.org/4u3r PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4u3r RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4u3r PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4u3r 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: Olieric, V]]	+	[[Category: Synthetic construct]]
-	[[Category: Peng, G]]	+	[[Category: Olieric V]]
-	[[Category: Schaffer~~, M F~~]]	+	[[Category: Peng G]]
-	[[Category: Schnabl, J]]	+	[[Category: Schaffer MF]]
-	[[Category: Sigel~~, R K.O~~]]	+	[[Category: Schnabl J]]
-	[[Category: Spingler, B]]	+	[[Category: Sigel RKO]]
-	~~[[Category: Di- and trivalent metal ion]]~~	+	[[Category: Spingler B]]
-	~~[[Category: Duplex]]~~	+
-	~~[[Category: Rna~~]]	+

OCA at 14:19, 10 May 2019

2019-05-10T14:19:39Z

←Older revision		Revision as of 14:19, 10 May 2019
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	==Octameric RNA duplex co-crystallized with cobalt(II)chloride==		==Octameric RNA duplex co-crystallized with cobalt(II)chloride==
-	<StructureSection load='4u3r' size='340' side='right' caption='[[4u3r]], [[Resolution\|resolution]] 1.70Å' scene=''>	+	<StructureSection load='4u3r' size='340' side='right'caption='[[4u3r]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4u3r]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4U3R OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4U3R FirstGlance]. <br>		<table><tr><td colspan='2'>[[4u3r]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4U3R OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4U3R FirstGlance]. <br>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Olieric, V]]		[[Category: Olieric, V]]
	[[Category: Peng, G]]		[[Category: Peng, G]]

OCA at 11:53, 14 July 2016

2016-07-14T11:53:21Z

←Older revision		Revision as of 11:53, 14 July 2016
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	<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=4u3r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4u3r OCA], [http://pdbe.org/4u3r PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4u3r RCSB], [http://www.ebi.ac.uk/pdbsum/4u3r PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4u3r ProSAT]</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=4u3r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4u3r OCA], [http://pdbe.org/4u3r PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4u3r RCSB], [http://www.ebi.ac.uk/pdbsum/4u3r PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4u3r ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Due to the polyanionic nature of RNA, the principles of charge neutralization and electrostatic condensation require that cations help to overcome the repulsive forces in order for RNA to adopt a three-dimensional structure. A precise structural knowledge of RNA-metal ion interactions is crucial to understand the mechanism of metal ions in the catalytic or regulatory activity of RNA. We solved the crystal structure of an octameric RNA duplex in the presence of the di- and trivalent metal ions Ca(2+), Mn(2+), Co(2+), Cu(2+), Sr(2+), and Tb(3+). The detailed investigation reveals a unique innersphere interaction to uracil and extends the knowledge of the influence of metal ions for conformational changes in RNA structure. Furthermore, we could demonstrate that an accurate localization of the metal ions in the X-ray structures require the consideration of several crystallographic and geometrical parameters as well as the anomalous difference map.
		+
		+	The X-ray Structures of Six Octameric RNA Duplexes in the Presence of Different Di- and Trivalent Cations.,Schaffer MF, Peng G, Spingler B, Schnabl J, Wang M, Olieric V, Sigel RK Int J Mol Sci. 2016 Jun 27;17(7). pii: E988. doi: 10.3390/ijms17070988. PMID:27355942<ref>PMID:27355942</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 4u3r" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 02:58, 13 July 2016

2016-07-13T02:58:07Z

←Older revision		Revision as of 02:58, 13 July 2016
Line 1:		Line 1:
		+
	==Octameric RNA duplex co-crystallized with cobalt(II)chloride==		==Octameric RNA duplex co-crystallized with cobalt(II)chloride==
	<StructureSection load='4u3r' size='340' side='right' caption='[[4u3r]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='4u3r' size='340' side='right' caption='[[4u3r]], [[Resolution\|resolution]] 1.70Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CO:COBALT+(II)+ION'>CO</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CO:COBALT+(II)+ION'>CO</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4u3l\|4u3l]], [[4u3o\|4u3o]], [[4u3p\|4u3p]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4u3l\|4u3l]], [[4u3o\|4u3o]], [[4u3p\|4u3p]]</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=4u3r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4u3r OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4u3r RCSB], [http://www.ebi.ac.uk/pdbsum/4u3r 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=4u3r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4u3r OCA], [http://pdbe.org/4u3r PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4u3r RCSB], [http://www.ebi.ac.uk/pdbsum/4u3r PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4u3r ProSAT]</span></td></tr>
	</table>		</table>
	__TOC__		__TOC__

OCA at 14:48, 29 July 2015

2015-07-29T14:48:57Z

←Older revision		Revision as of 14:48, 29 July 2015
Line 1:		Line 1:
-	'''~~Unreleased structure~~'''	+	==Octameric RNA duplex co-crystallized with cobalt(II)chloride==
-		+	<StructureSection load='4u3r' size='340' side='right' caption='[[4u3r]], [[Resolution\|resolution]] 1.70Å' scene=''>
-	~~The entry~~ 4u3r is ~~ON HOLD until Paper Publication~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[4u3r]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4U3R OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4U3R FirstGlance]. <br>
-	~~Authors~~: ~~Schaffer, M~~.F.~~, Spingler, B~~.~~, Schnabl, J~~.~~, Peng, G~~.~~, Olieric, V~~.~~, Sigel, R~~.K.O.	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CO:COBALT+(II)+ION'>CO</scene></td></tr>
-		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4u3l\|4u3l]], [[4u3o\|4u3o]], [[4u3p\|4u3p]]</td></tr>
-	~~Description~~: ~~Octameric RNA duplex co-crystallized with cobalt~~(II)~~chloride~~	+	<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=4u3r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4u3r OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4u3r RCSB], [http://www.ebi.ac.uk/pdbsum/4u3r PDBsum]</span></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	</table>
-	[[~~Category: Sigel, R.K.O~~]]	+	__TOC__
-	[[~~Category: Schaffer, M.F~~]]	+	</StructureSection>
-	[[~~Category: Peng, G~~]]	+
-	[[~~Category~~: ~~Spingler~~, B]]	+
	[[Category: Olieric, V]]		[[Category: Olieric, V]]
		+	[[Category: Peng, G]]
		+	[[Category: Schaffer, M F]]
	[[Category: Schnabl, J]]		[[Category: Schnabl, J]]
		+	[[Category: Sigel, R K.O]]
		+	[[Category: Spingler, B]]
		+	[[Category: Di- and trivalent metal ion]]
		+	[[Category: Duplex]]
		+	[[Category: Rna]]

OCA at 18:06, 24 December 2014

2014-12-24T18:06:47Z

←Older revision		Revision as of 18:06, 24 December 2014
Line 6:		Line 6:

	Description: Octameric RNA duplex co-crystallized with cobalt(II)chloride		Description: Octameric RNA duplex co-crystallized with cobalt(II)chloride
		+	[[Category: Unreleased Structures]]
		+	[[Category: Sigel, R.K.O]]
		+	[[Category: Schaffer, M.F]]
		+	[[Category: Peng, G]]
		+	[[Category: Spingler, B]]
		+	[[Category: Olieric, V]]
		+	[[Category: Schnabl, J]]

OCA: Protected "4u3r" [edit=sysop:move=sysop]

2014-07-30T07:15:45Z

Protected "4u3r" [edit=sysop:move=sysop]

←Older revision

Revision as of 07:15, 30 July 2014

OCA: New page: '''Unreleased structure''' The entry 4u3r is ON HOLD until Paper Publication Authors: Schaffer, M.F., Spingler, B., Schnabl, J., Peng, G., Olieric, V., Sigel, R.K.O. Description: Octam...

2014-07-30T07:15:44Z

New page: '''Unreleased structure''' The entry 4u3r is ON HOLD until Paper Publication Authors: Schaffer, M.F., Spingler, B., Schnabl, J., Peng, G., Olieric, V., Sigel, R.K.O. Description: Octam...

New page

'''Unreleased structure'''

The entry 4u3r is ON HOLD until Paper Publication

Authors: Schaffer, M.F., Spingler, B., Schnabl, J., Peng, G., Olieric, V., Sigel, R.K.O.

Description: Octameric RNA duplex co-crystallized with cobalt(II)chloride