2pcd - Revision history

OCA at 07:04, 27 September 2023

2023-09-27T07:04:59Z

← Older revision		Revision as of 07:04, 27 September 2023
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	<StructureSection load='2pcd' size='340' side='right'caption='[[2pcd]], [[Resolution\|resolution]] 2.15Å' scene=''>		<StructureSection load='2pcd' size='340' side='right'caption='[[2pcd]], [[Resolution\|resolution]] 2.15Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2pcd]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"bacillus_fluorescens_putidus"_flugge_1886 "bacillus fluorescens putidus" flugge 1886~~]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1pcd 1pcd]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PCD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2PCD FirstGlance]. <br>		<table><tr><td colspan='2'>[[2pcd]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_putida Pseudomonas putida]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1pcd 1pcd]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PCD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2PCD FirstGlance]. <br>
	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=FE:FE+(III)+ION'>FE</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]] 2.15Å</td></tr>
	<tr id='~~activity~~'><td class="sblockLbl"><b>~~Activity~~:</b></td><td class="sblockDat"><~~span class~~='~~plainlinks~~'>~~[https://en.wikipedia.org/wiki/Protocatechuate_3,4-dioxygenase Protocatechuate 3,4-dioxygenase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.11.3 1.13.11.3]~~ </~~span~~></td></tr>		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</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=2pcd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2pcd OCA], [https://pdbe.org/2pcd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2pcd RCSB], [https://www.ebi.ac.uk/pdbsum/2pcd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2pcd 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=2pcd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2pcd OCA], [https://pdbe.org/2pcd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2pcd RCSB], [https://www.ebi.ac.uk/pdbsum/2pcd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2pcd ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[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. [[https://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.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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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: Lipscomb~~, J D~~]]		[[Category: Lipscomb JD]]
	[[Category: Ohlendorf~~, D H~~]]		[[Category: Ohlendorf DH]]
	[[Category: Orville~~, A M]]~~		[[Category: Orville AM]]
	~~[[Category: Dioxygenase~~]]

OCA at 20:51, 20 October 2021

2021-10-20T20:51:42Z

← Older revision		Revision as of 20:51, 20 October 2021
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	<StructureSection load='2pcd' size='340' side='right'caption='[[2pcd]], [[Resolution\|resolution]] 2.15Å' scene=''>		<StructureSection load='2pcd' size='340' side='right'caption='[[2pcd]], [[Resolution\|resolution]] 2.15Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2pcd]] is a 12 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"bacillus_fluorescens_putidus"_flugge_1886 "bacillus fluorescens putidus" flugge 1886]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1pcd 1pcd]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PCD OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2PCD FirstGlance]. <br>		<table><tr><td colspan='2'>[[2pcd]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/"bacillus_fluorescens_putidus"_flugge_1886 "bacillus fluorescens putidus" flugge 1886]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1pcd 1pcd]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PCD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2PCD FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene></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'>[https://en.wikipedia.org/wiki/Protocatechuate_3,4-dioxygenase Protocatechuate 3,4-dioxygenase], with EC number [https://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=2pcd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2pcd OCA], [~~http~~://pdbe.org/2pcd PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2pcd RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2pcd PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2pcd 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=2pcd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2pcd OCA], [https://pdbe.org/2pcd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2pcd RCSB], [https://www.ebi.ac.uk/pdbsum/2pcd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2pcd 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. [[https://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.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 15:31, 11 December 2019

2019-12-11T15:31:28Z

← Older revision		Revision as of 15:31, 11 December 2019
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	==STRUCTURE OF PROTOCATECHUATE 3,4-DIOXYGENASE FROM PSEUDOMONAS AERUGINOSA AT 2.15 ANGSTROMS RESOLUTION==		==STRUCTURE OF PROTOCATECHUATE 3,4-DIOXYGENASE FROM PSEUDOMONAS AERUGINOSA AT 2.15 ANGSTROMS RESOLUTION==
	<StructureSection load='2pcd' size='340' side='right' caption='[[2pcd]], [[Resolution\|resolution]] 2.15Å' scene=''>		<StructureSection load='2pcd' size='340' side='right'caption='[[2pcd]], [[Resolution\|resolution]] 2.15Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2pcd]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_fluorescens_putidus"_flugge_1886 "bacillus fluorescens putidus" flugge 1886]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1pcd 1pcd]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PCD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2PCD FirstGlance]. <br>		<table><tr><td colspan='2'>[[2pcd]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_fluorescens_putidus"_flugge_1886 "bacillus fluorescens putidus" flugge 1886]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1pcd 1pcd]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PCD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2PCD FirstGlance]. <br>
Line 14:		Line 14:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/pc/2pcd_consurf.spt"</scriptWhenChecked>		<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/pc/2pcd_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>
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	</div>		</div>
	<div class="pdbe-citations 2pcd" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 2pcd" style="background-color:#fffaf0;"></div>

			==See Also==
			*[[Dioxygenase 3D structures\|Dioxygenase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
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	</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: Lipscomb, J D]]		[[Category: Lipscomb, J D]]

OCA at 07:10, 29 November 2017

2017-11-29T07:10:00Z

← Older revision		Revision as of 07:10, 29 November 2017
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	==STRUCTURE OF PROTOCATECHUATE 3,4-DIOXYGENASE FROM PSEUDOMONAS AERUGINOSA AT 2.15 ANGSTROMS RESOLUTION==		==STRUCTURE OF PROTOCATECHUATE 3,4-DIOXYGENASE FROM PSEUDOMONAS AERUGINOSA AT 2.15 ANGSTROMS RESOLUTION==
	<StructureSection load='2pcd' size='340' side='right' caption='[[2pcd]], [[Resolution\|resolution]] 2.15Å' scene=''>		<StructureSection load='2pcd' size='340' side='right' caption='[[2pcd]], [[Resolution\|resolution]] 2.15Å' scene=''>
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	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene></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=2pcd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2pcd OCA], [http://pdbe.org/2pcd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2pcd RCSB], [http://www.ebi.ac.uk/pdbsum/2pcd 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=2pcd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2pcd OCA], [http://pdbe.org/2pcd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2pcd RCSB], [http://www.ebi.ac.uk/pdbsum/2pcd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2pcd ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	</div>		</div>
	<div class="pdbe-citations 2pcd" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 2pcd" style="background-color:#fffaf0;"></div>

	~~==See Also==~~
	*[[Dioxygenase\|Dioxygenase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 20:56, 9 February 2016

2016-02-09T20:56:12Z

← Older revision		Revision as of 20:56, 9 February 2016
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	<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=2pcd ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 01:57, 11 September 2015

2015-09-11T01:57:18Z

← Older revision		Revision as of 01:57, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='2pcd' size='340' side='right' caption='[[2pcd]], [[Resolution\|resolution]] 2.15Å' scene=''>		<StructureSection load='2pcd' size='340' side='right' caption='[[2pcd]], [[Resolution\|resolution]] 2.15Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2pcd]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Pseudomonas_putida Pseudomonas putida~~]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1pcd 1pcd]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PCD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2PCD FirstGlance]. <br>		<table><tr><td colspan='2'>[[2pcd]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_fluorescens_putidus"_flugge_1886 "bacillus fluorescens putidus" flugge 1886]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1pcd 1pcd]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PCD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2PCD FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene></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=2pcd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2pcd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2pcd RCSB], [http://www.ebi.ac.uk/pdbsum/2pcd 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=2pcd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2pcd OCA], [http://pdbe.org/2pcd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2pcd RCSB], [http://www.ebi.ac.uk/pdbsum/2pcd PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	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 2pcd" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 34:		Line 35:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
			[[Category: Bacillus fluorescens putidus flugge 1886]]
	[[Category: Protocatechuate 3,4-dioxygenase]]		[[Category: Protocatechuate 3,4-dioxygenase]]
	~~[[Category: Pseudomonas putida]]~~
	[[Category: Lipscomb, J D]]		[[Category: Lipscomb, J D]]
	[[Category: Ohlendorf, D H]]		[[Category: Ohlendorf, D H]]
	[[Category: Orville, A M]]		[[Category: Orville, A M]]
	[[Category: Dioxygenase]]		[[Category: Dioxygenase]]

OCA at 09:28, 25 December 2014

2014-12-25T09:28:55Z

← Older revision		Revision as of 09:28, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2pcd]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_putida Pseudomonas putida]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1pcd 1pcd]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PCD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2PCD FirstGlance]. <br>		<table><tr><td colspan='2'>[[2pcd]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_putida Pseudomonas putida]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1pcd 1pcd]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PCD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2PCD FirstGlance]. <br>
	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene><br>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene></td></tr>
	<tr><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><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2pcd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2pcd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2pcd RCSB], [http://www.ebi.ac.uk/pdbsum/2pcd 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=2pcd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2pcd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2pcd RCSB], [http://www.ebi.ac.uk/pdbsum/2pcd PDBsum]</span></td></tr>
	<table>		</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.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 34:		Line 36:
	[[Category: Protocatechuate 3,4-dioxygenase]]		[[Category: Protocatechuate 3,4-dioxygenase]]
	[[Category: Pseudomonas putida]]		[[Category: Pseudomonas putida]]
	[[Category: Lipscomb, J D.]]		[[Category: Lipscomb, J D]]
	[[Category: Ohlendorf, D H.]]		[[Category: Ohlendorf, D H]]
	[[Category: Orville, A M.]]		[[Category: Orville, A M]]
	[[Category: Dioxygenase]]		[[Category: Dioxygenase]]

OCA at 18:22, 30 September 2014

2014-09-30T18:22:10Z

← Older revision		Revision as of 18:22, 30 September 2014
Line 1:		Line 1:
	[[Image:~~2pcd~~.~~png~~\|~~left~~\|~~200px~~]]		==STRUCTURE OF PROTOCATECHUATE 3,4-DIOXYGENASE FROM PSEUDOMONAS AERUGINOSA AT 2.15 ANGSTROMS RESOLUTION==
			<StructureSection load='2pcd' size='340' side='right' caption='[[2pcd]], [[Resolution\|resolution]] 2.15Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[2pcd]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_putida Pseudomonas putida]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1pcd 1pcd]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PCD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2PCD FirstGlance]. <br>
			</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene><br>
			<tr><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><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2pcd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2pcd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2pcd RCSB], [http://www.ebi.ac.uk/pdbsum/2pcd 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/pc/2pcd_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 ==
			Protocatechuate 3,4-dioxygenase catalyzes the aromatic ring cleavage of 3,4-dihydroxybenzoate by incorporating both atoms of molecular oxygen to yield beta-carboxy-cis,cis-muconate. The structure of this metalloenzyme from Pseudomonas aeruginosa (now reclassified as P. putida) has been refined to an R-factor of 0.172 to 2.15 A resolution. The structure is a highly symmetric (alpha beta Fe3+)12 aggregate with a root-mean-square (r.m.s.) difference of 0.18 A among symmetry-related atoms. The tertiary structure of the two polypeptides (alpha and beta) are highly homologous (r.m.s. difference of 1.05 A over 127 C alpha atoms), suggesting that the ancestral enzyme was originally a homodimer with two active sites. Indeed, a non-functional, vestigial active site retains many of the properties of the functional active site but does not bind iron. The coordination geometry of the non-heme iron catalytic cofactor can best be described as trigonal bipyramidal with Tyr447 (147 beta) and His462 (162 beta) serving as axial ligands, and Tyr408 (108 beta), His460 (160 beta) and Wat837 serving as equitorial ligands. The active site environment has a number of basic residues that may promote binding of the acidic substrate. Within the putative active site cavity which is located between alpha and beta chains, five approximately coplanar solvent molecules suggest a position for the planar substrate Trp449 (149 beta), Ile491 (191 beta), defined by Gly14 (14 alpha) and Pro15 (15 alpha). In this position the guanidino group of Arg457 (157 beta) would be buried by the substrate, suggesting a functional role in catalysis.

	~~{{STRUCTURE_2pcd\| PDB=2pcd \| SCENE= }}~~		Structure of protocatechuate 3,4-dioxygenase from Pseudomonas aeruginosa at 2.15 A resolution.,Ohlendorf DH, Orville AM, Lipscomb JD J Mol Biol. 1994 Dec 16;244(5):586-608. PMID:7990141<ref>PMID:7990141</ref>

	~~===STRUCTURE OF PROTOCATECHUATE 3~~,~~4-DIOXYGENASE FROM PSEUDOMONAS AERUGINOSA AT 2~~.~~15 ANGSTROMS RESOLUTION===~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>

	~~{{ABSTRACT_PUBMED_7990141}}~~		==See Also==
			*[[Dioxygenase\|Dioxygenase]]
	==~~About this Structure~~==		== References ==
	[[2pcd]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_putida Pseudomonas putida]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1pcd 1pcd]~~. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PCD OCA~~].		<references/>
			__TOC__
	==~~Reference~~==		</StructureSection>
	<~~ref group="xtra">PMID:007990141<~~/~~ref~~><~~references group="xtra"~~/>
	[[Category: Protocatechuate 3,4-dioxygenase]]		[[Category: Protocatechuate 3,4-dioxygenase]]
	[[Category: Pseudomonas putida]]		[[Category: Pseudomonas putida]]

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

2013-01-07T13:13:29Z

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

← Older revision	Revision as of 13:13, 7 January 2013
(No difference)

OCA at 13:13, 7 January 2013

2013-01-07T13:13:27Z

← Older revision		Revision as of 13:13, 7 January 2013
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	~~{{Seed}}~~
	[[Image:2pcd.png\|left\|200px]]		[[Image:2pcd.png\|left\|200px]]

	~~<!--~~
	~~The line below this paragraph, containing "STRUCTURE_2pcd", creates the "Structure Box" on the page.~~
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	{{STRUCTURE_2pcd\| PDB=2pcd \| SCENE= }}		{{STRUCTURE_2pcd\| PDB=2pcd \| SCENE= }}

	===STRUCTURE OF PROTOCATECHUATE 3,4-DIOXYGENASE FROM PSEUDOMONAS AERUGINOSA AT 2.15 ANGSTROMS RESOLUTION===		===STRUCTURE OF PROTOCATECHUATE 3,4-DIOXYGENASE FROM PSEUDOMONAS AERUGINOSA AT 2.15 ANGSTROMS RESOLUTION===


	~~<!--~~
	~~The line below this paragraph, {{ABSTRACT_PUBMED_7990141}}, adds the Publication Abstract to the page~~
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	{{ABSTRACT_PUBMED_7990141}}		{{ABSTRACT_PUBMED_7990141}}

	==About this Structure==		==About this Structure==
	~~2PCD~~ is a 12 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Pseudomonas_putida Pseudomonas putida]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1pcd 1pcd]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PCD OCA].		[[2pcd]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_putida Pseudomonas putida]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1pcd 1pcd]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PCD OCA].

	==Reference==		==Reference==
	<ref group="xtra">PMID:~~7990141~~</ref><references group="xtra"/>		<ref group="xtra">PMID:007990141</ref><references group="xtra"/>
	[[Category: Protocatechuate 3,4-dioxygenase]]		[[Category: Protocatechuate 3,4-dioxygenase]]
	[[Category: Pseudomonas putida]]		[[Category: Pseudomonas putida]]
Line 30:		Line 18:
	[[Category: Orville, A M.]]		[[Category: Orville, A M.]]
	[[Category: Dioxygenase]]		[[Category: Dioxygenase]]

	~~''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 12:41:23 2009''~~