6ugj - Revision history

OCA at 14:57, 13 March 2024

OCA — Wed, 13 Mar 2024 14:57:24 GMT

←Older revision		Revision as of 14:57, 13 March 2024
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	<StructureSection load='6ugj' size='340' side='right'caption='[[6ugj]], [[Resolution\|resolution]] 1.60Å' scene=''>		<StructureSection load='6ugj' size='340' side='right'caption='[[6ugj]], [[Resolution\|resolution]] 1.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6ugj]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6UGJ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6UGJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6ugj]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6UGJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6UGJ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DPO:DIPHOSPHATE'>DPO</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=URA:URACIL'>URA</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='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=6ugj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ugj OCA], [~~http~~://pdbe.org/6ugj PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6ugj RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6ugj PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6ugj ProSAT]</span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DPO:DIPHOSPHATE'>DPO</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=URA:URACIL'>URA</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=6ugj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ugj OCA], [https://pdbe.org/6ugj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6ugj RCSB], [https://www.ebi.ac.uk/pdbsum/6ugj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6ugj ProSAT]</span></td></tr>
	</table>		</table>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Ubiquitous across all domains of life, tRNAs constitute an essential component of cellular physiology, carry out an indispensable role in protein synthesis, and have been historically the subject of a wide range of biochemical and biophysical studies as prototypical folded RNA molecules. Although conformational flexibility is a well-established characteristic of tRNA structure, it is typically regarded as an adaptive property exhibited in response to an inducing event, such as the binding of a tRNA synthetase or the accommodation of an aminoacyl-tRNA into the ribosome. In this study, we present crystallographic data of a tRNA molecule to expand on this paradigm by showing that structural flexibility and plasticity are intrinsic properties of tRNAs, apparent even in the absence of other factors. Based on two closely related conformations observed within the same crystal, we posit that unbound tRNAs by themselves are flexible and dynamic molecules. Furthermore, we demonstrate that the formation of the T-loop conformation by the tRNA TPsiC stem-loop, a well-characterized and classic RNA structural motif, is possible even in the absence of important interactions observed in fully folded tRNAs.
-
-	Crystal structures of an unmodified bacterial tRNA reveal intrinsic structural flexibility and plasticity as general properties of unbound tRNAs.,Chan CW, Badong D, Rajan R, Mondragon A RNA. 2019 Dec 17. pii: rna.073478.119. doi: 10.1261/rna.073478.119. PMID:31848215<ref>PMID:31848215</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 6ugj" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Escherichia coli]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Chan~~, C W~~]]	+	[[Category: Chan CW]]
-	[[Category: Mondragon, A]]	+	[[Category: Mondragon A]]
-	~~[[Category: Rna]]~~	+
-	~~[[Category: Trna rna unmodified t-loop acceptor stem~~]]	+

OCA at 08:29, 1 January 2020

OCA — Wed, 01 Jan 2020 08:29:22 GMT

←Older revision		Revision as of 08:29, 1 January 2020
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-	'''Unreleased structure'''

-	~~The entry~~ 6ugj is ~~ON HOLD until Paper~~ Publication	+	==Crystal structure of a fragment of E. coli tRNA(Asp) consisting of its acceptor stem/T stem-loop. Short unit cell.==
		+	<StructureSection load='6ugj' size='340' side='right'caption='[[6ugj]], [[Resolution\|resolution]] 1.60Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6ugj]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6UGJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6UGJ FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DPO:DIPHOSPHATE'>DPO</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=URA:URACIL'>URA</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=6ugj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ugj OCA], [http://pdbe.org/6ugj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ugj RCSB], [http://www.ebi.ac.uk/pdbsum/6ugj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ugj ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Ubiquitous across all domains of life, tRNAs constitute an essential component of cellular physiology, carry out an indispensable role in protein synthesis, and have been historically the subject of a wide range of biochemical and biophysical studies as prototypical folded RNA molecules. Although conformational flexibility is a well-established characteristic of tRNA structure, it is typically regarded as an adaptive property exhibited in response to an inducing event, such as the binding of a tRNA synthetase or the accommodation of an aminoacyl-tRNA into the ribosome. In this study, we present crystallographic data of a tRNA molecule to expand on this paradigm by showing that structural flexibility and plasticity are intrinsic properties of tRNAs, apparent even in the absence of other factors. Based on two closely related conformations observed within the same crystal, we posit that unbound tRNAs by themselves are flexible and dynamic molecules. Furthermore, we demonstrate that the formation of the T-loop conformation by the tRNA TPsiC stem-loop, a well-characterized and classic RNA structural motif, is possible even in the absence of important interactions observed in fully folded tRNAs.

-	~~Authors~~:	+	Crystal structures of an unmodified bacterial tRNA reveal intrinsic structural flexibility and plasticity as general properties of unbound tRNAs.,Chan CW, Badong D, Rajan R, Mondragon A RNA. 2019 Dec 17. pii: rna.073478.119. doi: 10.1261/rna.073478.119. PMID:31848215<ref>PMID:31848215</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
		+	<div class="pdbe-citations 6ugj" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Chan, C W]]
		+	[[Category: Mondragon, A]]
		+	[[Category: Rna]]
		+	[[Category: Trna rna unmodified t-loop acceptor stem]]

OCA at 05:08, 23 October 2019

OCA — Wed, 23 Oct 2019 05:08:13 GMT

←Older revision		Revision as of 05:08, 23 October 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6ugj is ON HOLD	+	The entry 6ugj is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "6ugj" [edit=sysop:move=sysop]

OCA — Wed, 02 Oct 2019 08:49:22 GMT

Protected "6ugj" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:49, 2 October 2019

OCA: New page: '''Unreleased structure''' The entry 6ugj is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 02 Oct 2019 08:49:20 GMT

New page: '''Unreleased structure''' The entry 6ugj is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6ugj is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]