2vpy - Revision history

OCA at 17:31, 8 September 2026

2026-09-08T17:31:42Z

← Older revision		Revision as of 17:31, 8 September 2026
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	<table><tr><td colspan='2'>[[2vpy]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus_HB27 Thermus thermophilus HB27]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VPY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2VPY FirstGlance]. <br>		<table><tr><td colspan='2'>[[2vpy]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus_HB27 Thermus thermophilus HB27]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VPY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2VPY FirstGlance]. <br>
	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 2.5Å</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]] 2.5Å</td></tr>
	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MGD:2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,7,8A,9-TETRAHYDRO-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-4-ONE+GUANOSINE+DINUCLEOTIDE'>MGD</scene>, <scene name='pdbligand=MO:MOLYBDENUM+ATOM'>MO</scene>, <scene name='pdbligand=PCI:PENTACHLOROPHENOL'>PCI~~</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4~~</scene></td></tr>		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MGD:2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,7,8A,9-TETRAHYDRO-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-4-ONE+GUANOSINE+DINUCLEOTIDE'>MGD</scene>, <scene name='pdbligand=MO:MOLYBDENUM+ATOM'>MO</scene>, <scene name='pdbligand=PCI:PENTACHLOROPHENOL'>PCI</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=2vpy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vpy OCA], [https://pdbe.org/2vpy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2vpy RCSB], [https://www.ebi.ac.uk/pdbsum/2vpy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2vpy 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=2vpy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vpy OCA], [https://pdbe.org/2vpy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2vpy RCSB], [https://www.ebi.ac.uk/pdbsum/2vpy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2vpy ProSAT]</span></td></tr>
	</table>		</table>
Line 15:		Line 15:
	<jmolCheckbox>		<jmolCheckbox>
	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/vp/2vpy_consurf.spt"</scriptWhenChecked>		<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/vp/2vpy_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/~~initialview01~~.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>

OCA at 10:03, 9 May 2024

2024-05-09T10:03:03Z

← Older revision		Revision as of 10:03, 9 May 2024
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	<StructureSection load='2vpy' size='340' side='right'caption='[[2vpy]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='2vpy' size='340' side='right'caption='[[2vpy]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2vpy]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Thermus_thermophilus~~ Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VPY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2VPY FirstGlance]. <br>		<table><tr><td colspan='2'>[[2vpy]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus_HB27 Thermus thermophilus HB27]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VPY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2VPY FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MGD:2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,7,8A,9-TETRAHYDRO-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-4-ONE+GUANOSINE+DINUCLEOTIDE'>MGD</scene>, <scene name='pdbligand=MO:MOLYBDENUM+ATOM'>MO</scene>, <scene name='pdbligand=PCI:PENTACHLOROPHENOL'>PCI</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</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]] 2.5Å</td></tr>
	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2vpw\|2vpw]], [[2vpx\|2vpx]], [[2vpz\|2vpz]]</div~~></td></tr>		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MGD:2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,7,8A,9-TETRAHYDRO-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-4-ONE+GUANOSINE+DINUCLEOTIDE'>MGD</scene>, <scene name='pdbligand=MO:MOLYBDENUM+ATOM'>MO</scene>, <scene name='pdbligand=PCI:PENTACHLOROPHENOL'>PCI</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</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=2vpy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vpy OCA], [https://pdbe.org/2vpy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2vpy RCSB], [https://www.ebi.ac.uk/pdbsum/2vpy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2vpy 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=2vpy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vpy OCA], [https://pdbe.org/2vpy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2vpy RCSB], [https://www.ebi.ac.uk/pdbsum/2vpy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2vpy ProSAT]</span></td></tr>
	</table>		</table>
			== Function ==
			[https://www.uniprot.org/uniprot/Q72LA4_THET2 Q72LA4_THET2]
	== 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: Thermus thermophilus]]		[[Category: Thermus thermophilus HB27]]
	[[Category: Akimoto, S]]		[[Category: Akimoto S]]
	[[Category: Curmi, P]]		[[Category: Curmi P]]
	[[Category: Iwata, S]]		[[Category: Iwata S]]
	[[Category: Jormakka, M]]		[[Category: Jormakka M]]
	[[Category: Shimamura, T]]		[[Category: Shimamura T]]
	[[Category: Tamakoshi, M]]		[[Category: Tamakoshi M]]
	[[Category: Yano, T]]		[[Category: Yano T]]
	[[Category: Yokoyama, K]]		[[Category: Yokoyama K]]
	~~[[Category: 4fe-4]]~~
	~~[[Category: Fe4s4]]~~
	~~[[Category: Integral membrane protein]]~~
	~~[[Category: Iron]]~~
	~~[[Category: Iron sulfur cluster]]~~
	~~[[Category: Iron-sulfur]]~~
	~~[[Category: Metal-binding]]~~
	~~[[Category: Mgd]]~~
	~~[[Category: Molybdenum]]~~
	~~[[Category: Molybdopterin]]~~
	~~[[Category: Molybdopterin guanine dinucleotide]]~~
	~~[[Category: Mpt]]~~
	~~[[Category: Oxidoreductase~~]]

OCA at 11:43, 30 March 2022

2022-03-30T11:43:15Z

← Older revision		Revision as of 11:43, 30 March 2022
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	<StructureSection load='2vpy' size='340' side='right'caption='[[2vpy]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='2vpy' size='340' side='right'caption='[[2vpy]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2vpy]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VPY OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=2VPY FirstGlance]. <br>		<table><tr><td colspan='2'>[[2vpy]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VPY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2VPY FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MGD:2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,7,8A,9-TETRAHYDRO-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-4-ONE+GUANOSINE+DINUCLEOTIDE'>MGD</scene>, <scene name='pdbligand=MO:MOLYBDENUM+ATOM'>MO</scene>, <scene name='pdbligand=PCI:PENTACHLOROPHENOL'>PCI</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MGD:2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,7,8A,9-TETRAHYDRO-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-4-ONE+GUANOSINE+DINUCLEOTIDE'>MGD</scene>, <scene name='pdbligand=MO:MOLYBDENUM+ATOM'>MO</scene>, <scene name='pdbligand=PCI:PENTACHLOROPHENOL'>PCI</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2vpw\|2vpw]], [[2vpx\|2vpx]], [[2vpz\|2vpz]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2vpw\|2vpw]], [[2vpx\|2vpx]], [[2vpz\|2vpz]]</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=2vpy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vpy OCA], [~~http~~://pdbe.org/2vpy PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2vpy RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2vpy PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2vpy 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=2vpy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vpy OCA], [https://pdbe.org/2vpy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2vpy RCSB], [https://www.ebi.ac.uk/pdbsum/2vpy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2vpy ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==

OCA at 08:19, 25 June 2020

2020-06-25T08:19:20Z

← Older revision		Revision as of 08:19, 25 June 2020
Line 1:		Line 1:

	==Polysulfide reductase with bound quinone inhibitor, pentachlorophenol (PCP)==		==Polysulfide reductase with bound quinone inhibitor, pentachlorophenol (PCP)==
	<StructureSection load='2vpy' size='340' side='right' caption='[[2vpy]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='2vpy' size='340' side='right'caption='[[2vpy]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2vpy]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VPY OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2VPY FirstGlance]. <br>		<table><tr><td colspan='2'>[[2vpy]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VPY OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2VPY FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MGD:2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,7,8A,9-TETRAHYDRO-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-4-ONE+GUANOSINE+DINUCLEOTIDE'>MGD</scene>, <scene name='pdbligand=MO:MOLYBDENUM+ATOM'>MO</scene>, <scene name='pdbligand=PCI:PENTACHLOROPHENOL'>PCI</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MGD:2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,7,8A,9-TETRAHYDRO-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-4-ONE+GUANOSINE+DINUCLEOTIDE'>MGD</scene>, <scene name='pdbligand=MO:MOLYBDENUM+ATOM'>MO</scene>, <scene name='pdbligand=PCI:PENTACHLOROPHENOL'>PCI</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2vpw\|2vpw]], [[2vpx\|2vpx]], [[2vpz\|2vpz]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2vpw\|2vpw]], [[2vpx\|2vpx]], [[2vpz\|2vpz]]</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=2vpy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vpy OCA], [http://pdbe.org/2vpy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2vpy RCSB], [http://www.ebi.ac.uk/pdbsum/2vpy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2vpy 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=2vpy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vpy OCA], [http://pdbe.org/2vpy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2vpy RCSB], [http://www.ebi.ac.uk/pdbsum/2vpy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2vpy ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
			[[Category: Large Structures]]
	[[Category: Thermus thermophilus]]		[[Category: Thermus thermophilus]]
	[[Category: Akimoto, S]]		[[Category: Akimoto, S]]

OCA at 20:39, 19 September 2018

2018-09-19T20:39:15Z

← Older revision		Revision as of 20:39, 19 September 2018
Line 1:		Line 1:
	==~~POLYSULFIDE REDUCTASE WITH BOUND QUINONE INHIBITOR~~, ~~PENTACHLOROPHENOL~~ (PCP)==
			==Polysulfide reductase with bound quinone inhibitor, pentachlorophenol (PCP)==
	<StructureSection load='2vpy' size='340' side='right' caption='[[2vpy]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='2vpy' size='340' side='right' caption='[[2vpy]], [[Resolution\|resolution]] 2.50Å' 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=MGD:2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,7,8A,9-TETRAHYDRO-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-4-ONE+GUANOSINE+DINUCLEOTIDE'>MGD</scene>, <scene name='pdbligand=MO:MOLYBDENUM+ATOM'>MO</scene>, <scene name='pdbligand=PCI:PENTACHLOROPHENOL'>PCI</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MGD:2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,7,8A,9-TETRAHYDRO-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-4-ONE+GUANOSINE+DINUCLEOTIDE'>MGD</scene>, <scene name='pdbligand=MO:MOLYBDENUM+ATOM'>MO</scene>, <scene name='pdbligand=PCI:PENTACHLOROPHENOL'>PCI</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2vpw\|2vpw]], [[2vpx\|2vpx]], [[2vpz\|2vpz]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2vpw\|2vpw]], [[2vpx\|2vpx]], [[2vpz\|2vpz]]</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=2vpy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vpy OCA], [http://pdbe.org/2vpy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2vpy RCSB], [http://www.ebi.ac.uk/pdbsum/2vpy 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=2vpy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vpy OCA], [http://pdbe.org/2vpy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2vpy RCSB], [http://www.ebi.ac.uk/pdbsum/2vpy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2vpy 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/vp/2vpy_consurf.spt"</scriptWhenChecked>		<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/vp/2vpy_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 39:		Line 40:
	[[Category: Yano, T]]		[[Category: Yano, T]]
	[[Category: Yokoyama, K]]		[[Category: Yokoyama, K]]
			[[Category: 4fe-4]]
	[[Category: Fe4s4]]		[[Category: Fe4s4]]
	[[Category: Integral membrane protein]]		[[Category: Integral membrane protein]]

OCA at 16:14, 8 February 2016

2016-02-08T16:14:23Z

← Older revision		Revision as of 16:14, 8 February 2016
Line 5:		Line 5:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MGD:2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,7,8A,9-TETRAHYDRO-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-4-ONE+GUANOSINE+DINUCLEOTIDE'>MGD</scene>, <scene name='pdbligand=MO:MOLYBDENUM+ATOM'>MO</scene>, <scene name='pdbligand=PCI:PENTACHLOROPHENOL'>PCI</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MGD:2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,7,8A,9-TETRAHYDRO-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-4-ONE+GUANOSINE+DINUCLEOTIDE'>MGD</scene>, <scene name='pdbligand=MO:MOLYBDENUM+ATOM'>MO</scene>, <scene name='pdbligand=PCI:PENTACHLOROPHENOL'>PCI</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2vpw\|2vpw]], [[2vpx\|2vpx]], [[2vpz\|2vpz]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2vpw\|2vpw]], [[2vpx\|2vpx]], [[2vpz\|2vpz]]</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=2vpy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vpy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2vpy RCSB], [http://www.ebi.ac.uk/pdbsum/2vpy 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=2vpy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vpy OCA], [http://pdbe.org/2vpy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2vpy RCSB], [http://www.ebi.ac.uk/pdbsum/2vpy 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=2vpy 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 2vpy" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 13:22, 19 January 2015

2015-01-19T13:22:57Z

← Older revision		Revision as of 13:22, 19 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2vpy]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VPY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VPY FirstGlance]. <br>		<table><tr><td colspan='2'>[[2vpy]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VPY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VPY FirstGlance]. <br>
	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MGD:2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,7,8A,9-TETRAHYDRO-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-4-ONE+GUANOSINE+DINUCLEOTIDE'>MGD</scene>, <scene name='pdbligand=MO:MOLYBDENUM+ATOM'>MO</scene>, <scene name='pdbligand=PCI:PENTACHLOROPHENOL'>PCI</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene><br>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MGD:2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,7,8A,9-TETRAHYDRO-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-4-ONE+GUANOSINE+DINUCLEOTIDE'>MGD</scene>, <scene name='pdbligand=MO:MOLYBDENUM+ATOM'>MO</scene>, <scene name='pdbligand=PCI:PENTACHLOROPHENOL'>PCI</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene></td></tr>
	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2vpw\|2vpw]], [[2vpx\|2vpx]], [[2vpz\|2vpz]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2vpw\|2vpw]], [[2vpx\|2vpx]], [[2vpz\|2vpz]]</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=2vpy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vpy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2vpy RCSB], [http://www.ebi.ac.uk/pdbsum/2vpy 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=2vpy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vpy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2vpy RCSB], [http://www.ebi.ac.uk/pdbsum/2vpy 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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	</StructureSection>		</StructureSection>
	[[Category: Thermus thermophilus]]		[[Category: Thermus thermophilus]]
	[[Category: Akimoto, S.]]		[[Category: Akimoto, S]]
	[[Category: Curmi, P.]]		[[Category: Curmi, P]]
	[[Category: Iwata, S.]]		[[Category: Iwata, S]]
	[[Category: Jormakka, M.]]		[[Category: Jormakka, M]]
	[[Category: Shimamura, T.]]		[[Category: Shimamura, T]]
	[[Category: Tamakoshi, M.]]		[[Category: Tamakoshi, M]]
	[[Category: Yano, T.]]		[[Category: Yano, T]]
	[[Category: Yokoyama, K.]]		[[Category: Yokoyama, K]]
	[[Category: Fe4s4]]		[[Category: Fe4s4]]
	[[Category: Integral membrane protein]]		[[Category: Integral membrane protein]]

OCA at 01:17, 1 October 2014

2014-10-01T01:17:24Z

← Older revision		Revision as of 01:17, 1 October 2014
Line 1:		Line 1:
	[[Image:~~2vpy~~.~~png~~\|~~left~~\|~~200px~~]]		==POLYSULFIDE REDUCTASE WITH BOUND QUINONE INHIBITOR, PENTACHLOROPHENOL (PCP)==
			<StructureSection load='2vpy' size='340' side='right' caption='[[2vpy]], [[Resolution\|resolution]] 2.50Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[2vpy]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VPY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VPY FirstGlance]. <br>
			</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MGD:2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,7,8A,9-TETRAHYDRO-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-4-ONE+GUANOSINE+DINUCLEOTIDE'>MGD</scene>, <scene name='pdbligand=MO:MOLYBDENUM+ATOM'>MO</scene>, <scene name='pdbligand=PCI:PENTACHLOROPHENOL'>PCI</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene><br>
			<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2vpw\|2vpw]], [[2vpx\|2vpx]], [[2vpz\|2vpz]]</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=2vpy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vpy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2vpy RCSB], [http://www.ebi.ac.uk/pdbsum/2vpy 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/vp/2vpy_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 ==
			Bacterial polysulfide reductase (PsrABC) is an integral membrane protein complex responsible for quinone-coupled reduction of polysulfide, a process important in extreme environments such as deep-sea vents and hot springs. We determined the structure of polysulfide reductase from Thermus thermophilus at 2.4-A resolution, revealing how the PsrA subunit recognizes and reduces its unique polyanionic substrate. The integral membrane subunit PsrC was characterized using the natural substrate menaquinone-7 and inhibitors, providing a comprehensive representation of a quinone binding site and revealing the presence of a water-filled cavity connecting the quinone binding site on the periplasmic side to the cytoplasm. These results suggest that polysulfide reductase could be a key energy-conserving enzyme of the T. thermophilus respiratory chain, using polysulfide as the terminal electron acceptor and pumping protons across the membrane via a previously unknown mechanism.

	~~{{STRUCTURE_2vpy\| PDB=2vpy \| SCENE= }}~~		Molecular mechanism of energy conservation in polysulfide respiration.,Jormakka M, Yokoyama K, Yano T, Tamakoshi M, Akimoto S, Shimamura T, Curmi P, Iwata S Nat Struct Mol Biol. 2008 Jul;15(7):730-7. Epub 2008 Jun 8. PMID:18536726<ref>PMID:18536726</ref>

	~~===POLYSULFIDE REDUCTASE WITH BOUND QUINONE INHIBITOR~~, ~~PENTACHLOROPHENOL (PCP)===~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
	~~{{ABSTRACT_PUBMED_18536726}}~~		== References ==
			<references/>
	==~~About this Structure~~==		__TOC__
	~~[[2vpy]] is a 6 chain structure with sequence from [http:~~//~~en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VPY OCA].~~		</StructureSection>
	[[Category: Thermus thermophilus]]		[[Category: Thermus thermophilus]]
	[[Category: Akimoto, S.]]		[[Category: Akimoto, S.]]

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

2013-01-07T20:41:36Z

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

← Older revision	Revision as of 20:41, 7 January 2013
(No difference)

OCA at 20:41, 7 January 2013

2013-01-07T20:41:34Z

← Older revision		Revision as of 20:41, 7 January 2013
Line 1:		Line 1:
	~~{{Seed}}~~
	[[Image:2vpy.png\|left\|200px]]		[[Image:2vpy.png\|left\|200px]]

	~~<!--~~
	~~The line below this paragraph, containing "STRUCTURE_2vpy", 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_2vpy\| PDB=2vpy \| SCENE= }}		{{STRUCTURE_2vpy\| PDB=2vpy \| SCENE= }}

	===POLYSULFIDE REDUCTASE WITH BOUND QUINONE INHIBITOR, PENTACHLOROPHENOL (PCP)===		===POLYSULFIDE REDUCTASE WITH BOUND QUINONE INHIBITOR, PENTACHLOROPHENOL (PCP)===

			{{ABSTRACT_PUBMED_18536726}}

	==About this Structure==		==About this Structure==
	~~2VPY~~ is a 6 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VPY OCA].		[[2vpy]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VPY OCA].
	[[Category: Thermus thermophilus]]		[[Category: Thermus thermophilus]]
	[[Category: Akimoto, S.]]		[[Category: Akimoto, S.]]
Line 24:		Line 18:
	[[Category: Yano, T.]]		[[Category: Yano, T.]]
	[[Category: Yokoyama, K.]]		[[Category: Yokoyama, K.]]
	~~[[Category: 4fe-4]]~~
	[[Category: Fe4s4]]		[[Category: Fe4s4]]
	[[Category: Integral membrane protein]]		[[Category: Integral membrane protein]]
Line 37:		Line 30:
	[[Category: Mpt]]		[[Category: Mpt]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]

	~~''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 00:21:52 2009''~~