4whp - Revision history

OCA at 07:31, 27 September 2023

OCA — Wed, 27 Sep 2023 07:31:31 GMT

←Older revision		Revision as of 07:31, 27 September 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4whp]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_putida Pseudomonas putida]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4WHP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4WHP FirstGlance]. <br>		<table><tr><td colspan='2'>[[4whp]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_putida Pseudomonas putida]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4WHP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4WHP FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BCT:BICARBONATE+ION'>BCT</scene>, <scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=MHO:S-OXYMETHIONINE'>MHO</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]] 1.541Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BCT:BICARBONATE+ION'>BCT</scene>, <scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=MHO:S-OXYMETHIONINE'>MHO</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'>[https://proteopedia.org/fgij/fg.htm?mol=4whp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4whp OCA], [https://pdbe.org/4whp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4whp RCSB], [https://www.ebi.ac.uk/pdbsum/4whp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4whp 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=4whp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4whp OCA], [https://pdbe.org/4whp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4whp RCSB], [https://www.ebi.ac.uk/pdbsum/4whp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4whp ProSAT]</span></td></tr>
	</table>		</table>

OCA at 07:08, 7 April 2023

OCA — Fri, 07 Apr 2023 07:08:59 GMT

←Older revision		Revision as of 07:08, 7 April 2023
Line 3:		Line 3:
	<StructureSection load='4whp' size='340' side='right'caption='[[4whp]], [[Resolution\|resolution]] 1.54Å' scene=''>		<StructureSection load='4whp' size='340' side='right'caption='[[4whp]], [[Resolution\|resolution]] 1.54Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4whp]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"bacillus_fluorescens_putidus"_flugge_1886 "bacillus fluorescens putidus" flugge 1886~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4WHP OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4WHP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4whp]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_putida Pseudomonas putida]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4WHP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4WHP FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BCT:BICARBONATE+ION'>BCT</scene>, <scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</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=BCT:BICARBONATE+ION'>BCT</scene>, <scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=MHO:S-OXYMETHIONINE'>MHO</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=MHO:S-OXYMETHIONINE'>MHO</scene>~~</td></tr>~~	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4whp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4whp OCA], [https://pdbe.org/4whp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4whp RCSB], [https://www.ebi.ac.uk/pdbsum/4whp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4whp ProSAT]</span></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4who\|4who]]~~, ~~[[4whq\|4whq]], [[4whr\|4whr]], [[4whs\|4whs]]~~<~~/td></tr>~~	+
-	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:]]</b></td><td class="sblockDat">pcaG ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=303 "Bacillus fluorescens putidus" Flugge 1886]), pcaH ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=303 "Bacillus fluorescens putidus" Flugge 1886])</td></tr>	+
-	~~<tr id='activity~~'>~~<td class="sblockLbl"><b>Activity:~~</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Protocatechuate_3,4-dioxygenase Protocatechuate 3,4-dioxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.11.3 1.13.11.3] </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=4whp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4whp OCA], [~~http~~://pdbe.org/4whp PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4whp RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4whp PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4whp ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/PCXA_PSEPU PCXA_PSEPU~~]] Plays an essential role in the utilization of numerous aromatic and hydroaromatic compounds via the beta-ketoadipate pathway. [[http://www.uniprot.org/uniprot/PCXB_PSEPU PCXB_PSEPU]~~] Plays an essential role in the utilization of numerous aromatic and hydroaromatic compounds via the beta-ketoadipate pathway.	+	[https://www.uniprot.org/uniprot/PCXA_PSEPU PCXA_PSEPU] Plays an essential role in the utilization of numerous aromatic and hydroaromatic compounds via the beta-ketoadipate pathway.
	<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: Bacillus fluorescens putidus flugge 1886]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Protocatechuate 3,4-dioxygenase~~]]	+	[[Category: Pseudomonas putida]]
-	[[Category: Knoot~~, C J~~]]	+	[[Category: Knoot CJ]]
-	[[Category: Lipscomb~~, J D]]~~	+	[[Category: Lipscomb JD]]
-	~~[[Category: Aromatic ring cleavage]]~~	+
-	~~[[Category: Catalytic intermediate]]~~	+
-	~~[[Category: Dioxygen activation]]~~	+
-	~~[[Category: Intradiol dioxygenase]]~~	+
-	~~[[Category: Non-heme iron]]~~	+
-	~~[[Category: Oxidoreductase~~]]	+

OCA at 10:29, 25 December 2019

OCA — Wed, 25 Dec 2019 10:29:33 GMT

←Older revision		Revision as of 10:29, 25 December 2019
Line 1:		Line 1:

	==Resting Protocatechuate 3,4-dioxygenase (pseudomonas putida) at pH 6.5==		==Resting Protocatechuate 3,4-dioxygenase (pseudomonas putida) at pH 6.5==
-	<StructureSection load='4whp' size='340' side='right' caption='[[4whp]], [[Resolution\|resolution]] 1.54Å' scene=''>	+	<StructureSection load='4whp' size='340' side='right'caption='[[4whp]], [[Resolution\|resolution]] 1.54Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4whp]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_fluorescens_putidus"_flugge_1886 "bacillus fluorescens putidus" flugge 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4WHP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4WHP FirstGlance]. <br>		<table><tr><td colspan='2'>[[4whp]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_fluorescens_putidus"_flugge_1886 "bacillus fluorescens putidus" flugge 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4WHP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4WHP FirstGlance]. <br>
Line 22:		Line 22:
	</div>		</div>
	<div class="pdbe-citations 4whp" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 4whp" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Dioxygenase 3D structures\|Dioxygenase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 27:		Line 30:
	</StructureSection>		</StructureSection>
	[[Category: Bacillus fluorescens putidus flugge 1886]]		[[Category: Bacillus fluorescens putidus flugge 1886]]
		+	[[Category: Large Structures]]
	[[Category: Protocatechuate 3,4-dioxygenase]]		[[Category: Protocatechuate 3,4-dioxygenase]]
	[[Category: Knoot, C J]]		[[Category: Knoot, C J]]

OCA at 12:12, 6 November 2017

OCA — Mon, 06 Nov 2017 12:12:15 GMT

←Older revision		Revision as of 12:12, 6 November 2017
Line 3:		Line 3:
	<StructureSection load='4whp' size='340' side='right' caption='[[4whp]], [[Resolution\|resolution]] 1.54Å' scene=''>		<StructureSection load='4whp' size='340' side='right' caption='[[4whp]], [[Resolution\|resolution]] 1.54Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4whp]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4WHP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4WHP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4whp]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_fluorescens_putidus"_flugge_1886 "bacillus fluorescens putidus" flugge 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4WHP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4WHP FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BCT:BICARBONATE+ION'>BCT</scene>, <scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</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=BCT:BICARBONATE+ION'>BCT</scene>, <scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</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=MHO:S-OXYMETHIONINE'>MHO</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MHO:S-OXYMETHIONINE'>MHO</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4who\|4who]], [[4whq\|4whq]], [[4whr\|4whr]], [[4whs\|4whs]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4who\|4who]], [[4whq\|4whq]], [[4whr\|4whr]], [[4whs\|4whs]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pcaG ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=303 "Bacillus fluorescens putidus" Flugge 1886]), pcaH ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=303 "Bacillus fluorescens putidus" Flugge 1886])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Protocatechuate_3,4-dioxygenase Protocatechuate 3,4-dioxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.11.3 1.13.11.3] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Protocatechuate_3,4-dioxygenase Protocatechuate 3,4-dioxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.11.3 1.13.11.3] </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=4whp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4whp OCA], [http://pdbe.org/4whp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4whp RCSB], [http://www.ebi.ac.uk/pdbsum/4whp PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4whp ProSAT]</span></td></tr>		<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4whp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4whp OCA], [http://pdbe.org/4whp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4whp RCSB], [http://www.ebi.ac.uk/pdbsum/4whp PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4whp ProSAT]</span></td></tr>
Line 21:		Line 22:
	</div>		</div>
	<div class="pdbe-citations 4whp" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 4whp" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Dioxygenase\|Dioxygenase]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bacillus fluorescens putidus flugge 1886]]
	[[Category: Protocatechuate 3,4-dioxygenase]]		[[Category: Protocatechuate 3,4-dioxygenase]]
	[[Category: Knoot, C J]]		[[Category: Knoot, C J]]

OCA at 20:48, 11 August 2016

OCA — Thu, 11 Aug 2016 20:48:58 GMT

←Older revision		Revision as of 20:48, 11 August 2016
Line 1:		Line 1:
		+
	==Resting Protocatechuate 3,4-dioxygenase (pseudomonas putida) at pH 6.5==		==Resting Protocatechuate 3,4-dioxygenase (pseudomonas putida) at pH 6.5==
	<StructureSection load='4whp' size='340' side='right' caption='[[4whp]], [[Resolution\|resolution]] 1.54Å' scene=''>		<StructureSection load='4whp' size='340' side='right' caption='[[4whp]], [[Resolution\|resolution]] 1.54Å' scene=''>
Line 7:		Line 8:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4who\|4who]], [[4whq\|4whq]], [[4whr\|4whr]], [[4whs\|4whs]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4who\|4who]], [[4whq\|4whq]], [[4whr\|4whr]], [[4whs\|4whs]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Protocatechuate_3,4-dioxygenase Protocatechuate 3,4-dioxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.11.3 1.13.11.3] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Protocatechuate_3,4-dioxygenase Protocatechuate 3,4-dioxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.11.3 1.13.11.3] </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=4whp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4whp OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4whp RCSB], [http://www.ebi.ac.uk/pdbsum/4whp 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=4whp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4whp OCA], [http://pdbe.org/4whp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4whp RCSB], [http://www.ebi.ac.uk/pdbsum/4whp PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4whp ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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 4whp" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Dioxygenase\|Dioxygenase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 08:10, 14 January 2015

OCA — Wed, 14 Jan 2015 08:10:35 GMT

←Older revision		Revision as of 08:10, 14 January 2015
Line 11:		Line 11:
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/PCXA_PSEPU PCXA_PSEPU]] Plays an essential role in the utilization of numerous aromatic and hydroaromatic compounds via the beta-ketoadipate pathway. [[http://www.uniprot.org/uniprot/PCXB_PSEPU PCXB_PSEPU]] Plays an essential role in the utilization of numerous aromatic and hydroaromatic compounds via the beta-ketoadipate pathway.		[[http://www.uniprot.org/uniprot/PCXA_PSEPU PCXA_PSEPU]] Plays an essential role in the utilization of numerous aromatic and hydroaromatic compounds via the beta-ketoadipate pathway. [[http://www.uniprot.org/uniprot/PCXB_PSEPU PCXB_PSEPU]] Plays an essential role in the utilization of numerous aromatic and hydroaromatic compounds via the beta-ketoadipate pathway.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Intradiol aromatic ring-cleaving dioxygenases use an active site, nonheme Fe3+ to activate O2 and catecholic substrates for reaction. The inability of Fe3+ to directly bind O2 presents a mechanistic conundrum. The reaction mechanism of protocatechuate 3,4-dioxygenase is investigated here using the alternative substrate 4-fluorocatechol. This substrate is found to slow the reaction at several steps throughout the mechanistic cycle, allowing the intermediates to be detected in solution studies. When the reaction was initiated in an enzyme crystal, it was found to halt at one of two intermediates depending on the pH of the surrounding solution. The X-ray crystal structure of the intermediate at pH 6.5 revealed the key alkylperoxo-Fe3+ species, and the anhydride-Fe3+ intermediate was found for a crystal reacted at pH 8.5. Intermediates of these types have not been structurally characterized for intradiol dioxygenases, and they validate four decades of spectroscopic, kinetic, and computational studies. In contrast to our similar in crystallo crystallographic studies of an Fe2+-containing extradiol dioxygenase, no evidence for a superoxo or peroxo intermediate preceding the alkylperoxo was found. This observation and the lack of spectroscopic evidence for an Fe2+ intermediate that could bind O2 are consistent with concerted formation of the alkylperoxo followed by Criegee rearrangement to yield the anhydride and ultimately ring-opened product. Structural comparison of the alkylperoxo intermediates from the intra- and extradiol dioxygenases provides a rationale for site specificity of ring cleavage.
		+
		+	Crystal structures of alkylperoxo and anhydride intermediates in an intradiol ring-cleaving dioxygenase.,Knoot CJ, Purpero VM, Lipscomb JD Proc Natl Acad Sci U S A. 2014 Dec 29. pii: 201419118. PMID:25548185<ref>PMID:25548185</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 14:55, 31 December 2014

OCA — Wed, 31 Dec 2014 14:55:44 GMT

←Older revision		Revision as of 14:55, 31 December 2014
Line 1:		Line 1:
-	'''~~Unreleased structure~~'''	+	==Resting Protocatechuate 3,4-dioxygenase (pseudomonas putida) at pH 6.5==
-		+	<StructureSection load='4whp' size='340' side='right' caption='[[4whp]], [[Resolution\|resolution]] 1.54Å' scene=''>
-	~~The entry~~ 4whp is ~~ON HOLD until Paper Publication~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[4whp]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4WHP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4WHP FirstGlance]. <br>
-	~~Authors~~: ~~Knoot~~, C.J., ~~Lipscomb~~, J.D.	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BCT:BICARBONATE+ION'>BCT</scene>, <scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</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=MHO:S-OXYMETHIONINE'>MHO</scene></td></tr>
-	~~Description~~: ~~Resting~~ Protocatechuate 3,4-dioxygenase ~~(pseudomonas putida) at pH 6.5~~	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4who\|4who]], [[4whq\|4whq]], [[4whr\|4whr]], [[4whs\|4whs]]</td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Protocatechuate_3,4-dioxygenase Protocatechuate 3,4-dioxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.11.3 1.13.11.3] </span></td></tr>
-	[[Category: Lipscomb, J.D]]	+	<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=4whp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4whp OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4whp RCSB], [http://www.ebi.ac.uk/pdbsum/4whp PDBsum]</span></td></tr>
-	[[Category: ~~Knoot, C.J~~]]	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/PCXA_PSEPU PCXA_PSEPU]] Plays an essential role in the utilization of numerous aromatic and hydroaromatic compounds via the beta-ketoadipate pathway. [[http://www.uniprot.org/uniprot/PCXB_PSEPU PCXB_PSEPU]] Plays an essential role in the utilization of numerous aromatic and hydroaromatic compounds via the beta-ketoadipate pathway.
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Protocatechuate 3,4-dioxygenase]]
		+	[[Category: Knoot, C J]]
		+	[[Category: Lipscomb, J D]]
		+	[[Category: Aromatic ring cleavage]]
		+	[[Category: Catalytic intermediate]]
		+	[[Category: Dioxygen activation]]
		+	[[Category: Intradiol dioxygenase]]
		+	[[Category: Non-heme iron]]
		+	[[Category: Oxidoreductase]]

OCA at 19:30, 24 December 2014

OCA — Wed, 24 Dec 2014 19:30:49 GMT

←Older revision		Revision as of 19:30, 24 December 2014
Line 6:		Line 6:

	Description: Resting Protocatechuate 3,4-dioxygenase (pseudomonas putida) at pH 6.5		Description: Resting Protocatechuate 3,4-dioxygenase (pseudomonas putida) at pH 6.5
		+	[[Category: Unreleased Structures]]
		+	[[Category: Lipscomb, J.D]]
		+	[[Category: Knoot, C.J]]

OCA at 06:55, 8 October 2014

OCA — Wed, 08 Oct 2014 06:55:42 GMT

←Older revision		Revision as of 06:55, 8 October 2014
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4whp is ON HOLD	+	The entry 4whp is ON HOLD until Paper Publication

	Authors: Knoot, C.J., Lipscomb, J.D.		Authors: Knoot, C.J., Lipscomb, J.D.

	Description: Resting Protocatechuate 3,4-dioxygenase (pseudomonas putida) at pH 6.5		Description: Resting Protocatechuate 3,4-dioxygenase (pseudomonas putida) at pH 6.5

OCA: Protected "4whp" [edit=sysop:move=sysop]

OCA — Wed, 01 Oct 2014 23:33:38 GMT

Protected "4whp" [edit=sysop:move=sysop]

←Older revision

Revision as of 23:33, 1 October 2014