2czj - Revision history

OCA at 08:21, 25 October 2023

OCA — Wed, 25 Oct 2023 08:21:31 GMT

←Older revision		Revision as of 08:21, 25 October 2023
Line 3:		Line 3:
	<StructureSection load='2czj' size='340' side='right'caption='[[2czj]], [[Resolution\|resolution]] 3.01Å' scene=''>		<StructureSection load='2czj' size='340' side='right'caption='[[2czj]], [[Resolution\|resolution]] 3.01Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2czj]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Thet8 Thet8~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CZJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2CZJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2czj]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus_HB8 Thermus thermophilus HB8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CZJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2CZJ FirstGlance]. <br>
-	</td></tr><tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non~~-~~Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=5MU:5-METHYLURIDINE+5-MONOPHOSPHATE'>5MU</scene>, <scene name='pdbligand=PSU:PSEUDOURIDINE-5-MONOPHOSPHATE'>PSU</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]] 3.01Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=5MU:5-METHYLURIDINE+5-MONOPHOSPHATE'>5MU</scene>, <scene name='pdbligand=PSU:PSEUDOURIDINE-5-MONOPHOSPHATE'>PSU</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=2czj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2czj OCA], [https://pdbe.org/2czj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2czj RCSB], [https://www.ebi.ac.uk/pdbsum/2czj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2czj ProSAT], [https://www.topsan.org/Proteins/RSGI/2czj TOPSAN]</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=2czj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2czj OCA], [https://pdbe.org/2czj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2czj RCSB], [https://www.ebi.ac.uk/pdbsum/2czj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2czj ProSAT], [https://www.topsan.org/Proteins/RSGI/2czj TOPSAN]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/SSRP_THET8 SSRP_THET8]] Binds specifically to the SsrA RNA (tmRNA) and is required for stable association of SsrA with ribosomes (By similarity).	+	[https://www.uniprot.org/uniprot/SSRP_THET8 SSRP_THET8] Binds specifically to the SsrA RNA (tmRNA) and is required for stable association of SsrA with ribosomes (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 33:		Line 34:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Thet8~~]]	+	[[Category: Thermus thermophilus HB8]]
-	[[Category: Bessho, Y]]	+	[[Category: Bessho Y]]
-	[[Category: Murayama, K]]	+	[[Category: Murayama K]]
-	~~[[Category: Structural genomic~~]]	+	[[Category: Sekine S]]
-	[[Category: Sekine, S]]	+	[[Category: Shibata R]]
-	[[Category: Shibata, R]]	+	[[Category: Shirouzu M]]
-	[[Category: Shirouzu, M]]	+	[[Category: Yokoyama S]]
-	[[Category: Yokoyama, S]]	+
-	~~[[Category: 10sa rna]]~~	+
-	~~[[Category: National project on protein structural and functional analyse]]~~	+
-	~~[[Category: Nppsfa]]~~	+
-	~~[[Category: Rna binding protein-rna complex]]~~	+
-	~~[[Category: Rsgi]]~~	+
-	~~[[Category: Smpb]]~~	+
-	~~[[Category: Ssra rna]]~~	+
-	~~[[Category: Tmrna]]~~	+
-	~~[[Category: Trans-translation]]~~	+
-	~~[[Category: Trna~~]]	+

OCA at 10:24, 8 December 2021

OCA — Wed, 08 Dec 2021 10:24:28 GMT

←Older revision		Revision as of 10:24, 8 December 2021
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	<StructureSection load='2czj' size='340' side='right'caption='[[2czj]], [[Resolution\|resolution]] 3.01Å' scene=''>		<StructureSection load='2czj' size='340' side='right'caption='[[2czj]], [[Resolution\|resolution]] 3.01Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2czj]] is a 8 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Thet8 Thet8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CZJ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2CZJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2czj]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Thet8 Thet8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CZJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2CZJ FirstGlance]. <br>
	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=5MU:5-METHYLURIDINE+5-MONOPHOSPHATE'>5MU</scene>, <scene name='pdbligand=PSU:PSEUDOURIDINE-5-MONOPHOSPHATE'>PSU</scene></td></tr>		</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=5MU:5-METHYLURIDINE+5-MONOPHOSPHATE'>5MU</scene>, <scene name='pdbligand=PSU:PSEUDOURIDINE-5-MONOPHOSPHATE'>PSU</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=2czj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2czj OCA], [~~http~~://pdbe.org/2czj PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2czj RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2czj PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2czj ProSAT], [~~http~~://www.topsan.org/Proteins/RSGI/2czj TOPSAN]</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=2czj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2czj OCA], [https://pdbe.org/2czj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2czj RCSB], [https://www.ebi.ac.uk/pdbsum/2czj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2czj ProSAT], [https://www.topsan.org/Proteins/RSGI/2czj TOPSAN]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/SSRP_THET8 SSRP_THET8]] Binds specifically to the SsrA RNA (tmRNA) and is required for stable association of SsrA with ribosomes (By similarity).	+	[[https://www.uniprot.org/uniprot/SSRP_THET8 SSRP_THET8]] Binds specifically to the SsrA RNA (tmRNA) and is required for stable association of SsrA with ribosomes (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 07:52, 4 March 2020

OCA — Wed, 04 Mar 2020 07:52:43 GMT

←Older revision		Revision as of 07:52, 4 March 2020
Line 1:		Line 1:

	==Crystal structure of the tRNA domain of tmRNA from Thermus thermophilus HB8==		==Crystal structure of the tRNA domain of tmRNA from Thermus thermophilus HB8==
-	<StructureSection load='2czj' size='340' side='right' caption='[[2czj]], [[Resolution\|resolution]] 3.01Å' scene=''>	+	<StructureSection load='2czj' size='340' side='right'caption='[[2czj]], [[Resolution\|resolution]] 3.01Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2czj]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Thet8 Thet8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CZJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CZJ FirstGlance]. <br>		<table><tr><td colspan='2'>[[2czj]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Thet8 Thet8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CZJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CZJ FirstGlance]. <br>
Line 32:		Line 32:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Thet8]]		[[Category: Thet8]]
	[[Category: Bessho, Y]]		[[Category: Bessho, Y]]

OCA at 06:43, 30 May 2018

OCA — Wed, 30 May 2018 06:43:26 GMT

←Older revision		Revision as of 06:43, 30 May 2018
Line 1:		Line 1:
		+
	==Crystal structure of the tRNA domain of tmRNA from Thermus thermophilus HB8==		==Crystal structure of the tRNA domain of tmRNA from Thermus thermophilus HB8==
	<StructureSection load='2czj' size='340' side='right' caption='[[2czj]], [[Resolution\|resolution]] 3.01Å' scene=''>		<StructureSection load='2czj' size='340' side='right' caption='[[2czj]], [[Resolution\|resolution]] 3.01Å' scene=''>
Line 4:		Line 5:
	<table><tr><td colspan='2'>[[2czj]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Thet8 Thet8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CZJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CZJ FirstGlance]. <br>		<table><tr><td colspan='2'>[[2czj]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Thet8 Thet8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CZJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CZJ FirstGlance]. <br>
	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=5MU:5-METHYLURIDINE+5-MONOPHOSPHATE'>5MU</scene>, <scene name='pdbligand=PSU:PSEUDOURIDINE-5-MONOPHOSPHATE'>PSU</scene></td></tr>		</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=5MU:5-METHYLURIDINE+5-MONOPHOSPHATE'>5MU</scene>, <scene name='pdbligand=PSU:PSEUDOURIDINE-5-MONOPHOSPHATE'>PSU</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=2czj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2czj OCA], [http://pdbe.org/2czj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2czj RCSB], [http://www.ebi.ac.uk/pdbsum/2czj PDBsum], [http://www.topsan.org/Proteins/RSGI/2czj TOPSAN]</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=2czj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2czj OCA], [http://pdbe.org/2czj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2czj RCSB], [http://www.ebi.ac.uk/pdbsum/2czj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2czj ProSAT], [http://www.topsan.org/Proteins/RSGI/2czj TOPSAN]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 12:		Line 13:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/cz/2czj_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/cz/2czj_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2czj ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 10:11, 11 September 2015

OCA — Fri, 11 Sep 2015 10:11:31 GMT

←Older revision		Revision as of 10:11, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='2czj' size='340' side='right' caption='[[2czj]], [[Resolution\|resolution]] 3.01Å' scene=''>		<StructureSection load='2czj' size='340' side='right' caption='[[2czj]], [[Resolution\|resolution]] 3.01Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2czj]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Thermus_thermophilus Thermus thermophilus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CZJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CZJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2czj]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Thet8 Thet8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CZJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CZJ FirstGlance]. <br>
	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=5MU:5-METHYLURIDINE+5-MONOPHOSPHATE'>5MU</scene>, <scene name='pdbligand=PSU:PSEUDOURIDINE-5-MONOPHOSPHATE'>PSU</scene></td></tr>		</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=5MU:5-METHYLURIDINE+5-MONOPHOSPHATE'>5MU</scene>, <scene name='pdbligand=PSU:PSEUDOURIDINE-5-MONOPHOSPHATE'>PSU</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=2czj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2czj OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2czj RCSB], [http://www.ebi.ac.uk/pdbsum/2czj PDBsum], [http://www.topsan.org/Proteins/RSGI/2czj TOPSAN]</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=2czj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2czj OCA], [http://pdbe.org/2czj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2czj RCSB], [http://www.ebi.ac.uk/pdbsum/2czj PDBsum], [http://www.topsan.org/Proteins/RSGI/2czj TOPSAN]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 26:		Line 26:
	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 2czj" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Thermus thermophilus~~]]	+	[[Category: Thet8]]
	[[Category: Bessho, Y]]		[[Category: Bessho, Y]]
	[[Category: Murayama, K]]		[[Category: Murayama, K]]

OCA at 14:57, 25 December 2014

OCA — Thu, 25 Dec 2014 14:57:57 GMT

←Older revision		Revision as of 14:57, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2czj]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CZJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CZJ FirstGlance]. <br>		<table><tr><td colspan='2'>[[2czj]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CZJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CZJ FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=5MU:5-METHYLURIDINE+5-MONOPHOSPHATE'>5MU</scene>, <scene name='pdbligand=PSU:PSEUDOURIDINE-5-MONOPHOSPHATE'>PSU</scene></td></tr>	+	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=5MU:5-METHYLURIDINE+5-MONOPHOSPHATE'>5MU</scene>, <scene name='pdbligand=PSU:PSEUDOURIDINE-5-MONOPHOSPHATE'>PSU</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=2czj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2czj OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2czj RCSB], [http://www.ebi.ac.uk/pdbsum/2czj PDBsum], [http://www.topsan.org/Proteins/RSGI/2czj TOPSAN]</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=2czj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2czj OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2czj RCSB], [http://www.ebi.ac.uk/pdbsum/2czj PDBsum], [http://www.topsan.org/Proteins/RSGI/2czj TOPSAN]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/SSRP_THET8 SSRP_THET8]] Binds specifically to the SsrA RNA (tmRNA) and is required for stable association of SsrA with ribosomes (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 29:		Line 31:
	</StructureSection>		</StructureSection>
	[[Category: Thermus thermophilus]]		[[Category: Thermus thermophilus]]
-	[[Category: Bessho, Y.]]	+	[[Category: Bessho, Y]]
-	[[Category: Murayama, K.]]	+	[[Category: Murayama, K]]
-	[[Category: ~~RSGI, RIKEN~~ Structural ~~Genomics/Proteomics Initiative.~~]]	+	[[Category: Structural genomic]]
-	[[Category: Sekine, S.]]	+	[[Category: Sekine, S]]
-	[[Category: Shibata, R.]]	+	[[Category: Shibata, R]]
-	[[Category: Shirouzu, M.]]	+	[[Category: Shirouzu, M]]
-	[[Category: Yokoyama, S.]]	+	[[Category: Yokoyama, S]]
	[[Category: 10sa rna]]		[[Category: 10sa rna]]
	[[Category: National project on protein structural and functional analyse]]		[[Category: National project on protein structural and functional analyse]]
	[[Category: Nppsfa]]		[[Category: Nppsfa]]
-	[[Category: Riken structural genomics/proteomics initiative]]
	[[Category: Rna binding protein-rna complex]]		[[Category: Rna binding protein-rna complex]]
	[[Category: Rsgi]]		[[Category: Rsgi]]
	[[Category: Smpb]]		[[Category: Smpb]]
	[[Category: Ssra rna]]		[[Category: Ssra rna]]
-	[[Category: Structural genomic]]
	[[Category: Tmrna]]		[[Category: Tmrna]]
	[[Category: Trans-translation]]		[[Category: Trans-translation]]
	[[Category: Trna]]		[[Category: Trna]]

OCA at 02:56, 30 September 2014

OCA — Tue, 30 Sep 2014 02:56:14 GMT

←Older revision		Revision as of 02:56, 30 September 2014
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-	[[~~Image~~:2czj.~~png\|left~~\|200px]]	+	==Crystal structure of the tRNA domain of tmRNA from Thermus thermophilus HB8==
		+	<StructureSection load='2czj' size='340' side='right' caption='[[2czj]], [[Resolution\|resolution]] 3.01Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2czj]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CZJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CZJ FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=5MU:5-METHYLURIDINE+5-MONOPHOSPHATE'>5MU</scene>, <scene name='pdbligand=PSU:PSEUDOURIDINE-5-MONOPHOSPHATE'>PSU</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=2czj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2czj OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2czj RCSB], [http://www.ebi.ac.uk/pdbsum/2czj PDBsum], [http://www.topsan.org/Proteins/RSGI/2czj TOPSAN]</span></td></tr>
		+	<table>
		+	== Evolutionary Conservation ==
		+	[[Image:Consurf_key_small.gif\|200px\|right]]
		+	Check<jmol>
		+	<jmolCheckbox>
		+	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/cz/2czj_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	tmRNA and small protein B (SmpB) are essential trans-translation system components. In the present study, we determined the crystal structure of SmpB in complex with the entire tRNA domain of the tmRNA from Thermus thermophilus. Overall, the ribonucleoprotein complex (tRNP) mimics a long-variable-arm tRNA (class II tRNA) in the canonical L-shaped tertiary structure. The tmRNA terminus corresponds to the acceptor and T arms, or the upper part, of tRNA. On the other hand, the SmpB protein simulates the lower part, the anticodon and D stems, of tRNA. Intriguingly, several amino acid residues collaborate with tmRNA bases to reproduce the canonical tRNA core layers. The linker helix of tmRNA had been considered to correspond to the anticodon stem, but the complex structure unambiguously shows that it corresponds to the tRNA variable arm. The tmRNA linker helix, as well as the long variable arm of class II tRNA, may occupy the gap between the large and small ribosomal subunits. This suggested how the tRNA domain is connected to the mRNA domain entering the mRNA channel. A loop of SmpB in the tRNP is likely to participate in the interaction with alanyl-tRNA synthetase, which may be the mechanism for the promotion of tmRNA alanylation by the SmpB protein. Therefore, the tRNP may simulate a tRNA, both structurally and functionally, with respect to aminoacylation and ribosome entry.

-	~~{{STRUCTURE_2czj\| PDB=2czj \| SCENE= }}~~	+	Structural basis for functional mimicry of long-variable-arm tRNA by transfer-messenger RNA.,Bessho Y, Shibata R, Sekine S, Murayama K, Higashijima K, Hori-Takemoto C, Shirouzu M, Kuramitsu S, Yokoyama S Proc Natl Acad Sci U S A. 2007 May 15;104(20):8293-8. Epub 2007 May 8. PMID:17488812<ref>PMID:17488812</ref>

-	~~===Crystal structure~~ of the ~~tRNA domain of tmRNA from Thermus thermophilus HB8===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_17488812}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[2czj]] is a 8 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Thermus_thermophilus Thermus thermophilus]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2CZJ OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:017488812<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Thermus thermophilus]]		[[Category: Thermus thermophilus]]
	[[Category: Bessho, Y.]]		[[Category: Bessho, Y.]]

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

OCA — Sun, 06 Jan 2013 12:06:33 GMT

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

←Older revision

Revision as of 12:06, 6 January 2013

OCA at 12:06, 6 January 2013

OCA — Sun, 06 Jan 2013 12:06:31 GMT

←Older revision		Revision as of 12:06, 6 January 2013
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-	{{Seed}}
	[[Image:2czj.png\|left\|200px]]		[[Image:2czj.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2czj", 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_2czj\| PDB=2czj \| SCENE= }}		{{STRUCTURE_2czj\| PDB=2czj \| SCENE= }}

	===Crystal structure of the tRNA domain of tmRNA from Thermus thermophilus HB8===		===Crystal structure of the tRNA domain of tmRNA from Thermus thermophilus HB8===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_17488812}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 17488812 is the PubMed ID number.
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	{{ABSTRACT_PUBMED_17488812}}		{{ABSTRACT_PUBMED_17488812}}

	==About this Structure==		==About this Structure==
-	~~2CZJ~~ is a 8 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/~~Thermus_thermophilus_hb8~~ Thermus thermophilus ~~hb8~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CZJ OCA].	+	[[2czj]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CZJ OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~17488812~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:017488812</ref><references group="xtra"/>
-	[[Category: Thermus thermophilus ~~hb8~~]]	+	[[Category: Thermus thermophilus]]
	[[Category: Bessho, Y.]]		[[Category: Bessho, Y.]]
	[[Category: Murayama, K.]]		[[Category: Murayama, K.]]
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	[[Category: Nppsfa]]		[[Category: Nppsfa]]
	[[Category: Riken structural genomics/proteomics initiative]]		[[Category: Riken structural genomics/proteomics initiative]]
-	[[Category: Rna binding protein/rna complex]]	+	[[Category: Rna binding protein-rna complex]]
	[[Category: Rsgi]]		[[Category: Rsgi]]
	[[Category: Smpb]]		[[Category: Smpb]]
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	[[Category: Trans-translation]]		[[Category: Trans-translation]]
	[[Category: Trna]]		[[Category: Trna]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 19:38:12 2009''

OCA at 17:38, 17 February 2009

OCA — Tue, 17 Feb 2009 17:38:13 GMT

←Older revision		Revision as of 17:38, 17 February 2009
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	==Reference==		==Reference==
-	Structural basis for functional mimicry of long-variable-arm tRNA by transfer-messenger RNA., Bessho Y, Shibata R, Sekine S, Murayama K, Higashijima K, Hori-Takemoto C, Shirouzu M, Kuramitsu S, Yokoyama S, Proc Natl Acad Sci U S A. 2007 May 15;104(20):8293-8. Epub 2007 May 8. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/17488812 17488812]~~	+	<ref group="xtra">PMID:17488812</ref><references group="xtra"/>
	[[Category: Thermus thermophilus hb8]]		[[Category: Thermus thermophilus hb8]]
	[[Category: Bessho, Y.]]		[[Category: Bessho, Y.]]
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	[[Category: Trna]]		[[Category: Trna]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sun Nov 16 18~~:40:~~15 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 19:38:12 2009''