2hkz - Revision history

OCA at 08:51, 25 October 2023

OCA — Wed, 25 Oct 2023 08:51:16 GMT

←Older revision		Revision as of 08:51, 25 October 2023
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	<StructureSection load='2hkz' size='340' side='right'caption='[[2hkz]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='2hkz' size='340' side='right'caption='[[2hkz]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2hkz]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"pyrococcus_abyssi"_erauso_et_al._1993 "pyrococcus~~ abyssi~~" erauso et al. 1993~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HKZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2HKZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2hkz]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrococcus_abyssi Pyrococcus abyssi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HKZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2HKZ FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=SER:SERINE'>SER</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]] 2.1Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~><div style='overflow: auto; max-height: 3em;'>[[1y2q\|1y2q]], [[2hl0\|2hl0]], [[2hl1\|2hl1]], [[2hl2\|2hl2]]</div></td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SER:SERINE'>SER</scene></td></tr>
-	~~<tr~~ id~~='activity'><td class~~="~~sblockLbl~~"><~~b>Activity:</b></td><td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[https://en.wikipedia.org/wiki/Threonine--tRNA_ligase Threonine--tRNA ligase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.1.1.3 6.1.1.3]~~ </~~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=2hkz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hkz OCA], [https://pdbe.org/2hkz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2hkz RCSB], [https://www.ebi.ac.uk/pdbsum/2hkz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2hkz 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=2hkz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hkz OCA], [https://pdbe.org/2hkz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2hkz RCSB], [https://www.ebi.ac.uk/pdbsum/2hkz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2hkz ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/SYT_PYRAB SYT_PYRAB]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 35:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Pyrococcus abyssi erauso et al. 1993]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Threonine--tRNA ligase~~]]	+	[[Category: Pyrococcus abyssi]]
-	[[Category: Dwivedi, S]]	+	[[Category: Dwivedi S]]
-	[[Category: Kruparani~~, S P~~]]	+	[[Category: Kruparani SP]]
-	[[Category: Sankaranarayanan, R]]	+	[[Category: Sankaranarayanan R]]
-	~~[[Category: Aminoacyl-trna synthetase]]~~	+
-	~~[[Category: Editing]]~~	+
-	~~[[Category: Enantioselectivity]]~~	+
-	~~[[Category: Enzyme mechanism]]~~	+
-	~~[[Category: Ligase]]~~	+
-	~~[[Category: Translation~~]]	+

OCA at 11:09, 5 January 2022

OCA — Wed, 05 Jan 2022 11:09:55 GMT

←Older revision		Revision as of 11:09, 5 January 2022
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	<StructureSection load='2hkz' size='340' side='right'caption='[[2hkz]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='2hkz' size='340' side='right'caption='[[2hkz]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2hkz]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"pyrococcus_abyssi"_erauso_et_al._1993 "pyrococcus abyssi" erauso et al. 1993]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HKZ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2HKZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2hkz]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/"pyrococcus_abyssi"_erauso_et_al._1993 "pyrococcus abyssi" erauso et al. 1993]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HKZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2HKZ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SER:SERINE'>SER</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SER:SERINE'>SER</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1y2q\|1y2q]], [[2hl0\|2hl0]], [[2hl1\|2hl1]], [[2hl2\|2hl2]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1y2q\|1y2q]], [[2hl0\|2hl0]], [[2hl1\|2hl1]], [[2hl2\|2hl2]]</div></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Threonine--tRNA_ligase Threonine--tRNA ligase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.1.1.3 6.1.1.3] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Threonine--tRNA_ligase Threonine--tRNA ligase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.1.1.3 6.1.1.3] </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=2hkz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hkz OCA], [~~http~~://pdbe.org/2hkz PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2hkz RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2hkz PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2hkz 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=2hkz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hkz OCA], [https://pdbe.org/2hkz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2hkz RCSB], [https://www.ebi.ac.uk/pdbsum/2hkz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2hkz ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==

OCA at 10:11, 1 April 2020

OCA — Wed, 01 Apr 2020 10:11:37 GMT

←Older revision		Revision as of 10:11, 1 April 2020
Line 1:		Line 1:

	==Crystal structure of the editing domain of threonyl-tRNA synthetase from Pyrococcus abyssi in complex with L-serine==		==Crystal structure of the editing domain of threonyl-tRNA synthetase from Pyrococcus abyssi in complex with L-serine==
-	<StructureSection load='2hkz' size='340' side='right' caption='[[2hkz]], [[Resolution\|resolution]] 2.10Å' scene=''>	+	<StructureSection load='2hkz' size='340' side='right'caption='[[2hkz]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2hkz]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"pyrococcus_abyssi"_erauso_et_al._1993 "pyrococcus abyssi" erauso et al. 1993]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HKZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2HKZ FirstGlance]. <br>		<table><tr><td colspan='2'>[[2hkz]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"pyrococcus_abyssi"_erauso_et_al._1993 "pyrococcus abyssi" erauso et al. 1993]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HKZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2HKZ FirstGlance]. <br>
Line 30:		Line 30:

	==See Also==		==See Also==
-	*[[Aminoacyl tRNA ~~Synthetase~~\|Aminoacyl tRNA ~~Synthetase~~]]	+	*[[Aminoacyl tRNA synthetase 3D structures\|Aminoacyl tRNA synthetase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 36:		Line 36:
	</StructureSection>		</StructureSection>
	[[Category: Pyrococcus abyssi erauso et al. 1993]]		[[Category: Pyrococcus abyssi erauso et al. 1993]]
		+	[[Category: Large Structures]]
	[[Category: Threonine--tRNA ligase]]		[[Category: Threonine--tRNA ligase]]
	[[Category: Dwivedi, S]]		[[Category: Dwivedi, S]]

OCA at 06:11, 27 June 2018

OCA — Wed, 27 Jun 2018 06:11:53 GMT

←Older revision		Revision as of 06:11, 27 June 2018
Line 1:		Line 1:
		+
	==Crystal structure of the editing domain of threonyl-tRNA synthetase from Pyrococcus abyssi in complex with L-serine==		==Crystal structure of the editing domain of threonyl-tRNA synthetase from Pyrococcus abyssi in complex with L-serine==
	<StructureSection load='2hkz' size='340' side='right' caption='[[2hkz]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='2hkz' size='340' side='right' caption='[[2hkz]], [[Resolution\|resolution]] 2.10Å' scene=''>
Line 6:		Line 7:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1y2q\|1y2q]], [[2hl0\|2hl0]], [[2hl1\|2hl1]], [[2hl2\|2hl2]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1y2q\|1y2q]], [[2hl0\|2hl0]], [[2hl1\|2hl1]], [[2hl2\|2hl2]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Threonine--tRNA_ligase Threonine--tRNA ligase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.1.1.3 6.1.1.3] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Threonine--tRNA_ligase Threonine--tRNA ligase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.1.1.3 6.1.1.3] </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=2hkz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hkz OCA], [http://pdbe.org/2hkz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2hkz RCSB], [http://www.ebi.ac.uk/pdbsum/2hkz 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=2hkz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hkz OCA], [http://pdbe.org/2hkz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2hkz RCSB], [http://www.ebi.ac.uk/pdbsum/2hkz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2hkz ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/hk/2hkz_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/hk/2hkz_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>

OCA at 12:15, 7 February 2016

OCA — Sun, 07 Feb 2016 12:15:49 GMT

←Older revision		Revision as of 12:15, 7 February 2016
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	<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=2hkz ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 01:25, 10 September 2015

OCA — Thu, 10 Sep 2015 01:25:22 GMT

←Older revision		Revision as of 01:25, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='2hkz' size='340' side='right' caption='[[2hkz]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='2hkz' size='340' side='right' caption='[[2hkz]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2hkz]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Pyrococcus_abyssi Pyrococcus~~ abyssi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HKZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2HKZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2hkz]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"pyrococcus_abyssi"_erauso_et_al._1993 "pyrococcus abyssi" erauso et al. 1993]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HKZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2HKZ FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SER:SERINE'>SER</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SER:SERINE'>SER</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1y2q\|1y2q]], [[2hl0\|2hl0]], [[2hl1\|2hl1]], [[2hl2\|2hl2]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1y2q\|1y2q]], [[2hl0\|2hl0]], [[2hl1\|2hl1]], [[2hl2\|2hl2]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Threonine--tRNA_ligase Threonine--tRNA ligase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.1.1.3 6.1.1.3] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Threonine--tRNA_ligase Threonine--tRNA ligase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.1.1.3 6.1.1.3] </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=2hkz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hkz OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2hkz RCSB], [http://www.ebi.ac.uk/pdbsum/2hkz 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=2hkz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hkz OCA], [http://pdbe.org/2hkz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2hkz RCSB], [http://www.ebi.ac.uk/pdbsum/2hkz PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	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 2hkz" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 33:		Line 34:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Pyrococcus abyssi]]	+	[[Category: Pyrococcus abyssi erauso et al. 1993]]
	[[Category: Threonine--tRNA ligase]]		[[Category: Threonine--tRNA ligase]]
	[[Category: Dwivedi, S]]		[[Category: Dwivedi, S]]

OCA at 08:49, 16 January 2015

OCA — Fri, 16 Jan 2015 08:49:50 GMT

←Older revision		Revision as of 08:49, 16 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2hkz]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pyrococcus_abyssi Pyrococcus abyssi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HKZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2HKZ FirstGlance]. <br>		<table><tr><td colspan='2'>[[2hkz]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pyrococcus_abyssi Pyrococcus abyssi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HKZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2HKZ FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SER:SERINE'>SER</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SER:SERINE'>SER</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1y2q\|1y2q]], [[2hl0\|2hl0]], [[2hl1\|2hl1]], [[2hl2\|2hl2]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1y2q\|1y2q]], [[2hl0\|2hl0]], [[2hl1\|2hl1]], [[2hl2\|2hl2]]</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Threonine--tRNA_ligase Threonine--tRNA ligase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.1.1.3 6.1.1.3] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Threonine--tRNA_ligase Threonine--tRNA ligase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.1.1.3 6.1.1.3] </span></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=2hkz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hkz OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2hkz RCSB], [http://www.ebi.ac.uk/pdbsum/2hkz 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=2hkz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hkz OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2hkz RCSB], [http://www.ebi.ac.uk/pdbsum/2hkz PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 35:		Line 35:
	[[Category: Pyrococcus abyssi]]		[[Category: Pyrococcus abyssi]]
	[[Category: Threonine--tRNA ligase]]		[[Category: Threonine--tRNA ligase]]
-	[[Category: Dwivedi, S.]]	+	[[Category: Dwivedi, S]]
-	[[Category: Kruparani, S P.]]	+	[[Category: Kruparani, S P]]
-	[[Category: Sankaranarayanan, R.]]	+	[[Category: Sankaranarayanan, R]]
	[[Category: Aminoacyl-trna synthetase]]		[[Category: Aminoacyl-trna synthetase]]
	[[Category: Editing]]		[[Category: Editing]]

OCA at 04:58, 29 September 2014

OCA — Mon, 29 Sep 2014 04:58:53 GMT

←Older revision		Revision as of 04:58, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2hkz.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of the editing domain of threonyl-tRNA synthetase from Pyrococcus abyssi in complex with L-serine==
		+	<StructureSection load='2hkz' size='340' side='right' caption='[[2hkz]], [[Resolution\|resolution]] 2.10Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2hkz]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pyrococcus_abyssi Pyrococcus abyssi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HKZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2HKZ FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SER:SERINE'>SER</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1y2q\|1y2q]], [[2hl0\|2hl0]], [[2hl1\|2hl1]], [[2hl2\|2hl2]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Threonine--tRNA_ligase Threonine--tRNA ligase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.1.1.3 6.1.1.3] </span></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=2hkz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hkz OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2hkz RCSB], [http://www.ebi.ac.uk/pdbsum/2hkz PDBsum]</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/hk/2hkz_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 ==
		+	To ensure a high fidelity during translation, threonyl-tRNA synthetases (ThrRSs) harbor an editing domain that removes noncognate L-serine attached to tRNAThr. Most archaeal ThrRSs possess a unique editing domain structurally similar to D-aminoacyl-tRNA deacylases (DTDs) found in eubacteria and eukaryotes that specifically removes D-amino acids attached to tRNA. Here, we provide mechanistic insights into the removal of noncognate L-serine from tRNAThr by a DTD-like editing module from Pyrococcus abyssi ThrRS (Pab-NTD). High-resolution crystal structures of Pab-NTD with pre- and post-transfer substrate analogs and with L-serine show mutually nonoverlapping binding sites for the seryl moiety. Although the pre-transfer editing is excluded, the analysis reveals the importance of main chain atoms in proper positioning of the post-transfer substrate for its hydrolysis. A single residue has been shown to play a pivotal role in the inversion of enantioselectivity both in Pab-NTD and DTD. The study identifies an enantioselectivity checkpoint that filters opposite chiral molecules and thus provides a fascinating example of how nature has subtly engineered this domain for the selection of chiral molecules during translation.

-	~~{{STRUCTURE_2hkz\| PDB=2hkz \| SCENE= }}~~	+	Post-transfer editing mechanism of a D-aminoacyl-tRNA deacylase-like domain in threonyl-tRNA synthetase from archaea.,Hussain T, Kruparani SP, Pal B, Dock-Bregeon AC, Dwivedi S, Shekar MR, Sureshbabu K, Sankaranarayanan R EMBO J. 2006 Sep 6;25(17):4152-62. Epub 2006 Aug 10. PMID:16902403<ref>PMID:16902403</ref>

-	~~===Crystal structure~~ of the ~~editing domain of threonyl-tRNA synthetase from Pyrococcus abyssi in complex with L-serine===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_16902403}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[2hkz]] is a 1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Pyrococcus_abyssi Pyrococcus abyssi]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2HKZ OCA].~~	+

	==See Also==		==See Also==
	*[[Aminoacyl tRNA Synthetase\|Aminoacyl tRNA Synthetase]]		*[[Aminoacyl tRNA Synthetase\|Aminoacyl tRNA Synthetase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:016902403<~~/~~ref~~><~~ref group="xtra">PMID:015908961</ref><references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Pyrococcus abyssi]]		[[Category: Pyrococcus abyssi]]
	[[Category: Threonine--tRNA ligase]]		[[Category: Threonine--tRNA ligase]]

OCA at 06:36, 20 October 2012

OCA — Sat, 20 Oct 2012 06:36:35 GMT

←Older revision		Revision as of 06:36, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[2hkz]] is a 1 chain structure ~~of [[Aminoacyl tRNA Synthetase]]~~ with sequence from [http://en.wikipedia.org/wiki/Pyrococcus_abyssi Pyrococcus abyssi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HKZ OCA].	+	[[2hkz]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pyrococcus_abyssi Pyrococcus abyssi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HKZ OCA].

	==See Also==		==See Also==

OCA at 13:43, 25 July 2012

OCA — Wed, 25 Jul 2012 13:43:56 GMT

←Older revision		Revision as of 13:43, 25 July 2012
Line 1:		Line 1:
	[[Image:2hkz.png\|left\|200px]]		[[Image:2hkz.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2hkz", 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.
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	{{STRUCTURE_2hkz\| PDB=2hkz \| SCENE= }}		{{STRUCTURE_2hkz\| PDB=2hkz \| SCENE= }}

	===Crystal structure of the editing domain of threonyl-tRNA synthetase from Pyrococcus abyssi in complex with L-serine===		===Crystal structure of the editing domain of threonyl-tRNA synthetase from Pyrococcus abyssi in complex with L-serine===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_16902403}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 16902403 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_16902403}}		{{ABSTRACT_PUBMED_16902403}}

	==About this Structure==		==About this Structure==
-	[[2hkz]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pyrococcus_abyssi Pyrococcus abyssi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HKZ OCA].	+	[[2hkz]] is a 1 chain structure of [[Aminoacyl tRNA Synthetase]] with sequence from [http://en.wikipedia.org/wiki/Pyrococcus_abyssi Pyrococcus abyssi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HKZ OCA].
		+
		+	==See Also==
		+	*[[Aminoacyl tRNA Synthetase\|Aminoacyl tRNA Synthetase]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~16902403~~</ref><ref group="xtra">PMID:~~15908961~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:016902403</ref><ref group="xtra">PMID:015908961</ref><references group="xtra"/>
	[[Category: Pyrococcus abyssi]]		[[Category: Pyrococcus abyssi]]
	[[Category: Threonine--tRNA ligase]]		[[Category: Threonine--tRNA ligase]]