2w3h - Revision history

OCA at 10:07, 9 May 2024

OCA — Thu, 09 May 2024 10:07:14 GMT

←Older revision		Revision as of 10:07, 9 May 2024
Line 3:		Line 3:
	<StructureSection load='2w3h' size='340' side='right'caption='[[2w3h]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='2w3h' size='340' side='right'caption='[[2w3h]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2w3h]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"bacillus_tuberculosis"_(zopf_1883)_klein_1884 "bacillus~~ tuberculosis~~" (zopf 1883) klein 1884~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W3H OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2W3H FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2w3h]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Mycobacterium_tuberculosis Mycobacterium tuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W3H OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2W3H FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CYN:CYANIDE+ION'>CYN</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</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]] 1.8Å</td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2w3e\|2w3e]], [[2w3f\|2w3f]], [[2w3d\|2w3d]], [[2w3g\|2w3g]]</div></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CYN:CYANIDE+ION'>CYN</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</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=2w3h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2w3h OCA], [https://pdbe.org/2w3h PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2w3h RCSB], [https://www.ebi.ac.uk/pdbsum/2w3h PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2w3h 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=2w3h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2w3h OCA], [https://pdbe.org/2w3h PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2w3h RCSB], [https://www.ebi.ac.uk/pdbsum/2w3h PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2w3h ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/DEVS_MYCTU DEVS_MYCTU] Member of the two-component regulatory system DevR/DevS (DosR/DosS) involved in onset of the dormancy response. May act as a redox sensor (rather than a direct hypoxia sensor); the normal (aerobic growth) state is the Fe(3+) form, while the reduced (anaerobic growth) Fe(2+) form is probably active for phosphate transfer. It is probably reduced by flavin nucleotides such as FMN and FAD. May be the primary sensor for CO. Donates a phosphate group to DevR (DosR).<ref>PMID:15033981</ref> <ref>PMID:18474359</ref> <ref>PMID:18400743</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Cho, H J]]
-	[[Category: Cho, H Y]]
-	[[Category: Kang, B S]]
-	[[Category: Gaf domain]]
-	[[Category: Heme]]
-	[[Category: Hypoxia]]
-	[[Category: Kinase]]
	[[Category: Mycobacterium tuberculosis]]		[[Category: Mycobacterium tuberculosis]]
-	[[Category: ~~Redox sensor~~]]	+	[[Category: Cho HJ]]
-	[[Category: ~~Transferase~~]]	+	[[Category: Cho HY]]
		+	[[Category: Kang BS]]

OCA at 11:52, 30 March 2022

OCA — Wed, 30 Mar 2022 11:52:13 GMT

←Older revision		Revision as of 11:52, 30 March 2022
Line 3:		Line 3:
	<StructureSection load='2w3h' size='340' side='right'caption='[[2w3h]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='2w3h' size='340' side='right'caption='[[2w3h]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2w3h]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"bacillus_tuberculosis"_(zopf_1883)_klein_1884 "bacillus tuberculosis" (zopf 1883) klein 1884]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W3H OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=2W3H FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2w3h]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/"bacillus_tuberculosis"_(zopf_1883)_klein_1884 "bacillus tuberculosis" (zopf 1883) klein 1884]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W3H OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2W3H FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CYN:CYANIDE+ION'>CYN</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CYN:CYANIDE+ION'>CYN</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2w3e\|2w3e]], [[2w3f\|2w3f]], [[2w3d\|2w3d]], [[2w3g\|2w3g]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2w3e\|2w3e]], [[2w3f\|2w3f]], [[2w3d\|2w3d]], [[2w3g\|2w3g]]</div></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=2w3h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2w3h OCA], [~~http~~://pdbe.org/2w3h PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2w3h RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2w3h PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2w3h 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=2w3h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2w3h OCA], [https://pdbe.org/2w3h PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2w3h RCSB], [https://www.ebi.ac.uk/pdbsum/2w3h PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2w3h ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==

OCA at 08:53, 25 June 2020

OCA — Thu, 25 Jun 2020 08:53:34 GMT

←Older revision		Revision as of 08:53, 25 June 2020
Line 1:		Line 1:

	==Cyanide bound structure of the first GAF domain of Mycobacterium tuberculosis DosS==		==Cyanide bound structure of the first GAF domain of Mycobacterium tuberculosis DosS==
-	<StructureSection load='2w3h' size='340' side='right' caption='[[2w3h]], [[Resolution\|resolution]] 1.80Å' scene=''>	+	<StructureSection load='2w3h' size='340' side='right'caption='[[2w3h]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2w3h]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_tuberculosis"_(zopf_1883)_klein_1884 "bacillus tuberculosis" (zopf 1883) klein 1884]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W3H OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2W3H FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2w3h]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_tuberculosis"_(zopf_1883)_klein_1884 "bacillus tuberculosis" (zopf 1883) klein 1884]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W3H OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2W3H FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CYN:CYANIDE+ION'>CYN</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CYN:CYANIDE+ION'>CYN</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2w3e\|2w3e]], [[2w3f\|2w3f]], [[2w3d\|2w3d]], [[2w3g\|2w3g]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2w3e\|2w3e]], [[2w3f\|2w3f]], [[2w3d\|2w3d]], [[2w3g\|2w3g]]</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=2w3h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2w3h OCA], [http://pdbe.org/2w3h PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2w3h RCSB], [http://www.ebi.ac.uk/pdbsum/2w3h PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2w3h ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=2w3h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2w3h OCA], [http://pdbe.org/2w3h PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2w3h RCSB], [http://www.ebi.ac.uk/pdbsum/2w3h PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2w3h ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Cho, H J]]		[[Category: Cho, H J]]
	[[Category: Cho, H Y]]		[[Category: Cho, H Y]]

OCA at 21:11, 19 September 2018

OCA — Wed, 19 Sep 2018 21:11:48 GMT

←Older revision		Revision as of 21:11, 19 September 2018
Line 1:		Line 1:
-	==~~CYANIDE BOUND STRUCTURE OF THE FIRST~~ GAF ~~DOMAIN OF MYCOBACTERIUM TUBERCULOSIS DOSS~~==	+
		+	==Cyanide bound structure of the first GAF domain of Mycobacterium tuberculosis DosS==
	<StructureSection load='2w3h' size='340' side='right' caption='[[2w3h]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='2w3h' size='340' side='right' caption='[[2w3h]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CYN:CYANIDE+ION'>CYN</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CYN:CYANIDE+ION'>CYN</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2w3e\|2w3e]], [[2w3f\|2w3f]], [[2w3d\|2w3d]], [[2w3g\|2w3g]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2w3e\|2w3e]], [[2w3f\|2w3f]], [[2w3d\|2w3d]], [[2w3g\|2w3g]]</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=2w3h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2w3h OCA], [http://pdbe.org/2w3h PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2w3h RCSB], [http://www.ebi.ac.uk/pdbsum/2w3h 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=2w3h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2w3h OCA], [http://pdbe.org/2w3h PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2w3h RCSB], [http://www.ebi.ac.uk/pdbsum/2w3h PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2w3h ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 11:		Line 12:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/w3/2w3h_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/w3/2w3h_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 21:22, 7 February 2016

OCA — Sun, 07 Feb 2016 21:22:26 GMT

←Older revision		Revision as of 21:22, 7 February 2016
Line 2:		Line 2:
	<StructureSection load='2w3h' size='340' side='right' caption='[[2w3h]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='2w3h' size='340' side='right' caption='[[2w3h]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2w3h]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Mycobacterium_tuberculosis Mycobacterium~~ tuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W3H OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2W3H FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2w3h]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_tuberculosis"_(zopf_1883)_klein_1884 "bacillus tuberculosis" (zopf 1883) klein 1884]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W3H OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2W3H FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CYN:CYANIDE+ION'>CYN</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CYN:CYANIDE+ION'>CYN</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2w3e\|2w3e]], [[2w3f\|2w3f]], [[2w3d\|2w3d]], [[2w3g\|2w3g]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2w3e\|2w3e]], [[2w3f\|2w3f]], [[2w3d\|2w3d]], [[2w3g\|2w3g]]</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=2w3h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2w3h OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2w3h RCSB], [http://www.ebi.ac.uk/pdbsum/2w3h 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=2w3h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2w3h OCA], [http://pdbe.org/2w3h PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2w3h RCSB], [http://www.ebi.ac.uk/pdbsum/2w3h PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 15:		Line 15:
	<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=2w3h ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 25:		Line 25:
	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 2w3h" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Mycobacterium tuberculosis]]
	[[Category: Cho, H J]]		[[Category: Cho, H J]]
	[[Category: Cho, H Y]]		[[Category: Cho, H Y]]
Line 37:		Line 37:
	[[Category: Hypoxia]]		[[Category: Hypoxia]]
	[[Category: Kinase]]		[[Category: Kinase]]
		+	[[Category: Mycobacterium tuberculosis]]
	[[Category: Redox sensor]]		[[Category: Redox sensor]]
	[[Category: Transferase]]		[[Category: Transferase]]

OCA at 15:48, 19 January 2015

OCA — Mon, 19 Jan 2015 15:48:14 GMT

←Older revision		Revision as of 15:48, 19 January 2015
Line 30:		Line 30:
	</StructureSection>		</StructureSection>
	[[Category: Mycobacterium tuberculosis]]		[[Category: Mycobacterium tuberculosis]]
-	[[Category: Cho, H J.]]	+	[[Category: Cho, H J]]
-	[[Category: Cho, H Y.]]	+	[[Category: Cho, H Y]]
-	[[Category: Kang, B S.]]	+	[[Category: Kang, B S]]
	[[Category: Gaf domain]]		[[Category: Gaf domain]]
	[[Category: Heme]]		[[Category: Heme]]
	[[Category: Hypoxia]]		[[Category: Hypoxia]]
	[[Category: Kinase]]		[[Category: Kinase]]
-	[[Category: Mycobacterium tuberculosis]]
	[[Category: Redox sensor]]		[[Category: Redox sensor]]
	[[Category: Transferase]]		[[Category: Transferase]]

OCA at 06:45, 10 October 2014

OCA — Fri, 10 Oct 2014 06:45:10 GMT

←Older revision		Revision as of 06:45, 10 October 2014
Line 2:		Line 2:
	<StructureSection load='2w3h' size='340' side='right' caption='[[2w3h]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='2w3h' size='340' side='right' caption='[[2w3h]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2w3h]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Mycobacterium_tuberculosis Mycobacterium tuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W3H OCA]. <br>	+	<table><tr><td colspan='2'>[[2w3h]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Mycobacterium_tuberculosis Mycobacterium tuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W3H OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2W3H FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CYN:CYANIDE+ION'>CYN</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CYN:CYANIDE+ION'>CYN</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2w3e\|2w3e]], [[2w3f\|2w3f]], [[2w3d\|2w3d]], [[2w3g\|2w3g]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2w3e\|2w3e]], [[2w3f\|2w3f]], [[2w3d\|2w3d]], [[2w3g\|2w3g]]</td></tr>
-	<tr~~><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class~~='~~plainlinks~~'~~>[http://en.wikipedia.org/wiki/Glucokinase Glucokinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.2 2.7.1.2] </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=2w3h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2w3h OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2w3h RCSB], [http://www.ebi.ac.uk/pdbsum/2w3h PDBsum]</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=2w3h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2w3h OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2w3h RCSB], [http://www.ebi.ac.uk/pdbsum/2w3h PDBsum]</span></td></tr>	+	</table>
-	<table>	+
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	Structural insight into the heme-based redox sensing by DosS from Mycobacterium tuberculosis.,Cho HY, Cho HJ, Kim YM, Oh JI, Kang BS J Biol Chem. 2009 May 8;284(19):13057-67. Epub 2009 Mar 10. PMID:19276084<ref>PMID:19276084</ref>		Structural insight into the heme-based redox sensing by DosS from Mycobacterium tuberculosis.,Cho HY, Cho HJ, Kim YM, Oh JI, Kang BS J Biol Chem. 2009 May 8;284(19):13057-67. Epub 2009 Mar 10. PMID:19276084<ref>PMID:19276084</ref>

-	From ~~MEDLINEÂ®~~/~~PubMedÂ®~~, 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>
	== References ==		== References ==

OCA: Protected "2w3h" [edit=sysop:move=sysop]

OCA — Wed, 07 May 2014 08:36:58 GMT

Protected "2w3h" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:36, 7 May 2014

OCA at 08:36, 7 May 2014

OCA — Wed, 07 May 2014 08:36:57 GMT

←Older revision		Revision as of 08:36, 7 May 2014
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-	~~{{Seed}}~~	+	==CYANIDE BOUND STRUCTURE OF THE FIRST GAF DOMAIN OF MYCOBACTERIUM TUBERCULOSIS DOSS==
-	[[~~Image:~~2w3h.~~png~~\|~~left~~\|200px]]	+	<StructureSection load='2w3h' size='340' side='right' caption='[[2w3h]], [[Resolution\|resolution]] 1.80Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2w3h]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Mycobacterium_tuberculosis Mycobacterium tuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W3H OCA]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CYN:CYANIDE+ION'>CYN</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2w3e\|2w3e]], [[2w3f\|2w3f]], [[2w3d\|2w3d]], [[2w3g\|2w3g]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glucokinase Glucokinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.2 2.7.1.2] </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=2w3h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2w3h OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2w3h RCSB], [http://www.ebi.ac.uk/pdbsum/2w3h 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/w3/2w3h_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 ==
		+	Mycobacterium tuberculosis is thought to undergo transformation into its non-replicating persistence state under the influence of hypoxia or nitric oxide (NO). This transformation is thought to be mediated via two sensor histidine kinases, DosS and DosT, each of which contains two GAF domains that are responsible for detecting oxygen tension. In this study we determined the crystal structures of the first GAF domain (GAF-A) of DosS, which shows an interaction with a heme. A b-type heme was embedded in a hydrophobic cavity of the GAF-A domain and was roughly perpendicular to the beta-sheet of the GAF domain. The heme iron was liganded by His-149 at the proximal heme axial position. The iron, in the oxidized form, was six-coordinated with a water molecule at the distal position. Upon reduction, the iron, in ferrous form, was five-coordinated, and when the GAF domain was exposed to atmospheric O(2), the ferrous form was oxidized to generate the Met form rather than a ferrous O(2)-bound form. Because the heme is isolated inside the GAF domain, its accessibility is restricted. However, a defined hydrogen bond network found at the heme site could accelerate the electron transferability and would explain why DosS was unable to bind O(2). Flavin nucleotides were shown to reduce the heme iron of DosS while NADH was unable to do so. These results suggest that DosS is a redox sensor and detects hypoxic conditions by its reduction.

-	<!--	+	Structural insight into the heme-based redox sensing by DosS from Mycobacterium tuberculosis.,Cho HY, Cho HJ, Kim YM, Oh JI, Kang BS J Biol Chem. 2009 May 8;284(19):13057-67. Epub 2009 Mar 10. PMID:19276084<ref>PMID:19276084</ref>
-	~~The line below this paragraph~~, ~~containing "STRUCTURE_2w3h"~~, ~~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_2w3h\| PDB=2w3h \| SCENE= }}~~	+

-	~~===CYANIDE BOUND STRUCTURE OF THE FIRST GAF DOMAIN OF MYCOBACTERIUM TUBERCULOSIS DOSS===~~	+	From MEDLINEÂ®/PubMedÂ®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-		+	== References ==
-	~~<!--~~	+	<references/>
-	~~The line below this paragraph~~, ~~{{ABSTRACT_PUBMED_19276084}}, adds~~ the ~~Publication Abstract to the page~~	+	__TOC__
-	~~(as it appears on PubMed at http://www~~.~~pubmed~~.~~gov), where 19276084 is the PubMed ID number~~.	+	</StructureSection>
-	-->	+
-	~~{{ABSTRACT_PUBMED_19276084}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~2W3H is a 2 chains structure of sequences from [http:~~/~~/en.wikipedia.org/wiki/Mycobacterium_tuberculosis Mycobacterium tuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W3H OCA].~~	+
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:19276084<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Mycobacterium tuberculosis]]		[[Category: Mycobacterium tuberculosis]]
	[[Category: Cho, H J.]]		[[Category: Cho, H J.]]
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	[[Category: Redox sensor]]		[[Category: Redox sensor]]
	[[Category: Transferase]]		[[Category: Transferase]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed May 13 10:49:46 2009''

OCA at 07:49, 13 May 2009

OCA — Wed, 13 May 2009 07:49:49 GMT

←Older revision		Revision as of 07:49, 13 May 2009
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	==About this Structure==		==About this Structure==
-	2W3H is a ~~[[Single protein]]~~ structure of ~~sequence~~ from [http://en.wikipedia.org/wiki/Mycobacterium_tuberculosis Mycobacterium tuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W3H OCA].	+	2W3H is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Mycobacterium_tuberculosis Mycobacterium tuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W3H OCA].

	==Reference==		==Reference==
-	~~Structural insight into the heme-based redox sensing by DosS from mycobacterium tuberculosis., Cho HY, Cho HJ, Kim YM, Oh JI, Kang BS, J Biol Chem. 2009 Mar 10.~~ PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/19276084 19276084]~~	+	<ref group="xtra">PMID:19276084</ref><references group="xtra"/>
	[[Category: Mycobacterium tuberculosis]]		[[Category: Mycobacterium tuberculosis]]
-	[[Category: ~~Single protein~~]]	+	[[Category: Cho, H J.]]
-	[[Category: ~~Pdbx_ordinal=~~, ~~<PDBx~~:~~audit_author~~.]]	+	[[Category: Cho, H Y.]]
		+	[[Category: Kang, B S.]]
	[[Category: Gaf domain]]		[[Category: Gaf domain]]
	[[Category: Heme]]		[[Category: Heme]]
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	[[Category: Transferase]]		[[Category: Transferase]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Mar 25 20~~:43:26 2009''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed May 13 10:49:46 2009''