3vmg - Revision history

OCA at 12:26, 8 November 2023

2023-11-08T12:26:59Z

←Older revision		Revision as of 12:26, 8 November 2023
Line 3:		Line 3:
	<StructureSection load='3vmg' size='340' side='right'caption='[[3vmg]], [[Resolution\|resolution]] 1.95Å' scene=''>		<StructureSection load='3vmg' size='340' side='right'caption='[[3vmg]], [[Resolution\|resolution]] 1.95Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3vmg]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Atcc_14235 Atcc 14235~~] and [https://en.wikipedia.org/wiki/~~Jans3 Jans3~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VMG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3VMG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3vmg]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Janthinobacterium_sp._J3 Janthinobacterium sp. J3] and [https://en.wikipedia.org/wiki/Pseudomonas_resinovorans Pseudomonas resinovorans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VMG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3VMG FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=9CA:9H~~-~~CARBAZOLE'>9CA</scene>~~, ~~<scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=FES:FE2/S2+(INORGANIC)+CLUSTER'>FES</scene>~~</td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 1.95Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max~~-~~height: 3em;~~'>~~[[3vmh\|3vmh]], [[3vmi\|3vmi]]~~</~~div~~><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=9CA:9H-CARBAZOLE'>9CA</scene>, <scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=FES:FE2/S2+(INORGANIC)+CLUSTER'>FES</scene></td></tr>
-	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b></td><td class="sblockDat">carAa~~ (~~[https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=213804 JANS3]~~)~~, carAc ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=53412 ATCC 14235])</td~~></tr>	+
-	<~~tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:</~~b></td><td class="sblockDat"><span class='plainlinks~~'>~~[https://en.wikipedia.org/wiki/Carbazole_1,9a-dioxygenase Carbazole 1,9a-dioxygenase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.14.12.22 1.14.12.22]~~ </~~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=3vmg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vmg OCA], [https://pdbe.org/3vmg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3vmg RCSB], [https://www.ebi.ac.uk/pdbsum/3vmg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3vmg 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=3vmg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vmg OCA], [https://pdbe.org/3vmg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3vmg RCSB], [https://www.ebi.ac.uk/pdbsum/3vmg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3vmg ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/~~CARAC_PSERE CARAC_PSERE~~]] Part of the multicomponent carbazole 1,9a-dioxygenase (CARDO), that converts carbazole (CAR) into 2-aminobiphenyl-2,3-diol. Acts as a mediator in the electron transfer from CarAd to CarAa.<ref>PMID:9244274</ref> <ref>PMID:12450807</ref>	+	[https://www.uniprot.org/uniprot/Q84II6_JANS3 Q84II6_JANS3]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Atcc 14235]]~~	+	[[Category: Janthinobacterium sp. J3]]
-	~~[[Category: Carbazole 1,9a-dioxygenase]]~~	+
-	~~[[Category: Jans3~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Ashikawa, Y~~]]	+	[[Category: Pseudomonas resinovorans]]
-	[[Category: ~~Nojiri, H~~]]	+	[[Category: Ashikawa Y]]
-	[[Category: ~~9a-dioxygenase]]~~	+	[[Category: Nojiri H]]
-	~~[[Category: Carbazole 1]]~~	+
-	~~[[Category: Catalytic mechanism]]~~	+
-	~~[[Category: Electron transfer complex]]~~	+
-	~~[[Category: Oxidoreductase]]~~	+
-	~~[[Category: Rieske nonheme iron oxygenase system]]~~	+
-	~~[[Category: Rieske-type ferredoxin]]~~	+
-	~~[[Category: Terminal oxygenase~~]]	+

OCA at 18:52, 27 July 2022

2022-07-27T18:52:49Z

←Older revision		Revision as of 18:52, 27 July 2022
Line 1:		Line 1:

	==Reduced carbazole-bound complex between oxygenase and ferredoxin in carbazole 1,9a-dioxygenase==		==Reduced carbazole-bound complex between oxygenase and ferredoxin in carbazole 1,9a-dioxygenase==
-	<StructureSection load='3vmg' size='340' side='right' caption='[[3vmg]], [[Resolution\|resolution]] 1.95Å' scene=''>	+	<StructureSection load='3vmg' size='340' side='right'caption='[[3vmg]], [[Resolution\|resolution]] 1.95Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3vmg]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Atcc_14235 Atcc 14235] and [~~http~~://en.wikipedia.org/wiki/Jans3 Jans3]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VMG OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3VMG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3vmg]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_14235 Atcc 14235] and [https://en.wikipedia.org/wiki/Jans3 Jans3]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VMG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3VMG FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=9CA:9H-CARBAZOLE'>9CA</scene>, <scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=FES:FE2/S2+(INORGANIC)+CLUSTER'>FES</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=9CA:9H-CARBAZOLE'>9CA</scene>, <scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=FES:FE2/S2+(INORGANIC)+CLUSTER'>FES</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3vmh\|3vmh]], [[3vmi\|3vmi]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3vmh\|3vmh]], [[3vmi\|3vmi]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">carAa ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=213804 JANS3]), carAc ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=53412 ATCC 14235])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">carAa ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=213804 JANS3]), carAc ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=53412 ATCC 14235])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Carbazole_1,9a-dioxygenase Carbazole 1,9a-dioxygenase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.14.12.22 1.14.12.22] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Carbazole_1,9a-dioxygenase Carbazole 1,9a-dioxygenase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.14.12.22 1.14.12.22] </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=3vmg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vmg OCA], [~~http~~://pdbe.org/3vmg PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3vmg RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3vmg PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3vmg 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=3vmg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vmg OCA], [https://pdbe.org/3vmg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3vmg RCSB], [https://www.ebi.ac.uk/pdbsum/3vmg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3vmg ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/CARAC_PSERE CARAC_PSERE]] Part of the multicomponent carbazole 1,9a-dioxygenase (CARDO), that converts carbazole (CAR) into 2-aminobiphenyl-2,3-diol. Acts as a mediator in the electron transfer from CarAd to CarAa.<ref>PMID:9244274</ref> <ref>PMID:12450807</ref>	+	[[https://www.uniprot.org/uniprot/CARAC_PSERE CARAC_PSERE]] Part of the multicomponent carbazole 1,9a-dioxygenase (CARDO), that converts carbazole (CAR) into 2-aminobiphenyl-2,3-diol. Acts as a mediator in the electron transfer from CarAd to CarAa.<ref>PMID:9244274</ref> <ref>PMID:12450807</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 23:		Line 23:

	==See Also==		==See Also==
-	*[[Dioxygenase\|Dioxygenase]]	+	*[[Dioxygenase 3D structures\|Dioxygenase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 31:		Line 31:
	[[Category: Carbazole 1,9a-dioxygenase]]		[[Category: Carbazole 1,9a-dioxygenase]]
	[[Category: Jans3]]		[[Category: Jans3]]
		+	[[Category: Large Structures]]
	[[Category: Ashikawa, Y]]		[[Category: Ashikawa, Y]]
	[[Category: Nojiri, H]]		[[Category: Nojiri, H]]

OCA at 03:32, 5 August 2016

2016-08-05T03:32:19Z

←Older revision		Revision as of 03:32, 5 August 2016
Line 1:		Line 1:
		+
	==Reduced carbazole-bound complex between oxygenase and ferredoxin in carbazole 1,9a-dioxygenase==		==Reduced carbazole-bound complex between oxygenase and ferredoxin in carbazole 1,9a-dioxygenase==
	<StructureSection load='3vmg' size='340' side='right' caption='[[3vmg]], [[Resolution\|resolution]] 1.95Å' scene=''>		<StructureSection load='3vmg' size='340' side='right' caption='[[3vmg]], [[Resolution\|resolution]] 1.95Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3vmg]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Janthinobacterium Janthinobacterium~~] and [http://en.wikipedia.org/wiki/~~Pseudomonas_resinovorans Pseudomonas resinovorans~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VMG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3VMG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3vmg]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_14235 Atcc 14235] and [http://en.wikipedia.org/wiki/Jans3 Jans3]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VMG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3VMG FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=9CA:9H-CARBAZOLE'>9CA</scene>, <scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=FES:FE2/S2+(INORGANIC)+CLUSTER'>FES</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=9CA:9H-CARBAZOLE'>9CA</scene>, <scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=FES:FE2/S2+(INORGANIC)+CLUSTER'>FES</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3vmh\|3vmh]], [[3vmi\|3vmi]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3vmh\|3vmh]], [[3vmi\|3vmi]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">carAa ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=~~29580 Janthinobacterium~~]), carAc ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=53412 ~~Pseudomonas resinovorans~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">carAa ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=213804 JANS3]), carAc ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=53412 ATCC 14235])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Carbazole_1,9a-dioxygenase Carbazole 1,9a-dioxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.14.12.22 1.14.12.22] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Carbazole_1,9a-dioxygenase Carbazole 1,9a-dioxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.14.12.22 1.14.12.22] </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=3vmg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vmg OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3vmg RCSB], [http://www.ebi.ac.uk/pdbsum/3vmg 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=3vmg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vmg OCA], [http://pdbe.org/3vmg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3vmg RCSB], [http://www.ebi.ac.uk/pdbsum/3vmg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3vmg ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[http://www.uniprot.org/uniprot/~~Q8GI16_PSERE Q8GI16_PSERE~~]] Part of the multicomponent carbazole 1,9a-dioxygenase (CARDO), that converts carbazole (CAR) into 2-aminobiphenyl-2,3-diol. Acts as a mediator in the electron transfer from CarAd to CarAa.<ref>PMID:9244274</ref> <ref>PMID:12450807</ref>	+	[[http://www.uniprot.org/uniprot/CARAC_PSERE CARAC_PSERE]] Part of the multicomponent carbazole 1,9a-dioxygenase (CARDO), that converts carbazole (CAR) into 2-aminobiphenyl-2,3-diol. Acts as a mediator in the electron transfer from CarAd to CarAa.<ref>PMID:9244274</ref> <ref>PMID:12450807</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 19:		Line 20:
	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 3vmg" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 26:		Line 28:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Atcc 14235]]
	[[Category: Carbazole 1,9a-dioxygenase]]		[[Category: Carbazole 1,9a-dioxygenase]]
-	[[Category: ~~Janthinobacterium]]~~	+	[[Category: Jans3]]
-	~~[[Category: Pseudomonas resinovorans~~]]	+
	[[Category: Ashikawa, Y]]		[[Category: Ashikawa, Y]]
	[[Category: Nojiri, H]]		[[Category: Nojiri, H]]

OCA at 15:31, 25 December 2014

2014-12-25T15:31:23Z

←Older revision		Revision as of 15:31, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3vmg]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Janthinobacterium Janthinobacterium] and [http://en.wikipedia.org/wiki/Pseudomonas_resinovorans Pseudomonas resinovorans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VMG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3VMG FirstGlance]. <br>		<table><tr><td colspan='2'>[[3vmg]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Janthinobacterium Janthinobacterium] and [http://en.wikipedia.org/wiki/Pseudomonas_resinovorans Pseudomonas resinovorans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VMG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3VMG FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=9CA:9H-CARBAZOLE'>9CA</scene>, <scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=FES:FE2/S2+(INORGANIC)+CLUSTER'>FES</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=9CA:9H-CARBAZOLE'>9CA</scene>, <scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=FES:FE2/S2+(INORGANIC)+CLUSTER'>FES</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3vmh\|3vmh]], [[3vmi\|3vmi]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3vmh\|3vmh]], [[3vmi\|3vmi]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">carAa ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=29580 Janthinobacterium]), carAc ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=53412 Pseudomonas resinovorans])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">carAa ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=29580 Janthinobacterium]), carAc ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=53412 Pseudomonas resinovorans])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Carbazole_1,9a-dioxygenase Carbazole 1,9a-dioxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.14.12.22 1.14.12.22] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Carbazole_1,9a-dioxygenase Carbazole 1,9a-dioxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.14.12.22 1.14.12.22] </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=3vmg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vmg OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3vmg RCSB], [http://www.ebi.ac.uk/pdbsum/3vmg 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=3vmg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vmg OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3vmg RCSB], [http://www.ebi.ac.uk/pdbsum/3vmg PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/Q8GI16_PSERE Q8GI16_PSERE]] Part of the multicomponent carbazole 1,9a-dioxygenase (CARDO), that converts carbazole (CAR) into 2-aminobiphenyl-2,3-diol. Acts as a mediator in the electron transfer from CarAd to CarAa.<ref>PMID:9244274</ref> <ref>PMID:12450807</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 27:		Line 29:
	[[Category: Janthinobacterium]]		[[Category: Janthinobacterium]]
	[[Category: Pseudomonas resinovorans]]		[[Category: Pseudomonas resinovorans]]
-	[[Category: Ashikawa, Y.]]	+	[[Category: Ashikawa, Y]]
-	[[Category: Nojiri, H.]]	+	[[Category: Nojiri, H]]
	[[Category: 9a-dioxygenase]]		[[Category: 9a-dioxygenase]]
	[[Category: Carbazole 1]]		[[Category: Carbazole 1]]

OCA at 09:18, 11 June 2014

2014-06-11T09:18:26Z

←Older revision		Revision as of 09:18, 11 June 2014
Line 1:		Line 1:
-	[[~~Image:~~3vmg.~~jpg~~\|~~left~~\|~~200px~~]]	+	==Reduced carbazole-bound complex between oxygenase and ferredoxin in carbazole 1,9a-dioxygenase==
		+	<StructureSection load='3vmg' size='340' side='right' caption='[[3vmg]], [[Resolution\|resolution]] 1.95Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3vmg]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Janthinobacterium Janthinobacterium] and [http://en.wikipedia.org/wiki/Pseudomonas_resinovorans Pseudomonas resinovorans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VMG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3VMG FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=9CA:9H-CARBAZOLE'>9CA</scene>, <scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=FES:FE2/S2+(INORGANIC)+CLUSTER'>FES</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3vmh\|3vmh]], [[3vmi\|3vmi]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">carAa ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=29580 Janthinobacterium]), carAc ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=53412 Pseudomonas resinovorans])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Carbazole_1,9a-dioxygenase Carbazole 1,9a-dioxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.14.12.22 1.14.12.22] </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=3vmg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vmg OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3vmg RCSB], [http://www.ebi.ac.uk/pdbsum/3vmg PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	ABSTRACT: BACKGROUND: Dihydroxylation of tandemly linked aromatic carbons in a cis-configuration, catalyzed by multicomponent oxygenase systems known as Rieske nonheme iron oxygenase systems (ROs), often constitute the initial step of aerobic degradation pathways for various aromatic compounds. Because such RO reactions inherently govern whether downstream degradation processes occur, novel oxygenation mechanisms involving oxygenase components of ROs (RO-Os) is of great interest. Despite substantial progress in structural and physicochemical analyses, no consensus exists on the chemical steps in the catalytic cycles of ROs. Thus, determining whether conformational changes at the active site of RO-O occur by substrate and/or oxygen binding is important. Carbazole 1,9a-dioxygenase (CARDO), a RO member consists of catalytic terminal oxygenase (CARDO-O), ferredoxin (CARDO-F), and ferredoxin reductase. We have succeeded in determining the crystal structures of oxidized CARDO-O, oxidized CARDO-F, and both oxidized and reduced forms of the CARDO-O: CARDO-F binary complex. RESULTS: In the present study, we determined the crystal structures of the reduced carbazole (CAR)-bound, dioxygen-bound, and both CAR- and dioxygen-bound CARDO-O: CARDO-F binary complex structures at 1.95, 1.85, and 2.00 A resolution. These structures revealed the conformational changes that occur in the catalytic cycle. Structural comparison between complex structures in each step of the catalytic mechanism provides several implications, such as the order of substrate and dioxygen bindings, the iron-dioxygen species likely being Fe(III)-(hydro)peroxo, and the creation of room for dioxygen binding and the promotion of dioxygen binding in desirable fashion by preceding substrate binding. CONCLUSIONS: The RO catalytic mechanism is proposed as follows: When the Rieske cluster is reduced, substrate binding induces several conformational changes (e.g., movements of the nonheme iron and the ligand residue) that create room for oxygen binding. Dioxygen bound in a side-on fashion onto nonheme iron is activated by reduction to the peroxo state [Fe(III)-(hydro)peroxo]. This state may react directly with the bound substrate, or O-O bond cleavage may occur to generate Fe(V)-oxo-hydroxo species prior to the reaction. After producing a cis-dihydrodiol, the product is released by reducing the nonheme iron. This proposed scheme describes the catalytic cycle of ROs and provides important information for a better understanding of the mechanism.

-	~~{{STRUCTURE_3vmg\| PDB=3vmg \| SCENE= }}~~	+	Structural insight into the substrate- and dioxygen-binding manner in the catalytic cycle of rieske nonheme iron oxygenase system, carbazole 1,9a-dioxygenase.,Ashikawa Y, Fujimoto Z, Usami Y, Inoue K, Noguchi H, Yamane H, Nojiri H BMC Struct Biol. 2012 Jun 24;12:15. PMID:22727022<ref>PMID:22727022</ref>

-	~~===Reduced carbazole-bound complex between oxygenase and ferredoxin in carbazole 1~~,~~9a-dioxygenase===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

-	~~{{ABSTRACT_PUBMED_22727022}}~~	+	==See Also==
-		+	*[[Dioxygenase\|Dioxygenase]]
-	==~~About this Structure~~==	+	== References ==
-	[[~~3vmg~~]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Janthinobacterium Janthinobacterium] and [http://en.wikipedia.org/wiki/Pseudomonas_resinovorans Pseudomonas resinovorans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VMG OCA].	+	<references/>
-		+	__TOC__
-	==~~Reference~~==	+	</StructureSection>
-	<~~ref group="xtra">PMID:022727022<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Carbazole 1,9a-dioxygenase]]		[[Category: Carbazole 1,9a-dioxygenase]]
	[[Category: Janthinobacterium]]		[[Category: Janthinobacterium]]

OCA at 05:52, 22 August 2012

2012-08-22T05:52:40Z

←Older revision		Revision as of 05:52, 22 August 2012
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:3vmg.jpg\|left\|200px]]

-	~~The entry~~ 3vmg ~~is ON HOLD~~ ~~until Paper Publication~~	+	{{STRUCTURE_3vmg\| PDB=3vmg \| SCENE= }}

-	~~Authors: Ashikawa~~, ~~Y., Nojiri, H.~~	+	===Reduced carbazole-bound complex between oxygenase and ferredoxin in carbazole 1,9a-dioxygenase===

-	~~Description~~: ~~Reduced carbazole-bound complex between oxygenase~~ and ~~ferredoxin in carbazole~~ 1,9a-dioxygenase	+	{{ABSTRACT_PUBMED_22727022}}
		+
		+	==About this Structure==
		+	[[3vmg]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Janthinobacterium Janthinobacterium] and [http://en.wikipedia.org/wiki/Pseudomonas_resinovorans Pseudomonas resinovorans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VMG OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:022727022</ref><references group="xtra"/>
		+	[[Category: Carbazole 1,9a-dioxygenase]]
		+	[[Category: Janthinobacterium]]
		+	[[Category: Pseudomonas resinovorans]]
		+	[[Category: Ashikawa, Y.]]
		+	[[Category: Nojiri, H.]]
		+	[[Category: 9a-dioxygenase]]
		+	[[Category: Carbazole 1]]
		+	[[Category: Catalytic mechanism]]
		+	[[Category: Electron transfer complex]]
		+	[[Category: Oxidoreductase]]
		+	[[Category: Rieske nonheme iron oxygenase system]]
		+	[[Category: Rieske-type ferredoxin]]
		+	[[Category: Terminal oxygenase]]

OCA at 07:08, 6 June 2012

2012-06-06T07:08:05Z

←Older revision		Revision as of 07:08, 6 June 2012
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 3vmg is ON HOLD	+	The entry 3vmg is ON HOLD until Paper Publication

	Authors: Ashikawa, Y., Nojiri, H.		Authors: Ashikawa, Y., Nojiri, H.

	Description: Reduced carbazole-bound complex between oxygenase and ferredoxin in carbazole 1,9a-dioxygenase		Description: Reduced carbazole-bound complex between oxygenase and ferredoxin in carbazole 1,9a-dioxygenase

OCA at 05:49, 4 January 2012

2012-01-04T05:49:45Z

←Older revision		Revision as of 05:49, 4 January 2012
Line 3:		Line 3:
	The entry 3vmg is ON HOLD		The entry 3vmg is ON HOLD

-	Authors: Ashikawa, Y , Nojiri, H	+	Authors: Ashikawa, Y., Nojiri, H.

	Description: Reduced carbazole-bound complex between oxygenase and ferredoxin in carbazole 1,9a-dioxygenase		Description: Reduced carbazole-bound complex between oxygenase and ferredoxin in carbazole 1,9a-dioxygenase

OCA: Protected "3vmg" [edit=sysop:move=sysop]

2011-12-28T06:57:10Z

Protected "3vmg" [edit=sysop:move=sysop]

←Older revision

Revision as of 06:57, 28 December 2011

OCA: New page: '''Unreleased structure''' The entry 3vmg is ON HOLD Authors: Ashikawa, Y , Nojiri, H Description: Reduced carbazole-bound complex between oxygenase and ferredoxin in carbazole 1,9a-di...

2011-12-28T06:57:09Z

New page: '''Unreleased structure''' The entry 3vmg is ON HOLD Authors: Ashikawa, Y , Nojiri, H Description: Reduced carbazole-bound complex between oxygenase and ferredoxin in carbazole 1,9a-di...

New page

'''Unreleased structure'''

The entry 3vmg is ON HOLD

Authors: Ashikawa, Y , Nojiri, H

Description: Reduced carbazole-bound complex between oxygenase and ferredoxin in carbazole 1,9a-dioxygenase