6prc - Revision history

OCA at 06:52, 9 August 2023

OCA — Wed, 09 Aug 2023 06:52:35 GMT

←Older revision		Revision as of 06:52, 9 August 2023
Line 1:		Line 1:
		+
	==PHOTOSYNTHETIC REACTION CENTER FROM RHODOPSEUDOMONAS VIRIDIS (DG-420314 (TRIAZINE) COMPLEX)==		==PHOTOSYNTHETIC REACTION CENTER FROM RHODOPSEUDOMONAS VIRIDIS (DG-420314 (TRIAZINE) COMPLEX)==
-	<StructureSection load='6prc' size='340' side='right' caption='[[6prc]], [[Resolution\|resolution]] 2.30Å' scene=''>	+	<StructureSection load='6prc' size='340' side='right'caption='[[6prc]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6prc]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Blastochloris_viridis Blastochloris viridis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PRC OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6PRC FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6prc]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Blastochloris_viridis Blastochloris viridis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PRC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6PRC FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BCB:BACTERIOCHLOROPHYLL+B'>BCB</scene>, <scene name='pdbligand=BPB:BACTERIOPHEOPHYTIN+B'>BPB</scene>, <scene name='pdbligand=CEB:2-CHLORO-4-ETHYLAMINO-6-(S(-)-2-CYANO-4-BUTYLAMINO)-1,3,5-TRIAZINE'>CEB</scene>, <scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=LDA:LAURYL+DIMETHYLAMINE-N-OXIDE'>LDA</scene>, <scene name='pdbligand=MQ7:MENAQUINONE-7'>MQ7</scene>, <scene name='pdbligand=NS5:15-CIS-1,2-DIHYDRONEUROSPORENE'>NS5</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4~~</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]] 2.3Å</td></tr>
-	~~<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=FME:N-FORMYLMETHIONINE'>FME~~</scene></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BCB:BACTERIOCHLOROPHYLL+B'>BCB</scene>, <scene name='pdbligand=BPB:BACTERIOPHEOPHYTIN+B'>BPB</scene>, <scene name='pdbligand=CEB:2-CHLORO-4-ETHYLAMINO-6-(S(-)-2-CYANO-4-BUTYLAMINO)-1,3,5-TRIAZINE'>CEB</scene>, <scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=FME:N-FORMYLMETHIONINE'>FME</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=LDA:LAURYL+DIMETHYLAMINE-N-OXIDE'>LDA</scene>, <scene name='pdbligand=MQ7:MENAQUINONE-7'>MQ7</scene>, <scene name='pdbligand=NS5:15-CIS-1,2-DIHYDRONEUROSPORENE'>NS5</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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=6prc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6prc OCA], [~~http~~://pdbe.org/6prc PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6prc RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6prc PDBsum]</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=6prc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6prc OCA], [https://pdbe.org/6prc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6prc RCSB], [https://www.ebi.ac.uk/pdbsum/6prc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6prc ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/RCEH_RHOVI RCEH_RHOVI]] 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/CYCR_RHOVI CYCR_RHOVI]] The reaction center of purple bacteria contains a tightly bound cytochrome molecule which re-reduces the photo oxidized primary electron donor. ~~[[http~~://www.uniprot.org/uniprot/RCEM_RHOVI RCEM_RHOVI]] 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/RCEL_RHOVI RCEL_RHOVI]] 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/CYCR_BLAVI CYCR_BLAVI] The reaction center of purple bacteria contains a tightly bound cytochrome molecule which re-reduces the photo oxidized primary electron donor.<ref>PMID:10736158</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/pr/6prc_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/pr/6prc_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 33:		Line 34:
	</StructureSection>		</StructureSection>
	[[Category: Blastochloris viridis]]		[[Category: Blastochloris viridis]]
-	[[Category: ~~Lancaster, C R.D~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Michel, H~~]]	+	[[Category: Lancaster CRD]]
-	[[Category: ~~Photosynthetic reaction center~~]]	+	[[Category: Michel H]]

OCA at 22:36, 7 February 2016

OCA — Sun, 07 Feb 2016 22:36:12 GMT

←Older revision		Revision as of 22:36, 7 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=BCB:BACTERIOCHLOROPHYLL+B'>BCB</scene>, <scene name='pdbligand=BPB:BACTERIOPHEOPHYTIN+B'>BPB</scene>, <scene name='pdbligand=CEB:2-CHLORO-4-ETHYLAMINO-6-(S(-)-2-CYANO-4-BUTYLAMINO)-1,3,5-TRIAZINE'>CEB</scene>, <scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=LDA:LAURYL+DIMETHYLAMINE-N-OXIDE'>LDA</scene>, <scene name='pdbligand=MQ7:MENAQUINONE-7'>MQ7</scene>, <scene name='pdbligand=NS5:15-CIS-1,2-DIHYDRONEUROSPORENE'>NS5</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BCB:BACTERIOCHLOROPHYLL+B'>BCB</scene>, <scene name='pdbligand=BPB:BACTERIOPHEOPHYTIN+B'>BPB</scene>, <scene name='pdbligand=CEB:2-CHLORO-4-ETHYLAMINO-6-(S(-)-2-CYANO-4-BUTYLAMINO)-1,3,5-TRIAZINE'>CEB</scene>, <scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=LDA:LAURYL+DIMETHYLAMINE-N-OXIDE'>LDA</scene>, <scene name='pdbligand=MQ7:MENAQUINONE-7'>MQ7</scene>, <scene name='pdbligand=NS5:15-CIS-1,2-DIHYDRONEUROSPORENE'>NS5</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=FME:N-FORMYLMETHIONINE'>FME</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=FME:N-FORMYLMETHIONINE'>FME</scene></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=6prc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6prc OCA], [http://www.rcsb.org/pdb/explore.do?structureId=6prc RCSB], [http://www.ebi.ac.uk/pdbsum/6prc 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=6prc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6prc OCA], [http://pdbe.org/6prc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6prc RCSB], [http://www.ebi.ac.uk/pdbsum/6prc PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 17:		Line 17:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=6prc ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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 6prc" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 18:39, 24 December 2014

OCA — Wed, 24 Dec 2014 18:39:00 GMT

←Older revision		Revision as of 18:39, 24 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6prc]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Blastochloris_viridis Blastochloris viridis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PRC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6PRC FirstGlance]. <br>		<table><tr><td colspan='2'>[[6prc]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Blastochloris_viridis Blastochloris viridis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PRC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6PRC FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BCB:BACTERIOCHLOROPHYLL+B'>BCB</scene>, <scene name='pdbligand=BPB:BACTERIOPHEOPHYTIN+B'>BPB</scene>, <scene name='pdbligand=CEB:2-CHLORO-4-ETHYLAMINO-6-(S(-)-2-CYANO-4-BUTYLAMINO)-1,3,5-TRIAZINE'>CEB</scene>, <scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=LDA:LAURYL+DIMETHYLAMINE-N-OXIDE'>LDA</scene>, <scene name='pdbligand=MQ7:MENAQUINONE-7'>MQ7</scene>, <scene name='pdbligand=NS5:15-CIS-1,2-DIHYDRONEUROSPORENE'>NS5</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BCB:BACTERIOCHLOROPHYLL+B'>BCB</scene>, <scene name='pdbligand=BPB:BACTERIOPHEOPHYTIN+B'>BPB</scene>, <scene name='pdbligand=CEB:2-CHLORO-4-ETHYLAMINO-6-(S(-)-2-CYANO-4-BUTYLAMINO)-1,3,5-TRIAZINE'>CEB</scene>, <scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=LDA:LAURYL+DIMETHYLAMINE-N-OXIDE'>LDA</scene>, <scene name='pdbligand=MQ7:MENAQUINONE-7'>MQ7</scene>, <scene name='pdbligand=NS5:15-CIS-1,2-DIHYDRONEUROSPORENE'>NS5</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=FME:N-FORMYLMETHIONINE'>FME</scene></td></tr>	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=FME:N-FORMYLMETHIONINE'>FME</scene></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=6prc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6prc OCA], [http://www.rcsb.org/pdb/explore.do?structureId=6prc RCSB], [http://www.ebi.ac.uk/pdbsum/6prc 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=6prc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6prc OCA], [http://www.rcsb.org/pdb/explore.do?structureId=6prc RCSB], [http://www.ebi.ac.uk/pdbsum/6prc PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/RCEH_RHOVI RCEH_RHOVI]] 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/CYCR_RHOVI CYCR_RHOVI]] The reaction center of purple bacteria contains a tightly bound cytochrome molecule which re-reduces the photo oxidized primary electron donor. [[http://www.uniprot.org/uniprot/RCEM_RHOVI RCEM_RHOVI]] 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/RCEL_RHOVI RCEL_RHOVI]] 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: Blastochloris viridis]]		[[Category: Blastochloris viridis]]
-	[[Category: Lancaster, C R.D.]]	+	[[Category: Lancaster, C R.D]]
-	[[Category: Michel, H.]]	+	[[Category: Michel, H]]
	[[Category: Photosynthetic reaction center]]		[[Category: Photosynthetic reaction center]]

OCA at 07:33, 5 June 2014

OCA — Thu, 05 Jun 2014 07:33:14 GMT

←Older revision		Revision as of 07:33, 5 June 2014
Line 1:		Line 1:
-	[[~~Image:~~6prc.~~png~~\|~~left~~\|200px]]	+	==PHOTOSYNTHETIC REACTION CENTER FROM RHODOPSEUDOMONAS VIRIDIS (DG-420314 (TRIAZINE) COMPLEX)==
		+	<StructureSection load='6prc' size='340' side='right' caption='[[6prc]], [[Resolution\|resolution]] 2.30Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6prc]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Blastochloris_viridis Blastochloris viridis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PRC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6PRC FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BCB:BACTERIOCHLOROPHYLL+B'>BCB</scene>, <scene name='pdbligand=BPB:BACTERIOPHEOPHYTIN+B'>BPB</scene>, <scene name='pdbligand=CEB:2-CHLORO-4-ETHYLAMINO-6-(S(-)-2-CYANO-4-BUTYLAMINO)-1,3,5-TRIAZINE'>CEB</scene>, <scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=LDA:LAURYL+DIMETHYLAMINE-N-OXIDE'>LDA</scene>, <scene name='pdbligand=MQ7:MENAQUINONE-7'>MQ7</scene>, <scene name='pdbligand=NS5:15-CIS-1,2-DIHYDRONEUROSPORENE'>NS5</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=FME:N-FORMYLMETHIONINE'>FME</scene></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=6prc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6prc OCA], [http://www.rcsb.org/pdb/explore.do?structureId=6prc RCSB], [http://www.ebi.ac.uk/pdbsum/6prc 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/pr/6prc_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 ==
		+	In a reaction of central importance to the energetics of photosynthetic bacteria, light-induced electron transfer in the reaction centre (RC) is coupled with the uptake of protons from the cytoplasm at the binding site of the secondary quinone (QB). It has been established by X-ray crystallography that the triazine herbicide terbutryn binds to the QB site. However, the exact description of protein-triazine interactions has had to await the refinement of higher-resolution structures. In addition, there is also interest in the role of chirality in the activity of herbicides. Here, we report the structural characterisation of triazine binding by crystallographic refinement of complexes of the RC either with the triazine inhibitor atrazine (Protein Data Bank (PDB) entry 5PRC) or with the chiral atrazine derivatives, DG-420314 (S(-) enantiomer, PDB entry 6PRC) or DG-420315 (R(+) enantiomer, PDB entry 7PRC). Due to the high quality of the data collected, it has been possible to describe the exact nature of triazine binding and its effect on the structure of the protein at high-resolution limits of 2.35 A (5PRC), 2.30 A (6PRC), and 2.65 A (7PRC), respectively. In addition to two previously implied hydrogen bonds, a third hydrogen bond, binding the distal side of the inhibitors to the protein, and four additional hydrogen bonds mediated by two tightly bound water molecules on the proximal side of the inhibitors, are apparent. Based on the high quality data collected on the RC complexes of the two chiral atrazine derivatives, unequivocal assignment of the structure at the chiral centres was possible, even though the differences in structures of the substituents are small. The structures provide explanations for the relative binding affinities of the two chiral compounds. Although it was not an explicit goal of this work, the new data were of sufficient quality to improve the original model also regarding the structure of the bound carotenoid 1,2-dihydroneurosporene. A carotenoid model with a cis double bond at the 15,15' position fits the electron density better than the original model with a 13,14-cis double bond.

-	~~<!--~~	+	Refined crystal structures of reaction centres from Rhodopseudomonas viridis in complexes with the herbicide atrazine and two chiral atrazine derivatives also lead to a new model of the bound carotenoid.,Lancaster CR, Michel H J Mol Biol. 1999 Feb 26;286(3):883-98. PMID:10024457<ref>PMID:10024457</ref>
-	~~The line below this paragraph, containing "STRUCTURE_6prc", 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_6prc\| PDB=6prc \| SCENE= }}~~	+

-	~~===PHOTOSYNTHETIC REACTION CENTER FROM RHODOPSEUDOMONAS VIRIDIS (DG-420314 (TRIAZINE) COMPLEX)===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-		+	== References ==
-	~~<!--~~	+	<references/>
-	~~The line below this paragraph~~, ~~{{ABSTRACT_PUBMED_10024457}}, adds~~ the ~~Publication Abstract to the page~~	+	__TOC__
-	~~(as it appears on PubMed at http://www~~.~~pubmed~~.~~gov), where 10024457 is the PubMed ID number~~.	+	</StructureSection>
-	-->	+
-	~~{{ABSTRACT_PUBMED_10024457}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[6prc]] is a 4 chain structure with sequence from [http:~~/~~/en.wikipedia.org/wiki/Blastochloris_viridis Blastochloris viridis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PRC OCA].~~	+
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:010024457<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Blastochloris viridis]]		[[Category: Blastochloris viridis]]
	[[Category: Lancaster, C R.D.]]		[[Category: Lancaster, C R.D.]]
	[[Category: Michel, H.]]		[[Category: Michel, H.]]
	[[Category: Photosynthetic reaction center]]		[[Category: Photosynthetic reaction center]]

OCA: Protected "6prc" [edit=sysop:move=sysop]

OCA — Wed, 16 Nov 2011 10:06:59 GMT

Protected "6prc" [edit=sysop:move=sysop]

←Older revision

Revision as of 10:06, 16 November 2011

OCA at 10:06, 16 November 2011

OCA — Wed, 16 Nov 2011 10:06:57 GMT

←Older revision		Revision as of 10:06, 16 November 2011
Line 1:		Line 1:
-	{{Seed}}
	[[Image:6prc.png\|left\|200px]]		[[Image:6prc.png\|left\|200px]]

Line 20:		Line 19:

	==About this Structure==		==About this Structure==
-	~~6PRC~~ is a 4 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Blastochloris_viridis Blastochloris viridis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PRC OCA].	+	[[6prc]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Blastochloris_viridis Blastochloris viridis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PRC OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~10024457~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:010024457</ref><references group="xtra"/>
	[[Category: Blastochloris viridis]]		[[Category: Blastochloris viridis]]
	[[Category: Lancaster, C R.D.]]		[[Category: Lancaster, C R.D.]]
	[[Category: Michel, H.]]		[[Category: Michel, H.]]
	[[Category: Photosynthetic reaction center]]		[[Category: Photosynthetic reaction center]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 16:55:55 2009''

OCA at 14:55, 16 February 2009

OCA — Mon, 16 Feb 2009 14:55:57 GMT

←Older revision		Revision as of 14:55, 16 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	6PRC is a ~~[[Protein complex]]~~ structure of sequences from [http://en.wikipedia.org/wiki/Blastochloris_viridis Blastochloris viridis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PRC OCA].	+	6PRC is a 4 chains structure of sequences from [http://en.wikipedia.org/wiki/Blastochloris_viridis Blastochloris viridis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PRC OCA].

	==Reference==		==Reference==
-	Refined crystal structures of reaction centres from Rhodopseudomonas viridis in complexes with the herbicide atrazine and two chiral atrazine derivatives also lead to a new model of the bound carotenoid., Lancaster CR, Michel H, J Mol Biol. 1999 Feb 26;286(3):883-98. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/10024457 10024457]~~	+	<ref group="xtra">PMID:10024457</ref><references group="xtra"/>
	[[Category: Blastochloris viridis]]		[[Category: Blastochloris viridis]]
-	[[Category: Protein complex]]
	[[Category: Lancaster, C R.D.]]		[[Category: Lancaster, C R.D.]]
	[[Category: Michel, H.]]		[[Category: Michel, H.]]
	[[Category: Photosynthetic reaction center]]		[[Category: Photosynthetic reaction center]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Thu Jul 3 14~~:24:~~08 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 16:55:55 2009''

OCA at 11:24, 3 July 2008

OCA — Thu, 03 Jul 2008 11:24:08 GMT

←Older revision		Revision as of 11:24, 3 July 2008
Line 1:		Line 1:
-	[[Image:6prc.~~gif~~\|left\|200px]]	+	{{Seed}}
		+	[[Image:6prc.png\|left\|200px]]

	<!--		<!--
Line 9:		Line 10:
	{{STRUCTURE_6prc\| PDB=6prc \| SCENE= }}		{{STRUCTURE_6prc\| PDB=6prc \| SCENE= }}

-	~~'''~~PHOTOSYNTHETIC REACTION CENTER FROM RHODOPSEUDOMONAS VIRIDIS (DG-420314 (TRIAZINE) COMPLEX)~~'''~~	+	===PHOTOSYNTHETIC REACTION CENTER FROM RHODOPSEUDOMONAS VIRIDIS (DG-420314 (TRIAZINE) COMPLEX)===


-	~~==Overview==~~	+	<!--
-	~~In a reaction of central importance to the energetics of photosynthetic bacteria, light~~-~~induced electron transfer in the reaction centre (RC) is coupled with the uptake of protons from the cytoplasm at the binding site of the secondary quinone (QB). It has been established by X~~-~~ray crystallography that the triazine herbicide terbutryn binds to the QB site. However~~, the ~~exact description of protein-triazine interactions has had~~ to ~~await~~ the refinement of higher-resolution structures. In addition, there is also interest in the role of chirality in the activity of herbicides. Here, we report the structural characterisation of triazine binding by crystallographic refinement of complexes of the RC either with the triazine inhibitor atrazine (Protein Data Bank (PDB) entry 5PRC) or with the chiral atrazine derivatives, DG-420314 (S(-) enantiomer, PDB entry 6PRC) or DG-420315 (R(+) enantiomer, PDB entry 7PRC). Due to the high quality of the data collected, it ~~has been possible to describe the exact nature of triazine binding and its effect~~ on ~~the structure of the protein~~ at ~~high-resolution limits of 2~~.~~35 A (5PRC), 2~~.~~30 A (6PRC~~), ~~and 2.65 A (7PRC), respectively. In addition to two previously implied hydrogen bonds, a third hydrogen bond, binding~~ the ~~distal side of the inhibitors to the protein, and four additional hydrogen bonds mediated by two tightly bound water molecules on the proximal side of the inhibitors, are apparent~~. Based on the high quality data collected on the RC complexes of the two chiral atrazine derivatives, unequivocal assignment of the structure at the chiral centres was possible, even though the differences in structures of the substituents are small. The structures provide explanations for the relative binding affinities of the two chiral compounds. Although it was not an explicit goal of this work, the new data were of sufficient quality to improve the original model also regarding the structure of the bound carotenoid 1,2-~~dihydroneurosporene. A carotenoid model with a cis double bond at the 15,15' position fits the electron density better than the original model with a 13,14~~-~~cis double bond.~~	+	The line below this paragraph, {{ABSTRACT_PUBMED_10024457}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 10024457 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_10024457}}

	==About this Structure==		==About this Structure==
Line 25:		Line 29:
	[[Category: Michel, H.]]		[[Category: Michel, H.]]
	[[Category: Photosynthetic reaction center]]		[[Category: Photosynthetic reaction center]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sun May~~ ~~4 22~~:42:25 2008''	+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Jul 3 14:24:08 2008''

OCA at 19:42, 4 May 2008

OCA — Sun, 04 May 2008 19:42:26 GMT

←Older revision		Revision as of 19:42, 4 May 2008
Line 1:		Line 1:
	[[Image:6prc.gif\|left\|200px]]		[[Image:6prc.gif\|left\|200px]]

-	~~{{Structure~~	+	<!--
-	~~\|PDB= 6prc \|SIZE=350\|CAPTION= <scene name='initialview01'>6prc</scene>~~, ~~resolution 2~~.~~30Å~~	+	The line below this paragraph, containing "STRUCTURE_6prc", creates the "Structure Box" on the page.
-	~~\|SITE=~~	+	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	~~\|LIGAND= <scene name='pdbligand=BCB:BACTERIOCHLOROPHYLL+B'>BCB</scene>, <scene name='pdbligand=BPB:BACTERIOPHEOPHYTIN+B'>BPB</scene>, <scene name='pdbligand=CEB:2-CHLORO-4-ETHYLAMINO-6-~~(~~S(-)-2'-CYANO-4-BUTYLAMINO)-1,3,5-TRIAZINE'>CEB</~~scene~~>, <scene name='pdbligand=FE2:FE+(II~~)~~+ION'>FE2</scene>~~, ~~<scene name='pdbligand=FME:N-FORMYLMETHIONINE'>FME</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=LDA:LAURYL+DIMETHYLAMINE~~-N-~~OXIDE'>LDA</scene>, <scene name='pdbligand=MQ7:MENAQUINONE-7'>MQ7</scene>, <scene name='pdbligand=NS5:DIHYDRO-NEUROSPORENE'>NS5</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene~~>	+	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	\|~~ACTIVITY~~=	+	or leave the SCENE parameter empty for the default display.
-	\|~~GENE~~=	+	-->
-	~~\|DOMAIN=~~	+	{{STRUCTURE_6prc\| PDB=6prc \| SCENE= }}
-	~~\|RELATEDENTRY=~~	+
-	\|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6prc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6prc OCA], [http://www.ebi.ac.uk/pdbsum/6prc PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=6prc RCSB]</span>	+
-	}}	+

	'''PHOTOSYNTHETIC REACTION CENTER FROM RHODOPSEUDOMONAS VIRIDIS (DG-420314 (TRIAZINE) COMPLEX)'''		'''PHOTOSYNTHETIC REACTION CENTER FROM RHODOPSEUDOMONAS VIRIDIS (DG-420314 (TRIAZINE) COMPLEX)'''
Line 27:		Line 24:
	[[Category: Lancaster, C R.D.]]		[[Category: Lancaster, C R.D.]]
	[[Category: Michel, H.]]		[[Category: Michel, H.]]
-	[[Category: ~~photosynthetic~~ reaction center]]	+	[[Category: Photosynthetic reaction center]]
-	~~[[Category: secondary quinone (qb)]]~~	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May 4 22:42:25 2008''
-		+
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Mon Mar 31 05~~:43:31 2008''	+

OCA at 02:43, 31 March 2008

OCA — Mon, 31 Mar 2008 02:43:32 GMT

←Older revision		Revision as of 02:43, 31 March 2008
Line 4:		Line 4:
	\|PDB= 6prc \|SIZE=350\|CAPTION= <scene name='initialview01'>6prc</scene>, resolution 2.30Å		\|PDB= 6prc \|SIZE=350\|CAPTION= <scene name='initialview01'>6prc</scene>, resolution 2.30Å
	\|SITE=		\|SITE=
-	\|LIGAND= <scene name='pdbligand=~~FE2~~:FE+~~(II)+ION~~'>~~FE2~~</scene>, <scene name='pdbligand=~~SO4~~:~~SULFATE~~+~~ION~~'>~~SO4~~</scene>, <scene name='pdbligand=~~BCB~~:~~BACTERIOCHLOROPHYLL+B~~'>~~BCB~~</scene>, <scene name='pdbligand=~~BPB~~:~~BACTERIOPHEOPHYTIN~~+B'>~~BPB~~</scene>, <scene name='pdbligand=~~MQ7~~:~~MENAQUINONE~~-7'>~~MQ7~~</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=~~NS5~~:~~DIHYDRO~~-~~NEUROSPORENE~~'>~~NS5~~</scene>, <scene name='pdbligand=~~CEB~~:2-~~CHLORO-4-ETHYLAMINO-6-(S(-)-2'-CYANO-4-BUTYLAMINO)-1~~,~~3,5~~-~~TRIAZINE~~'>~~CEB~~</scene> ~~and~~ <scene name='pdbligand=~~LDA~~:~~LAURYL DIMETHYLAMINE-N-OXIDE~~'>~~LDA~~</scene>	+	\|LIGAND= <scene name='pdbligand=BCB:BACTERIOCHLOROPHYLL+B'>BCB</scene>, <scene name='pdbligand=BPB:BACTERIOPHEOPHYTIN+B'>BPB</scene>, <scene name='pdbligand=CEB:2-CHLORO-4-ETHYLAMINO-6-(S(-)-2'-CYANO-4-BUTYLAMINO)-1,3,5-TRIAZINE'>CEB</scene>, <scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=FME:N-FORMYLMETHIONINE'>FME</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=LDA:LAURYL+DIMETHYLAMINE-N-OXIDE'>LDA</scene>, <scene name='pdbligand=MQ7:MENAQUINONE-7'>MQ7</scene>, <scene name='pdbligand=NS5:DIHYDRO-NEUROSPORENE'>NS5</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>
	\|ACTIVITY=		\|ACTIVITY=
	\|GENE=		\|GENE=
		+	\|DOMAIN=
		+	\|RELATEDENTRY=
		+	\|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6prc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6prc OCA], [http://www.ebi.ac.uk/pdbsum/6prc PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=6prc RCSB]</span>
	}}		}}

Line 24:		Line 27:
	[[Category: Lancaster, C R.D.]]		[[Category: Lancaster, C R.D.]]
	[[Category: Michel, H.]]		[[Category: Michel, H.]]
-	[[Category: BCB]]
-	[[Category: BPB]]
-	[[Category: CEB]]
-	[[Category: FE2]]
-	[[Category: HEM]]
-	[[Category: LDA]]
-	[[Category: MQ7]]
-	[[Category: NS5]]
-	[[Category: SO4]]
	[[Category: photosynthetic reaction center]]		[[Category: photosynthetic reaction center]]
	[[Category: secondary quinone (qb)]]		[[Category: secondary quinone (qb)]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sun~~ Mar ~~23 16~~:06:06 2008''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 05:43:31 2008''