1z9j - Revision history

OCA at 07:06, 23 August 2023

2023-08-23T07:06:16Z

←Older revision		Revision as of 07:06, 23 August 2023
Line 3:		Line 3:
	<StructureSection load='1z9j' size='340' side='right'caption='[[1z9j]], [[Resolution\|resolution]] 4.50Å' scene=''>		<StructureSection load='1z9j' size='340' side='right'caption='[[1z9j]], [[Resolution\|resolution]] 4.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1z9j]] is a 3 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"rhodococcus_capsulatus"_molisch_1907 "rhodococcus capsulatus" molisch 1907~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z9J OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=1Z9J FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1z9j]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Cereibacter_sphaeroides Cereibacter sphaeroides]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z9J OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1Z9J FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BCL:BACTERIOCHLOROPHYLL+A'>BCL</scene>, <scene name='pdbligand=BPH:BACTERIOPHEOPHYTIN+A'>BPH</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=U10:UBIQUINONE-10'>U10</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]] 4.5Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1m3x\|1m3x]], [[1z9k\|1z9k]]</div></td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BCL:BACTERIOCHLOROPHYLL+A'>BCL</scene>, <scene name='pdbligand=BPH:BACTERIOPHEOPHYTIN+A'>BPH</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=U10:UBIQUINONE-10'>U10</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pufL ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1063 "Rhodococcus capsulatus" Molisch 1907]), pufM ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1063 "Rhodococcus capsulatus" Molisch 1907]), puhA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1063 "Rhodococcus capsulatus" Molisch 1907])</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=1z9j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z9j OCA], [https://pdbe.org/1z9j PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1z9j RCSB], [https://www.ebi.ac.uk/pdbsum/1z9j PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1z9j 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=1z9j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z9j OCA], [~~http~~://pdbe.org/1z9j PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1z9j RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1z9j PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1z9j ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/RCEL_RHOSH RCEL_RHOSH]] The reaction center is a membrane-bound complex that mediates the initial photochemical event in the electron transfer process of photosynthesis. [[http://www.uniprot.org/uniprot/RCEH_RHOSH RCEH_RHOSH]] The reaction center is a membrane-bound complex that mediates the initial photochemical event in the electron transfer process of photosynthesis. [[http://www.uniprot.org/uniprot/RCEM_RHOSH RCEM_RHOSH]] The reaction center is a membrane-bound complex that mediates the initial photochemical event in the electron transfer process of photosynthesis.	+	[https://www.uniprot.org/uniprot/RCEL_CERSP RCEL_CERSP] The reaction center is a membrane-bound complex that mediates the initial photochemical event in the electron transfer process of photosynthesis.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 34:		Line 33:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Rhodococcus capsulatus molisch 1907~~]]	+	[[Category: Cereibacter sphaeroides]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Allen~~, J P~~]]	+	[[Category: Allen JP]]
-	[[Category: Camara-Artigas, A]]	+	[[Category: Camara-Artigas A]]
-	[[Category: Kalman, L]]	+	[[Category: Kalman L]]
-	[[Category: Thielges, M]]	+	[[Category: Thielges M]]
-	[[Category: Uyeda, G]]	+	[[Category: Uyeda G]]
-	[[Category: Williams~~, J C]]~~	+	[[Category: Williams JC]]
-	~~[[Category: Alpha helix]]~~	+
-	~~[[Category: Membrane protein]]~~	+
-	~~[[Category: Mutant]]~~	+
-	~~[[Category: Photosynthesis~~]]	+

OCA at 09:00, 20 January 2021

2021-01-20T09:00:23Z

←Older revision		Revision as of 09:00, 20 January 2021
Line 1:		Line 1:

	==Photosynthetic Reaction Center from Rhodobacter sphaeroides==		==Photosynthetic Reaction Center from Rhodobacter sphaeroides==
-	<StructureSection load='1z9j' size='340' side='right' caption='[[1z9j]], [[Resolution\|resolution]] 4.50Å' scene=''>	+	<StructureSection load='1z9j' size='340' side='right'caption='[[1z9j]], [[Resolution\|resolution]] 4.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1z9j]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/"rhodococcus_capsulatus"_molisch_1907 "rhodococcus capsulatus" molisch 1907]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z9J OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1Z9J FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1z9j]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/"rhodococcus_capsulatus"_molisch_1907 "rhodococcus capsulatus" molisch 1907]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z9J OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1Z9J FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BCL:BACTERIOCHLOROPHYLL+A'>BCL</scene>, <scene name='pdbligand=BPH:BACTERIOPHEOPHYTIN+A'>BPH</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=U10:UBIQUINONE-10'>U10</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BCL:BACTERIOCHLOROPHYLL+A'>BCL</scene>, <scene name='pdbligand=BPH:BACTERIOPHEOPHYTIN+A'>BPH</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=U10:UBIQUINONE-10'>U10</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1m3x\|1m3x]], [[1z9k\|1z9k]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1m3x\|1m3x]], [[1z9k\|1z9k]]</div></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pufL ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1063 "Rhodococcus capsulatus" Molisch 1907]), pufM ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1063 "Rhodococcus capsulatus" Molisch 1907]), puhA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1063 "Rhodococcus capsulatus" Molisch 1907])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pufL ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1063 "Rhodococcus capsulatus" Molisch 1907]), pufM ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1063 "Rhodococcus capsulatus" Molisch 1907]), puhA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1063 "Rhodococcus capsulatus" Molisch 1907])</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=1z9j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z9j OCA], [http://pdbe.org/1z9j PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1z9j RCSB], [http://www.ebi.ac.uk/pdbsum/1z9j PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1z9j 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=1z9j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z9j OCA], [http://pdbe.org/1z9j PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1z9j RCSB], [http://www.ebi.ac.uk/pdbsum/1z9j PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1z9j ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 35:		Line 35:
	</StructureSection>		</StructureSection>
	[[Category: Rhodococcus capsulatus molisch 1907]]		[[Category: Rhodococcus capsulatus molisch 1907]]
		+	[[Category: Large Structures]]
	[[Category: Allen, J P]]		[[Category: Allen, J P]]
	[[Category: Camara-Artigas, A]]		[[Category: Camara-Artigas, A]]

OCA at 06:22, 22 August 2018

2018-08-22T06:22:11Z

←Older revision		Revision as of 06:22, 22 August 2018
Line 3:		Line 3:
	<StructureSection load='1z9j' size='340' side='right' caption='[[1z9j]], [[Resolution\|resolution]] 4.50Å' scene=''>		<StructureSection load='1z9j' size='340' side='right' caption='[[1z9j]], [[Resolution\|resolution]] 4.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1z9j]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Rhodobacter_sphaeroides Rhodobacter sphaeroides~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z9J OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1Z9J FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1z9j]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/"rhodococcus_capsulatus"_molisch_1907 "rhodococcus capsulatus" molisch 1907]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z9J OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1Z9J FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BCL:BACTERIOCHLOROPHYLL+A'>BCL</scene>, <scene name='pdbligand=BPH:BACTERIOPHEOPHYTIN+A'>BPH</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=U10:UBIQUINONE-10'>U10</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BCL:BACTERIOCHLOROPHYLL+A'>BCL</scene>, <scene name='pdbligand=BPH:BACTERIOPHEOPHYTIN+A'>BPH</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=U10:UBIQUINONE-10'>U10</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1m3x\|1m3x]], [[1z9k\|1z9k]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1m3x\|1m3x]], [[1z9k\|1z9k]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pufL ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1063 "Rhodococcus capsulatus" Molisch 1907]), pufM ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1063 "Rhodococcus capsulatus" Molisch 1907]), puhA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1063 "Rhodococcus capsulatus" Molisch 1907])</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=1z9j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z9j OCA], [http://pdbe.org/1z9j PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1z9j RCSB], [http://www.ebi.ac.uk/pdbsum/1z9j PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1z9j ProSAT]</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=1z9j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z9j OCA], [http://pdbe.org/1z9j PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1z9j RCSB], [http://www.ebi.ac.uk/pdbsum/1z9j PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1z9j ProSAT]</span></td></tr>
	</table>		</table>
Line 33:		Line 34:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Rhodobacter sphaeroides~~]]	+	[[Category: Rhodococcus capsulatus molisch 1907]]
	[[Category: Allen, J P]]		[[Category: Allen, J P]]
	[[Category: Camara-Artigas, A]]		[[Category: Camara-Artigas, A]]

OCA at 06:24, 4 April 2018

2018-04-04T06:24:03Z

←Older revision		Revision as of 06:24, 4 April 2018
Line 1:		Line 1:
		+
	==Photosynthetic Reaction Center from Rhodobacter sphaeroides==		==Photosynthetic Reaction Center from Rhodobacter sphaeroides==
	<StructureSection load='1z9j' size='340' side='right' caption='[[1z9j]], [[Resolution\|resolution]] 4.50Å' scene=''>		<StructureSection load='1z9j' size='340' side='right' caption='[[1z9j]], [[Resolution\|resolution]] 4.50Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BCL:BACTERIOCHLOROPHYLL+A'>BCL</scene>, <scene name='pdbligand=BPH:BACTERIOPHEOPHYTIN+A'>BPH</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=U10:UBIQUINONE-10'>U10</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BCL:BACTERIOCHLOROPHYLL+A'>BCL</scene>, <scene name='pdbligand=BPH:BACTERIOPHEOPHYTIN+A'>BPH</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=U10:UBIQUINONE-10'>U10</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1m3x\|1m3x]], [[1z9k\|1z9k]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1m3x\|1m3x]], [[1z9k\|1z9k]]</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=1z9j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z9j OCA], [http://pdbe.org/1z9j PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1z9j RCSB], [http://www.ebi.ac.uk/pdbsum/1z9j 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=1z9j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z9j OCA], [http://pdbe.org/1z9j PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1z9j RCSB], [http://www.ebi.ac.uk/pdbsum/1z9j PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1z9j ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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/z9/1z9j_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/z9/1z9j_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1z9j ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 08:51, 11 September 2015

2015-09-11T08:51:59Z

←Older revision		Revision as of 08:51, 11 September 2015
Line 5:		Line 5:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BCL:BACTERIOCHLOROPHYLL+A'>BCL</scene>, <scene name='pdbligand=BPH:BACTERIOPHEOPHYTIN+A'>BPH</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=U10:UBIQUINONE-10'>U10</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BCL:BACTERIOCHLOROPHYLL+A'>BCL</scene>, <scene name='pdbligand=BPH:BACTERIOPHEOPHYTIN+A'>BPH</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=U10:UBIQUINONE-10'>U10</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1m3x\|1m3x]], [[1z9k\|1z9k]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1m3x\|1m3x]], [[1z9k\|1z9k]]</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=1z9j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z9j OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1z9j RCSB], [http://www.ebi.ac.uk/pdbsum/1z9j 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=1z9j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z9j OCA], [http://pdbe.org/1z9j PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1z9j RCSB], [http://www.ebi.ac.uk/pdbsum/1z9j PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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 1z9j" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 14:06, 25 December 2014

2014-12-25T14:06:30Z

←Older revision		Revision as of 14:06, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1z9j]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Rhodobacter_sphaeroides Rhodobacter sphaeroides]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z9J OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1Z9J FirstGlance]. <br>		<table><tr><td colspan='2'>[[1z9j]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Rhodobacter_sphaeroides Rhodobacter sphaeroides]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z9J OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1Z9J FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BCL:BACTERIOCHLOROPHYLL+A'>BCL</scene>, <scene name='pdbligand=BPH:BACTERIOPHEOPHYTIN+A'>BPH</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=U10:UBIQUINONE-10'>U10</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BCL:BACTERIOCHLOROPHYLL+A'>BCL</scene>, <scene name='pdbligand=BPH:BACTERIOPHEOPHYTIN+A'>BPH</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=U10:UBIQUINONE-10'>U10</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1m3x\|1m3x]], [[1z9k\|1z9k]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1m3x\|1m3x]], [[1z9k\|1z9k]]</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=1z9j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z9j OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1z9j RCSB], [http://www.ebi.ac.uk/pdbsum/1z9j 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=1z9j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z9j OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1z9j RCSB], [http://www.ebi.ac.uk/pdbsum/1z9j PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/RCEL_RHOSH RCEL_RHOSH]] The reaction center is a membrane-bound complex that mediates the initial photochemical event in the electron transfer process of photosynthesis. [[http://www.uniprot.org/uniprot/RCEH_RHOSH RCEH_RHOSH]] The reaction center is a membrane-bound complex that mediates the initial photochemical event in the electron transfer process of photosynthesis. [[http://www.uniprot.org/uniprot/RCEM_RHOSH RCEM_RHOSH]] The reaction center is a membrane-bound complex that mediates the initial photochemical event in the electron transfer process of photosynthesis.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 30:		Line 32:
	</StructureSection>		</StructureSection>
	[[Category: Rhodobacter sphaeroides]]		[[Category: Rhodobacter sphaeroides]]
-	[[Category: Allen, J P.]]	+	[[Category: Allen, J P]]
-	[[Category: Camara-Artigas, A.]]	+	[[Category: Camara-Artigas, A]]
-	[[Category: Kalman, L.]]	+	[[Category: Kalman, L]]
-	[[Category: Thielges, M.]]	+	[[Category: Thielges, M]]
-	[[Category: Uyeda, G.]]	+	[[Category: Uyeda, G]]
-	[[Category: Williams, J C.]]	+	[[Category: Williams, J C]]
	[[Category: Alpha helix]]		[[Category: Alpha helix]]
	[[Category: Membrane protein]]		[[Category: Membrane protein]]
	[[Category: Mutant]]		[[Category: Mutant]]
	[[Category: Photosynthesis]]		[[Category: Photosynthesis]]

OCA at 21:10, 29 September 2014

2014-09-29T21:10:53Z

←Older revision		Revision as of 21:10, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1z9j.~~png~~\|~~left~~\|200px]]	+	==Photosynthetic Reaction Center from Rhodobacter sphaeroides==
		+	<StructureSection load='1z9j' size='340' side='right' caption='[[1z9j]], [[Resolution\|resolution]] 4.50Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1z9j]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Rhodobacter_sphaeroides Rhodobacter sphaeroides]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z9J OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1Z9J FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BCL:BACTERIOCHLOROPHYLL+A'>BCL</scene>, <scene name='pdbligand=BPH:BACTERIOPHEOPHYTIN+A'>BPH</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=U10:UBIQUINONE-10'>U10</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1m3x\|1m3x]], [[1z9k\|1z9k]]</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=1z9j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z9j OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1z9j RCSB], [http://www.ebi.ac.uk/pdbsum/1z9j 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/z9/1z9j_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 ==
		+	Metals bound to proteins perform a number of crucial biological reactions, including the oxidation of water by a manganese cluster in photosystem II. Although evolutionarily related to photosystem II, bacterial reaction centers lack both a strong oxidant and a manganese cluster for mediating the multielectron and proton transfer needed for water oxidation. In this study, carboxylate residues were introduced by mutagenesis into highly oxidizing reaction centers at a site homologous to the manganese-binding site of photosystem II. In the presence of manganese, light-minus-dark difference optical spectra of reaction centers from the mutants showed a lack of the oxidized bacteriochlorophyll dimer, while the reduced primary quinone was still present, demonstrating that manganese was serving as a secondary electron donor. On the basis of these steady-state optical measurements, the mutant with the highest-affinity site had a dissociation constant of approximately 1 microM. For the highest-affinity mutant, a first-order rate with a lifetime of 12 ms was observed for the reduction of the oxidized bacteriochlorophyll dimer by the bound manganese upon exposure to light. The dependence of the amplitude of this component on manganese concentration yielded a dissociation constant of approximately 1 muM, similar to that observed in the steady-state measurements. The three-dimensional structure determined by X-ray diffraction of the mutant with the high-affinity site showed that the binding site contains a single bound manganese ion, three carboxylate groups (including two groups introduced by mutagenesis), a histidine residue, and a bound water molecule. These reaction centers illustrate the successful design of a redox active metal center in a protein complex.

-	~~{{STRUCTURE_1z9j\| PDB=1z9j \| SCENE= }}~~	+	Design of a redox-linked active metal site: manganese bound to bacterial reaction centers at a site resembling that of photosystem II.,Thielges M, Uyeda G, Camara-Artigas A, Kalman L, Williams JC, Allen JP Biochemistry. 2005 May 24;44(20):7389-94. PMID:15895982<ref>PMID:15895982</ref>

-	~~===Photosynthetic Reaction Center from Rhodobacter sphaeroides===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_15895982}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[1z9j]] is~~ a ~~3 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Rhodobacter_sphaeroides Rhodobacter sphaeroides]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1Z9J OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:015895982<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Rhodobacter sphaeroides]]		[[Category: Rhodobacter sphaeroides]]
	[[Category: Allen, J P.]]		[[Category: Allen, J P.]]

OCA: Protected "1z9j" [edit=sysop:move=sysop]

2013-01-05T17:49:34Z

Protected "1z9j" [edit=sysop:move=sysop]

←Older revision

Revision as of 17:49, 5 January 2013

OCA at 17:49, 5 January 2013

2013-01-05T17:49:32Z

←Older revision		Revision as of 17:49, 5 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:1z9j.png\|left\|200px]]		[[Image:1z9j.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1z9j", 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_1z9j\| PDB=1z9j \| SCENE= }}		{{STRUCTURE_1z9j\| PDB=1z9j \| SCENE= }}

	===Photosynthetic Reaction Center from Rhodobacter sphaeroides===		===Photosynthetic Reaction Center from Rhodobacter sphaeroides===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_15895982}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 15895982 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_15895982}}		{{ABSTRACT_PUBMED_15895982}}

	==About this Structure==		==About this Structure==
-	~~1Z9J~~ is a 3 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Rhodobacter_sphaeroides Rhodobacter sphaeroides]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z9J OCA].	+	[[1z9j]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Rhodobacter_sphaeroides Rhodobacter sphaeroides]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z9J OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~15895982~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:015895982</ref><references group="xtra"/>
	[[Category: Rhodobacter sphaeroides]]		[[Category: Rhodobacter sphaeroides]]
	[[Category: Allen, J P.]]		[[Category: Allen, J P.]]
Line 34:		Line 22:
	[[Category: Membrane protein]]		[[Category: Membrane protein]]
	[[Category: Mutant]]		[[Category: Mutant]]
-		+	[[Category: Photosynthesis]]
-	~~''Page seeded by~~ [~~http~~:~~//oca.weizmann.ac.il/oca OCA~~ ] ~~on Tue Feb 17 18:14:43 2009''~~	+

OCA at 16:14, 17 February 2009

2009-02-17T16:14:44Z

←Older revision		Revision as of 16:14, 17 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	1Z9J is a ~~[[Protein complex]]~~ structure of sequences from [http://en.wikipedia.org/wiki/Rhodobacter_sphaeroides Rhodobacter sphaeroides]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z9J OCA].	+	1Z9J is a 3 chains structure of sequences from [http://en.wikipedia.org/wiki/Rhodobacter_sphaeroides Rhodobacter sphaeroides]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z9J OCA].

	==Reference==		==Reference==
-	Design of a redox-linked active metal site: manganese bound to bacterial reaction centers at a site resembling that of photosystem II., Thielges M, Uyeda G, Camara-Artigas A, Kalman L, Williams JC, Allen JP, Biochemistry. 2005 May 24;44(20):7389-94. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/15895982 15895982]~~	+	<ref group="xtra">PMID:15895982</ref><references group="xtra"/>
-	~~[[Category: Protein complex]]~~	+
	[[Category: Rhodobacter sphaeroides]]		[[Category: Rhodobacter sphaeroides]]
	[[Category: Allen, J P.]]		[[Category: Allen, J P.]]
Line 36:		Line 35:
	[[Category: Mutant]]		[[Category: Mutant]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue ~~Jul 29 02~~:05:~~13 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 18:14:43 2009''