2zxl - Revision history

OCA at 14:01, 1 November 2023

OCA — Wed, 01 Nov 2023 14:01:01 GMT

←Older revision		Revision as of 14:01, 1 November 2023
Line 3:		Line 3:
	<StructureSection load='2zxl' size='340' side='right'caption='[[2zxl]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='2zxl' size='340' side='right'caption='[[2zxl]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2zxl]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Arath Arath~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZXL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2ZXL FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2zxl]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZXL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2ZXL FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=NA:SODIUM+ION'>NA</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]] 2.4Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>~~[[~~Related_structure~~\|~~Related:~~]]~~</b></td><td class="sblockDat"><div style='overflow: auto~~; ~~max-height: 3em;'>[[2zxk\|2zxk]]</div>~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>RCCR ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~3702 ARATH])</td~~><~~/tr>~~	+
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[https://en.wikipedia.org/wiki/Red_chlorophyll_catabolite_reductase Red chlorophyll catabolite reductase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.1.80 1.3.1.80]~~ </~~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=2zxl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zxl OCA], [https://pdbe.org/2zxl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2zxl RCSB], [https://www.ebi.ac.uk/pdbsum/2zxl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2zxl 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=2zxl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zxl OCA], [https://pdbe.org/2zxl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2zxl RCSB], [https://www.ebi.ac.uk/pdbsum/2zxl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2zxl ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/RCCR_ARATH RCCR_ARATH]] Catalyzes the key reaction of chlorophyll catabolism, porphyrin macrocycle cleavage of pheophorbide a (pheide a) to a primary fluorescent catabolite (pFCC). Works in a two-step reaction with pheophorbide a oxygenase (PaO) by reducing the C20/C1 double bond of the intermediate, RCC.<ref>PMID:10743659</ref>	+	[https://www.uniprot.org/uniprot/RCCR_ARATH RCCR_ARATH] Catalyzes the key reaction of chlorophyll catabolism, porphyrin macrocycle cleavage of pheophorbide a (pheide a) to a primary fluorescent catabolite (pFCC). Works in a two-step reaction with pheophorbide a oxygenase (PaO) by reducing the C20/C1 double bond of the intermediate, RCC.<ref>PMID:10743659</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 35:		Line 33:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Arath~~]]	+	[[Category: Arabidopsis thaliana]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Red chlorophyll catabolite reductase]]~~	+	[[Category: Fukuyama K]]
-	[[Category: Fukuyama, K]]	+	[[Category: Kitamori Y]]
-	[[Category: Kitamori, Y]]	+	[[Category: Sugishima M]]
-	[[Category: Sugishima, M]]	+
-	~~[[Category: Alpha-beta-alpha sandwich]]~~	+
-	~~[[Category: Chlorophyll catabolism]]~~	+
-	~~[[Category: Chloroplast]]~~	+
-	~~[[Category: Coiled coil]]~~	+
-	~~[[Category: Nadp]]~~	+
-	~~[[Category: Oxidoreductase]]~~	+
-	~~[[Category: Plastid]]~~	+
-	~~[[Category: Transit peptide~~]]	+

OCA at 17:40, 15 December 2021

OCA — Wed, 15 Dec 2021 17:40:22 GMT

←Older revision		Revision as of 17:40, 15 December 2021
Line 1:		Line 1:

	==Crystal structure of red chlorophyll catabolite reductase from Arabidopsis thaliana==		==Crystal structure of red chlorophyll catabolite reductase from Arabidopsis thaliana==
-	<StructureSection load='2zxl' size='340' side='right' caption='[[2zxl]], [[Resolution\|resolution]] 2.40Å' scene=''>	+	<StructureSection load='2zxl' size='340' side='right'caption='[[2zxl]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2zxl]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Arath Arath]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZXL OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2ZXL FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2zxl]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Arath Arath]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZXL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2ZXL FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</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" id="ligandDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2zxk\|2zxk]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2zxk\|2zxk]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">RCCR ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 ARATH])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">RCCR ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 ARATH])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Red_chlorophyll_catabolite_reductase Red chlorophyll catabolite reductase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.1.80 1.3.1.80] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Red_chlorophyll_catabolite_reductase Red chlorophyll catabolite reductase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.1.80 1.3.1.80] </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=2zxl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zxl OCA], [~~http~~://pdbe.org/2zxl PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2zxl RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2zxl PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2zxl 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=2zxl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zxl OCA], [https://pdbe.org/2zxl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2zxl RCSB], [https://www.ebi.ac.uk/pdbsum/2zxl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2zxl ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/RCCR_ARATH RCCR_ARATH]] Catalyzes the key reaction of chlorophyll catabolism, porphyrin macrocycle cleavage of pheophorbide a (pheide a) to a primary fluorescent catabolite (pFCC). Works in a two-step reaction with pheophorbide a oxygenase (PaO) by reducing the C20/C1 double bond of the intermediate, RCC.<ref>PMID:10743659</ref>	+	[[https://www.uniprot.org/uniprot/RCCR_ARATH RCCR_ARATH]] Catalyzes the key reaction of chlorophyll catabolism, porphyrin macrocycle cleavage of pheophorbide a (pheide a) to a primary fluorescent catabolite (pFCC). Works in a two-step reaction with pheophorbide a oxygenase (PaO) by reducing the C20/C1 double bond of the intermediate, RCC.<ref>PMID:10743659</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 36:		Line 36:
	</StructureSection>		</StructureSection>
	[[Category: Arath]]		[[Category: Arath]]
		+	[[Category: Large Structures]]
	[[Category: Red chlorophyll catabolite reductase]]		[[Category: Red chlorophyll catabolite reductase]]
	[[Category: Fukuyama, K]]		[[Category: Fukuyama, K]]

OCA at 07:29, 18 October 2018

OCA — Thu, 18 Oct 2018 07:29:08 GMT

←Older revision		Revision as of 07:29, 18 October 2018
Line 1:		Line 1:
		+
	==Crystal structure of red chlorophyll catabolite reductase from Arabidopsis thaliana==		==Crystal structure of red chlorophyll catabolite reductase from Arabidopsis thaliana==
	<StructureSection load='2zxl' size='340' side='right' caption='[[2zxl]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='2zxl' size='340' side='right' caption='[[2zxl]], [[Resolution\|resolution]] 2.40Å' scene=''>
Line 7:		Line 8:
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">RCCR ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 ARATH])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">RCCR ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 ARATH])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Red_chlorophyll_catabolite_reductase Red chlorophyll catabolite reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.1.80 1.3.1.80] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Red_chlorophyll_catabolite_reductase Red chlorophyll catabolite reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.1.80 1.3.1.80] </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=2zxl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zxl OCA], [http://pdbe.org/2zxl PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2zxl RCSB], [http://www.ebi.ac.uk/pdbsum/2zxl 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=2zxl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zxl OCA], [http://pdbe.org/2zxl PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2zxl RCSB], [http://www.ebi.ac.uk/pdbsum/2zxl PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2zxl ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/zx/2zxl_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/zx/2zxl_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 42:		Line 43:
	[[Category: Chlorophyll catabolism]]		[[Category: Chlorophyll catabolism]]
	[[Category: Chloroplast]]		[[Category: Chloroplast]]
		+	[[Category: Coiled coil]]
	[[Category: Nadp]]		[[Category: Nadp]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]
		+	[[Category: Plastid]]
	[[Category: Transit peptide]]		[[Category: Transit peptide]]

OCA at 01:28, 8 February 2016

OCA — Mon, 08 Feb 2016 01:28:11 GMT

←Older revision		Revision as of 01:28, 8 February 2016
Line 2:		Line 2:
	<StructureSection load='2zxl' size='340' side='right' caption='[[2zxl]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='2zxl' size='340' side='right' caption='[[2zxl]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2zxl]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Arabidopsis_thaliana Arabidopsis thaliana~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZXL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZXL FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2zxl]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Arath Arath]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZXL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZXL FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</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=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2zxk\|2zxk]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2zxk\|2zxk]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">RCCR ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 ~~Arabidopsis thaliana~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">RCCR ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 ARATH])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Red_chlorophyll_catabolite_reductase Red chlorophyll catabolite reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.1.80 1.3.1.80] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Red_chlorophyll_catabolite_reductase Red chlorophyll catabolite reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.1.80 1.3.1.80] </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=2zxl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zxl OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2zxl RCSB], [http://www.ebi.ac.uk/pdbsum/2zxl 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=2zxl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zxl OCA], [http://pdbe.org/2zxl PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2zxl RCSB], [http://www.ebi.ac.uk/pdbsum/2zxl PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 19:		Line 19:
	<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=2zxl ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 29:		Line 29:
	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 2zxl" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Arabidopsis thaliana~~]]	+	[[Category: Arath]]
	[[Category: Red chlorophyll catabolite reductase]]		[[Category: Red chlorophyll catabolite reductase]]
	[[Category: Fukuyama, K]]		[[Category: Fukuyama, K]]

OCA at 19:33, 24 December 2014

OCA — Wed, 24 Dec 2014 19:33:41 GMT

←Older revision		Revision as of 19:33, 24 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2zxl]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZXL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZXL FirstGlance]. <br>		<table><tr><td colspan='2'>[[2zxl]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZXL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZXL FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</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=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2zxk\|2zxk]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2zxk\|2zxk]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">RCCR ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 Arabidopsis thaliana])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">RCCR ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 Arabidopsis thaliana])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Red_chlorophyll_catabolite_reductase Red chlorophyll catabolite reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.1.80 1.3.1.80] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Red_chlorophyll_catabolite_reductase Red chlorophyll catabolite reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.1.80 1.3.1.80] </span></td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2zxl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zxl OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2zxl RCSB], [http://www.ebi.ac.uk/pdbsum/2zxl 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=2zxl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zxl OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2zxl RCSB], [http://www.ebi.ac.uk/pdbsum/2zxl PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/RCCR_ARATH RCCR_ARATH]] Catalyzes the key reaction of chlorophyll catabolism, porphyrin macrocycle cleavage of pheophorbide a (pheide a) to a primary fluorescent catabolite (pFCC). Works in a two-step reaction with pheophorbide a oxygenase (PaO) by reducing the C20/C1 double bond of the intermediate, RCC.<ref>PMID:10743659</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 33:		Line 35:
	[[Category: Arabidopsis thaliana]]		[[Category: Arabidopsis thaliana]]
	[[Category: Red chlorophyll catabolite reductase]]		[[Category: Red chlorophyll catabolite reductase]]
-	[[Category: Fukuyama, K.]]	+	[[Category: Fukuyama, K]]
-	[[Category: Kitamori, Y.]]	+	[[Category: Kitamori, Y]]
-	[[Category: Sugishima, M.]]	+	[[Category: Sugishima, M]]
	[[Category: Alpha-beta-alpha sandwich]]		[[Category: Alpha-beta-alpha sandwich]]
	[[Category: Chlorophyll catabolism]]		[[Category: Chlorophyll catabolism]]

OCA at 05:37, 2 October 2014

OCA — Thu, 02 Oct 2014 05:37:26 GMT

←Older revision		Revision as of 05:37, 2 October 2014
Line 1:		Line 1:
-	[[~~Image:~~2zxl.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of red chlorophyll catabolite reductase from Arabidopsis thaliana==
		+	<StructureSection load='2zxl' size='340' side='right' caption='[[2zxl]], [[Resolution\|resolution]] 2.40Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2zxl]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZXL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZXL FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2zxk\|2zxk]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">RCCR ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 Arabidopsis thaliana])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Red_chlorophyll_catabolite_reductase Red chlorophyll catabolite reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.1.80 1.3.1.80] </span></td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2zxl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zxl OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2zxl RCSB], [http://www.ebi.ac.uk/pdbsum/2zxl 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/zx/2zxl_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The key steps in the degradation pathway of chlorophylls are the ring-opening reaction catalyzed by pheophorbide a oxygenase and sequential reduction by red chlorophyll catabolite reductase (RCCR). During these steps, chlorophyll catabolites lose their color and phototoxicity. RCCR catalyzes the ferredoxin-dependent reduction of the C20/C1 double bond of red chlorophyll catabolite. RCCR appears to be evolutionarily related to the ferredoxin-dependent bilin reductase (FDBR) family, which synthesizes a variety of phytobilin pigments, on the basis of sequence similarity, ferredoxin dependency, and the common tetrapyrrole skeleton of their substrates. The evidence, however, is not robust; the identity between RCCR and FDBR HY2 from Arabidopsis thaliana is only 15%, and the oligomeric states of these enzymes are different. Here, we report the crystal structure of A. thaliana RCCR at 2.4 A resolution. RCCR forms a homodimer, in which each subunit folds in an alpha/beta/alpha sandwich. The tertiary structure of RCCR is similar to those of FDBRs, strongly supporting that these enzymes evolved from a common ancestor. The two subunits are related by noncrystallographic 2-fold symmetry in which the alpha-helices near the edge of the beta-sheet unique in RCCR participate in intersubunit interaction. The putative RCC-binding site, which was derived by superimposing RCCR onto biliverdin-bound forms of FDBRs, forms an open pocket surrounded by conserved residues among RCCRs. Glu154 and Asp291 of A. thaliana RCCR, which stand opposite each other in the pocket, likely are involved in substrate binding and/or catalysis.

-	~~{{STRUCTURE_2zxl\| PDB=2zxl \| SCENE= }}~~	+	Crystal structure of red chlorophyll catabolite reductase: enlargement of the ferredoxin-dependent bilin reductase family.,Sugishima M, Kitamori Y, Noguchi M, Kohchi T, Fukuyama K J Mol Biol. 2009 Jun 5;389(2):376-87. Epub 2009 Apr 15. PMID:19374909<ref>PMID:19374909</ref>

-	~~===Crystal structure~~ of ~~red chlorophyll catabolite reductase from Arabidopsis thaliana===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_19374909}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[2zxl]] is a 2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2ZXL OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:019374909<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Arabidopsis thaliana]]		[[Category: Arabidopsis thaliana]]
	[[Category: Red chlorophyll catabolite reductase]]		[[Category: Red chlorophyll catabolite reductase]]

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

OCA — Mon, 07 Jan 2013 20:25:28 GMT

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

←Older revision

Revision as of 20:25, 7 January 2013

OCA at 20:25, 7 January 2013

OCA — Mon, 07 Jan 2013 20:25:22 GMT

←Older revision		Revision as of 20:25, 7 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2zxl.png\|left\|200px]]		[[Image:2zxl.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2zxl", 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_2zxl\| PDB=2zxl \| SCENE= }}		{{STRUCTURE_2zxl\| PDB=2zxl \| SCENE= }}

	===Crystal structure of red chlorophyll catabolite reductase from Arabidopsis thaliana===		===Crystal structure of red chlorophyll catabolite reductase from Arabidopsis thaliana===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_19374909}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 19374909 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_19374909}}		{{ABSTRACT_PUBMED_19374909}}

	==About this Structure==		==About this Structure==
-	~~2ZXL~~ is a 2 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZXL OCA].	+	[[2zxl]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZXL OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~19374909~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:019374909</ref><references group="xtra"/>
	[[Category: Arabidopsis thaliana]]		[[Category: Arabidopsis thaliana]]
	[[Category: Red chlorophyll catabolite reductase]]		[[Category: Red chlorophyll catabolite reductase]]
Line 32:		Line 20:
	[[Category: Chlorophyll catabolism]]		[[Category: Chlorophyll catabolism]]
	[[Category: Chloroplast]]		[[Category: Chloroplast]]
-	[[Category: Coiled coil]]
	[[Category: Nadp]]		[[Category: Nadp]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]
-	[[Category: Plastid]]
	[[Category: Transit peptide]]		[[Category: Transit peptide]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jun 3 09:52:56 2009''

OCA at 06:52, 3 June 2009

OCA — Wed, 03 Jun 2009 06:52:56 GMT

←Older revision		Revision as of 06:52, 3 June 2009
Line 1:		Line 1:
	{{Seed}}		{{Seed}}
-	[[Image:2zxl.~~jpg~~\|left\|200px]]	+	[[Image:2zxl.png\|left\|200px]]

	<!--		<!--
Line 38:		Line 38:
	[[Category: Transit peptide]]		[[Category: Transit peptide]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~May~~ ~~6 10~~:46:55 2009''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jun 3 09:52:56 2009''

OCA at 07:46, 6 May 2009

OCA — Wed, 06 May 2009 07:46:56 GMT

←Older revision		Revision as of 07:46, 6 May 2009
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{Seed}}
		+	[[Image:2zxl.jpg\|left\|200px]]

-	The ~~entry 2zxl~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_2zxl", 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_2zxl\| PDB=2zxl \| SCENE= }}

-	~~Authors: Sugishima, M., Kitamori, Y., Noguchi, M., Kohchi, T., Fukuyama, K.~~	+	===Crystal structure of red chlorophyll catabolite reductase from Arabidopsis thaliana===

-	Description: Crystal structure of red chlorophyll catabolite reductase from Arabidopsis thaliana

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Jan 14 12~~:50:49 2009''	+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_19374909}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 19374909 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_19374909}}
		+
		+	==About this Structure==
		+	2ZXL is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZXL OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:19374909</ref><references group="xtra"/>
		+	[[Category: Arabidopsis thaliana]]
		+	[[Category: Red chlorophyll catabolite reductase]]
		+	[[Category: Fukuyama, K.]]
		+	[[Category: Kitamori, Y.]]
		+	[[Category: Sugishima, M.]]
		+	[[Category: Alpha-beta-alpha sandwich]]
		+	[[Category: Chlorophyll catabolism]]
		+	[[Category: Chloroplast]]
		+	[[Category: Coiled coil]]
		+	[[Category: Nadp]]
		+	[[Category: Oxidoreductase]]
		+	[[Category: Plastid]]
		+	[[Category: Transit peptide]]
		+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed May 6 10:46:55 2009''