2qqe - Revision history

OCA at 09:17, 21 February 2024

OCA — Wed, 21 Feb 2024 09:17:23 GMT

←Older revision		Revision as of 09:17, 21 February 2024
Line 3:		Line 3:
	<StructureSection load='2qqe' size='340' side='right'caption='[[2qqe]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='2qqe' size='340' side='right'caption='[[2qqe]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2qqe]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Atcc_43589 Atcc 43589~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QQE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2QQE FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2qqe]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermotoga_maritima Thermotoga maritima]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QQE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2QQE FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=THM:THYMIDINE'>THM</scene>~~, ~~<scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 1.9Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>~~[[~~Related_structure~~\|~~Related:~~]]~~</b></td><td class="sblockDat"><div style='overflow: auto~~; ~~max-height: 3em;'>[[2qpo\|2qpo]], [[2qq0\|2qq0]]</div>~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=THM:THYMIDINE'>THM</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>tdk ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~2336 ATCC 43589])</td~~><~~/tr>~~	+
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[https://en.wikipedia.org/wiki/Thymidine_kinase Thymidine kinase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.21 2.7.1.21]~~ </~~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=2qqe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qqe OCA], [https://pdbe.org/2qqe PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2qqe RCSB], [https://www.ebi.ac.uk/pdbsum/2qqe PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2qqe 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=2qqe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qqe OCA], [https://pdbe.org/2qqe PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2qqe RCSB], [https://www.ebi.ac.uk/pdbsum/2qqe PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2qqe ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/KITH_THEMA KITH_THEMA]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 20:		Line 20:
	</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=2qqe 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=2qqe ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The human cytosolic thymidine kinase (TK) and structurally related TKs in prokaryotes play a crucial role in the synthesis and regulation of the cellular thymidine triphosphate pool. We report the crystal structures of the TK homotetramer from Thermotoga maritima in four different states: its apo-form, a binary complex with thymidine, as well as the ternary structures with the two substrates (thymidine/AppNHp) and the reaction products (TMP/ADP). In combination with fluorescence spectroscopy and mutagenesis experiments, our results demonstrate that ATP binding is linked to a substantial reorganization of the enzyme quaternary structure, leading to a transition from a closed, inactive conformation to an open, catalytic state. We hypothesize that these structural changes are relevant to enzyme function in situ as part of the catalytic cycle and serve an important role in regulating enzyme activity by amplifying the effects of feedback inhibitor binding.
-
-	Quaternary structure change as a mechanism for the regulation of thymidine kinase 1-like enzymes.,Segura-Pena D, Lichter J, Trani M, Konrad M, Lavie A, Lutz S Structure. 2007 Dec;15(12):1555-66. PMID:18073106<ref>PMID:18073106</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 2qqe" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
-	*[[Thymidine kinase\|Thymidine kinase]]	+	*[[Thymidine kinase 3D structures\|Thymidine kinase 3D structures]]
-	~~== References ==~~	+
-	~~<references/>~~	+
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Atcc 43589]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Thymidine kinase~~]]	+	[[Category: Thermotoga maritima]]
-	[[Category: Konrad, M]]	+	[[Category: Konrad M]]
-	[[Category: Lavie, A]]	+	[[Category: Lavie A]]
-	[[Category: Lichter, J]]	+	[[Category: Lichter J]]
-	[[Category: Lutz, S]]	+	[[Category: Lutz S]]
-	[[Category: Segura-Pena, D]]	+	[[Category: Segura-Pena D]]
-	[[Category: Trani, M]]	+	[[Category: Trani M]]
-	~~[[Category: Atp-binding]]~~	+
-	~~[[Category: Close conformation]]~~	+
-	~~[[Category: Cytoplasm]]~~	+
-	~~[[Category: Dna synthesis]]~~	+
-	~~[[Category: Kinase]]~~	+
-	~~[[Category: Nucleotide-binding]]~~	+
-	~~[[Category: Tmtk in complex with thymidine]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 08:29, 25 June 2021

OCA — Fri, 25 Jun 2021 08:29:19 GMT

←Older revision		Revision as of 08:29, 25 June 2021
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	==Thymidine Kinase from Thermotoga Maritima in complex with Thymidine==		==Thymidine Kinase from Thermotoga Maritima in complex with Thymidine==
-	<StructureSection load='2qqe' size='340' side='right' caption='[[2qqe]], [[Resolution\|resolution]] 1.90Å' scene=''>	+	<StructureSection load='2qqe' size='340' side='right'caption='[[2qqe]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2qqe]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Atcc_43589 Atcc 43589]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QQE OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2QQE FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2qqe]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_43589 Atcc 43589]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QQE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2QQE FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=THM:THYMIDINE'>THM</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=THM:THYMIDINE'>THM</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2qpo\|2qpo]], [[2qq0\|2qq0]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2qpo\|2qpo]], [[2qq0\|2qq0]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">tdk ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2336 ATCC 43589])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">tdk ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2336 ATCC 43589])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Thymidine_kinase Thymidine kinase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.21 2.7.1.21] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Thymidine_kinase Thymidine kinase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.21 2.7.1.21] </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=2qqe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qqe OCA], [~~http~~://pdbe.org/2qqe PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2qqe RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2qqe PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2qqe 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=2qqe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qqe OCA], [https://pdbe.org/2qqe PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2qqe RCSB], [https://www.ebi.ac.uk/pdbsum/2qqe PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2qqe ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 37:		Line 37:
	</StructureSection>		</StructureSection>
	[[Category: Atcc 43589]]		[[Category: Atcc 43589]]
		+	[[Category: Large Structures]]
	[[Category: Thymidine kinase]]		[[Category: Thymidine kinase]]
	[[Category: Konrad, M]]		[[Category: Konrad, M]]

OCA at 11:32, 5 September 2018

OCA — Wed, 05 Sep 2018 11:32:11 GMT

←Older revision		Revision as of 11:32, 5 September 2018
Line 1:		Line 1:
		+
	==Thymidine Kinase from Thermotoga Maritima in complex with Thymidine==		==Thymidine Kinase from Thermotoga Maritima in complex with Thymidine==
	<StructureSection load='2qqe' size='340' side='right' caption='[[2qqe]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='2qqe' size='340' side='right' caption='[[2qqe]], [[Resolution\|resolution]] 1.90Å' scene=''>
Line 7:		Line 8:
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">tdk ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2336 ATCC 43589])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">tdk ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2336 ATCC 43589])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Thymidine_kinase Thymidine kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.21 2.7.1.21] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Thymidine_kinase Thymidine kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.21 2.7.1.21] </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=2qqe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qqe OCA], [http://pdbe.org/2qqe PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2qqe RCSB], [http://www.ebi.ac.uk/pdbsum/2qqe 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=2qqe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qqe OCA], [http://pdbe.org/2qqe PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2qqe RCSB], [http://www.ebi.ac.uk/pdbsum/2qqe PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2qqe ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 13:		Line 14:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/qq/2qqe_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/qq/2qqe_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>
Line 45:		Line 46:
	[[Category: Atp-binding]]		[[Category: Atp-binding]]
	[[Category: Close conformation]]		[[Category: Close conformation]]
		+	[[Category: Cytoplasm]]
	[[Category: Dna synthesis]]		[[Category: Dna synthesis]]
	[[Category: Kinase]]		[[Category: Kinase]]

OCA at 03:54, 10 February 2016

OCA — Wed, 10 Feb 2016 03:54:01 GMT

←Older revision		Revision as of 03:54, 10 February 2016
Line 17:		Line 17:
	<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=2qqe ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 05:07, 11 September 2015

OCA — Fri, 11 Sep 2015 05:07:37 GMT

←Older revision		Revision as of 05:07, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='2qqe' size='340' side='right' caption='[[2qqe]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='2qqe' size='340' side='right' caption='[[2qqe]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2qqe]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Thermotoga_maritima Thermotoga maritima~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QQE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2QQE FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2qqe]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_43589 Atcc 43589]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QQE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2QQE FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=THM:THYMIDINE'>THM</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=THM:THYMIDINE'>THM</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2qpo\|2qpo]], [[2qq0\|2qq0]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2qpo\|2qpo]], [[2qq0\|2qq0]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">tdk ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2336 ~~Thermotoga maritima~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">tdk ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2336 ATCC 43589])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Thymidine_kinase Thymidine kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.21 2.7.1.21] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Thymidine_kinase Thymidine kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.21 2.7.1.21] </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=2qqe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qqe OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2qqe RCSB], [http://www.ebi.ac.uk/pdbsum/2qqe 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=2qqe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qqe OCA], [http://pdbe.org/2qqe PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2qqe RCSB], [http://www.ebi.ac.uk/pdbsum/2qqe PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 27:		Line 27:
	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 2qqe" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 34:		Line 35:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Thermotoga maritima~~]]	+	[[Category: Atcc 43589]]
	[[Category: Thymidine kinase]]		[[Category: Thymidine kinase]]
	[[Category: Konrad, M]]		[[Category: Konrad, M]]

OCA at 14:30, 19 January 2015

OCA — Mon, 19 Jan 2015 14:30:48 GMT

←Older revision		Revision as of 14:30, 19 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2qqe]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermotoga_maritima Thermotoga maritima]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QQE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2QQE FirstGlance]. <br>		<table><tr><td colspan='2'>[[2qqe]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermotoga_maritima Thermotoga maritima]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QQE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2QQE FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=THM:THYMIDINE'>THM</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=THM:THYMIDINE'>THM</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2qpo\|2qpo]], [[2qq0\|2qq0]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2qpo\|2qpo]], [[2qq0\|2qq0]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">tdk ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2336 Thermotoga maritima])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">tdk ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2336 Thermotoga maritima])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Thymidine_kinase Thymidine kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.21 2.7.1.21] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Thymidine_kinase Thymidine kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.21 2.7.1.21] </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=2qqe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qqe OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2qqe RCSB], [http://www.ebi.ac.uk/pdbsum/2qqe 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=2qqe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qqe OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2qqe RCSB], [http://www.ebi.ac.uk/pdbsum/2qqe 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 36:		Line 36:
	[[Category: Thermotoga maritima]]		[[Category: Thermotoga maritima]]
	[[Category: Thymidine kinase]]		[[Category: Thymidine kinase]]
-	[[Category: Konrad, M.]]	+	[[Category: Konrad, M]]
-	[[Category: Lavie, A.]]	+	[[Category: Lavie, A]]
-	[[Category: Lichter, J.]]	+	[[Category: Lichter, J]]
-	[[Category: Lutz, S.]]	+	[[Category: Lutz, S]]
-	[[Category: Segura-Pena, D.]]	+	[[Category: Segura-Pena, D]]
-	[[Category: Trani, M.]]	+	[[Category: Trani, M]]
	[[Category: Atp-binding]]		[[Category: Atp-binding]]
	[[Category: Close conformation]]		[[Category: Close conformation]]

OCA at 07:10, 29 September 2014

OCA — Mon, 29 Sep 2014 07:10:52 GMT

←Older revision		Revision as of 07:10, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2qqe.~~png~~\|~~left~~\|200px]]	+	==Thymidine Kinase from Thermotoga Maritima in complex with Thymidine==
		+	<StructureSection load='2qqe' size='340' side='right' caption='[[2qqe]], [[Resolution\|resolution]] 1.90Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2qqe]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermotoga_maritima Thermotoga maritima]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QQE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2QQE FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=THM:THYMIDINE'>THM</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2qpo\|2qpo]], [[2qq0\|2qq0]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">tdk ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2336 Thermotoga maritima])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Thymidine_kinase Thymidine kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.21 2.7.1.21] </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=2qqe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qqe OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2qqe RCSB], [http://www.ebi.ac.uk/pdbsum/2qqe 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/qq/2qqe_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 ==
		+	The human cytosolic thymidine kinase (TK) and structurally related TKs in prokaryotes play a crucial role in the synthesis and regulation of the cellular thymidine triphosphate pool. We report the crystal structures of the TK homotetramer from Thermotoga maritima in four different states: its apo-form, a binary complex with thymidine, as well as the ternary structures with the two substrates (thymidine/AppNHp) and the reaction products (TMP/ADP). In combination with fluorescence spectroscopy and mutagenesis experiments, our results demonstrate that ATP binding is linked to a substantial reorganization of the enzyme quaternary structure, leading to a transition from a closed, inactive conformation to an open, catalytic state. We hypothesize that these structural changes are relevant to enzyme function in situ as part of the catalytic cycle and serve an important role in regulating enzyme activity by amplifying the effects of feedback inhibitor binding.

-	~~{{STRUCTURE_2qqe\| PDB=2qqe \| SCENE= }}~~	+	Quaternary structure change as a mechanism for the regulation of thymidine kinase 1-like enzymes.,Segura-Pena D, Lichter J, Trani M, Konrad M, Lavie A, Lutz S Structure. 2007 Dec;15(12):1555-66. PMID:18073106<ref>PMID:18073106</ref>

-	~~===Thymidine Kinase from Thermotoga Maritima in complex with Thymidine===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_18073106}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[2qqe]] is~~ a ~~2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Thermotoga_maritima Thermotoga maritima]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2QQE OCA].~~	+

	==See Also==		==See Also==
	*[[Thymidine kinase\|Thymidine kinase]]		*[[Thymidine kinase\|Thymidine kinase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:018073106<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Thermotoga maritima]]		[[Category: Thermotoga maritima]]
	[[Category: Thymidine kinase]]		[[Category: Thymidine kinase]]

OCA at 16:14, 20 October 2012

OCA — Sat, 20 Oct 2012 16:14:30 GMT

←Older revision		Revision as of 16:14, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[2qqe]] is a 2 chain structure ~~of [[Thymidine kinase]]~~ with sequence from [http://en.wikipedia.org/wiki/Thermotoga_maritima Thermotoga maritima]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QQE OCA].	+	[[2qqe]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermotoga_maritima Thermotoga maritima]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QQE OCA].

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

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

OCA — Thu, 26 Jul 2012 21:02:34 GMT

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

←Older revision

Revision as of 21:02, 26 July 2012

OCA at 21:02, 26 July 2012

OCA — Thu, 26 Jul 2012 21:02:32 GMT

←Older revision		Revision as of 21:02, 26 July 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2qqe.png\|left\|200px]]		[[Image:2qqe.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2qqe", 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_2qqe\| PDB=2qqe \| SCENE= }}		{{STRUCTURE_2qqe\| PDB=2qqe \| SCENE= }}

	===Thymidine Kinase from Thermotoga Maritima in complex with Thymidine===		===Thymidine Kinase from Thermotoga Maritima in complex with Thymidine===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_18073106}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 18073106 is the PubMed ID number.
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	{{ABSTRACT_PUBMED_18073106}}		{{ABSTRACT_PUBMED_18073106}}

	==About this Structure==		==About this Structure==
-	~~2QQE~~ is a 2 ~~chains~~ structure of ~~sequences~~ from [http://en.wikipedia.org/wiki/Thermotoga_maritima Thermotoga maritima]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QQE OCA].	+	[[2qqe]] is a 2 chain structure of [[Thymidine kinase]] with sequence from [http://en.wikipedia.org/wiki/Thermotoga_maritima Thermotoga maritima]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QQE OCA].
		+
		+	==See Also==
		+	*[[Thymidine kinase\|Thymidine kinase]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~18073106~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:018073106</ref><references group="xtra"/>
	[[Category: Thermotoga maritima]]		[[Category: Thermotoga maritima]]
	[[Category: Thymidine kinase]]		[[Category: Thymidine kinase]]
Line 34:		Line 25:
	[[Category: Atp-binding]]		[[Category: Atp-binding]]
	[[Category: Close conformation]]		[[Category: Close conformation]]
-	[[Category: Cytoplasm]]
	[[Category: Dna synthesis]]		[[Category: Dna synthesis]]
	[[Category: Kinase]]		[[Category: Kinase]]
Line 40:		Line 30:
	[[Category: Tmtk in complex with thymidine]]		[[Category: Tmtk in complex with thymidine]]
	[[Category: Transferase]]		[[Category: Transferase]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 15:13:37 2009''