1apx - Revision history

OCA at 06:32, 7 February 2024

2024-02-07T06:32:38Z

←Older revision		Revision as of 06:32, 7 February 2024
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	<StructureSection load='1apx' size='340' side='right'caption='[[1apx]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='1apx' size='340' side='right'caption='[[1apx]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1apx]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Garden_pea Garden pea~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1APX OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=1APX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1apx]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Pisum_sativum Pisum sativum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1APX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1APX FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>~~, ~~<scene name='pdbligand=K:POTASSIUM+ION'>K</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]] 2.2Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>CDNA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~3888 Garden pea])</td~~><~~/tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene></td></tr>
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[http://en.wikipedia.org/wiki/L-ascorbate_peroxidase L-ascorbate peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.11 1.11.1.11]~~ </~~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=1apx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1apx OCA], [https://pdbe.org/1apx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1apx RCSB], [https://www.ebi.ac.uk/pdbsum/1apx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1apx ProSAT]</span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=1apx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1apx OCA], [~~http~~://pdbe.org/1apx PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1apx RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1apx PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1apx ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/APX1_PEA APX1_PEA]] Plays a key role in hydrogen peroxide removal.	+	[https://www.uniprot.org/uniprot/APX1_PEA APX1_PEA] Plays a key role in hydrogen peroxide removal.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</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=1apx 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=1apx ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The crystal structure of recombinant pea cytosolic ascorbate peroxidase has been refined to an R = 0.19 for data between 8.0 and 2.2 A resolution and magnitude of F > or = 2 sigma(magnitude of F). The refined model consists of four ascorbate peroxidase monomers consisting of 249 residues per monomer assembled into two homodimers, with one heme group per monomer. The ascorbate peroxidase model confirms that the pea cytosolic enzyme is a noncovalent homodimer held together by a series of ionic interactions arranged around the 2-fold noncrystallographic dimer axis. As expected from the high level of sequence identity (33%), the overall fold of the ascorbate peroxidase monomer closely resembles that of cytochrome c peroxidase. The average root mean square differences for 137 helical alpha-carbon atoms between the four ascorbate peroxidase monomers and cytochrome c peroxidase and for 249 topologically equivalent alpha-carbon atoms are 0.9 and 1.3 A, respectively. The active site structures are also the same, including the hydrogen-bonding interactions between the proximal His ligand, a buried Asp residue, and a Trp residue, whose indole ring is parallel to and in contact with the proximal His ligand just under the heme ring. This proximal Trp residue is thought to be the site of free radical formation in cytochrome c peroxidase compound I and is also essential for enzyme activity. The corresponding Trp in ascorbate peroxidase, Trp179, occupies exactly the same position. The most interesting, and possibly functionally important, difference between the two peroxidases is the presence of a cation binding site in ascorbate peroxidase located approximately 8 A from the alpha-carbon atom of Trp179.
-
-	Crystal structure of recombinant pea cytosolic ascorbate peroxidase.,Patterson WR, Poulos TL Biochemistry. 1995 Apr 4;34(13):4331-41. PMID:7703247<ref>PMID:7703247</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1apx" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Ascorbate peroxidase 3D structures\|Ascorbate peroxidase 3D structures]]		*[[Ascorbate peroxidase 3D structures\|Ascorbate peroxidase 3D structures]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Garden pea]]
-	[[Category: L-ascorbate peroxidase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Patterson, W R~~]]	+	[[Category: Pisum sativum]]
-	[[Category: ~~Poulos, T L~~]]	+	[[Category: Patterson WR]]
-	[[Category: ~~Peroxidase~~]]	+	[[Category: Poulos TL]]

OCA at 10:10, 18 November 2020

2020-11-18T10:10:41Z

←Older revision		Revision as of 10:10, 18 November 2020
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	==CRYSTAL STRUCTURE OF RECOMBINANT ASCORBATE PEROXIDASE==		==CRYSTAL STRUCTURE OF RECOMBINANT ASCORBATE PEROXIDASE==
-	<StructureSection load='1apx' size='340' side='right' caption='[[1apx]], [[Resolution\|resolution]] 2.20Å' scene=''>	+	<StructureSection load='1apx' size='340' side='right'caption='[[1apx]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1apx]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Garden_pea Garden pea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1APX OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1APX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1apx]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Garden_pea Garden pea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1APX OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1APX FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CDNA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3888 Garden pea])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CDNA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3888 Garden pea])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/L-ascorbate_peroxidase L-ascorbate peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.11 1.11.1.11] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/L-ascorbate_peroxidase L-ascorbate peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.11 1.11.1.11] </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=1apx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1apx OCA], [http://pdbe.org/1apx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1apx RCSB], [http://www.ebi.ac.uk/pdbsum/1apx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1apx ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=1apx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1apx OCA], [http://pdbe.org/1apx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1apx RCSB], [http://www.ebi.ac.uk/pdbsum/1apx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1apx 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/ap/1apx_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ap/1apx_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 30:		Line 30:
	</div>		</div>
	<div class="pdbe-citations 1apx" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1apx" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Ascorbate peroxidase 3D structures\|Ascorbate peroxidase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 36:		Line 39:
	[[Category: Garden pea]]		[[Category: Garden pea]]
	[[Category: L-ascorbate peroxidase]]		[[Category: L-ascorbate peroxidase]]
		+	[[Category: Large Structures]]
	[[Category: Patterson, W R]]		[[Category: Patterson, W R]]
	[[Category: Poulos, T L]]		[[Category: Poulos, T L]]
	[[Category: Peroxidase]]		[[Category: Peroxidase]]

OCA at 10:36, 15 November 2017

2017-11-15T10:36:02Z

←Older revision		Revision as of 10:36, 15 November 2017
Line 1:		Line 1:
		+
	==CRYSTAL STRUCTURE OF RECOMBINANT ASCORBATE PEROXIDASE==		==CRYSTAL STRUCTURE OF RECOMBINANT ASCORBATE PEROXIDASE==
	<StructureSection load='1apx' size='340' side='right' caption='[[1apx]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='1apx' size='340' side='right' caption='[[1apx]], [[Resolution\|resolution]] 2.20Å' scene=''>
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	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CDNA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3888 Garden pea])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CDNA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3888 Garden pea])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/L-ascorbate_peroxidase L-ascorbate peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.11 1.11.1.11] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/L-ascorbate_peroxidase L-ascorbate peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.11 1.11.1.11] </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=1apx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1apx OCA], [http://pdbe.org/1apx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1apx RCSB], [http://www.ebi.ac.uk/pdbsum/1apx 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=1apx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1apx OCA], [http://pdbe.org/1apx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1apx RCSB], [http://www.ebi.ac.uk/pdbsum/1apx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1apx ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	</div>		</div>
	<div class="pdbe-citations 1apx" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1apx" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Ascorbate peroxidase\|Ascorbate peroxidase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 05:22, 8 February 2016

2016-02-08T05:22:46Z

←Older revision		Revision as of 05:22, 8 February 2016
Line 18:		Line 18:
	<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=1apx ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 08:18, 10 September 2015

2015-09-10T08:18:30Z

←Older revision		Revision as of 08:18, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='1apx' size='340' side='right' caption='[[1apx]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='1apx' size='340' side='right' caption='[[1apx]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1apx]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Pisum_sativum Pisum sativum~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1APX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1APX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1apx]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Garden_pea Garden pea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1APX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1APX FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CDNA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3888 ~~Pisum sativum~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CDNA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3888 Garden pea])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/L-ascorbate_peroxidase L-ascorbate peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.11 1.11.1.11] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/L-ascorbate_peroxidase L-ascorbate peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.11 1.11.1.11] </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=1apx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1apx OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1apx RCSB], [http://www.ebi.ac.uk/pdbsum/1apx 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=1apx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1apx OCA], [http://pdbe.org/1apx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1apx RCSB], [http://www.ebi.ac.uk/pdbsum/1apx PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 28:		Line 28:
	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 1apx" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 35:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Garden pea]]
	[[Category: L-ascorbate peroxidase]]		[[Category: L-ascorbate peroxidase]]
-	[[Category: Pisum sativum]]
	[[Category: Patterson, W R]]		[[Category: Patterson, W R]]
	[[Category: Poulos, T L]]		[[Category: Poulos, T L]]
	[[Category: Peroxidase]]		[[Category: Peroxidase]]

OCA at 20:56, 24 December 2014

2014-12-24T20:56:02Z

←Older revision		Revision as of 20:56, 24 December 2014
Line 8:		Line 8:
	<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=1apx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1apx OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1apx RCSB], [http://www.ebi.ac.uk/pdbsum/1apx 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=1apx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1apx OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1apx RCSB], [http://www.ebi.ac.uk/pdbsum/1apx PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/APX1_PEA APX1_PEA]] Plays a key role in hydrogen peroxide removal.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 10:29, 22 December 2014

2014-12-22T10:29:40Z

←Older revision		Revision as of 10:29, 22 December 2014
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1apx]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Pisum_sativum Pisum sativum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1APX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1APX FirstGlance]. <br>		<table><tr><td colspan='2'>[[1apx]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Pisum_sativum Pisum sativum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1APX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1APX FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CDNA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3888 Pisum sativum])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CDNA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3888 Pisum sativum])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/L-ascorbate_peroxidase L-ascorbate peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.11 1.11.1.11] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/L-ascorbate_peroxidase L-ascorbate peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.11 1.11.1.11] </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=1apx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1apx OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1apx RCSB], [http://www.ebi.ac.uk/pdbsum/1apx 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=1apx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1apx OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1apx RCSB], [http://www.ebi.ac.uk/pdbsum/1apx PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	[[Category: L-ascorbate peroxidase]]		[[Category: L-ascorbate peroxidase]]
	[[Category: Pisum sativum]]		[[Category: Pisum sativum]]
-	[[Category: Patterson, W R.]]	+	[[Category: Patterson, W R]]
-	[[Category: Poulos, T L.]]	+	[[Category: Poulos, T L]]
	[[Category: Peroxidase]]		[[Category: Peroxidase]]

OCA at 16:46, 29 September 2014

2014-09-29T16:46:58Z

←Older revision		Revision as of 16:46, 29 September 2014
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-	~~{{STRUCTURE_1apx~~\| ~~PDB~~=1apx \| ~~SCENE~~= }}	+	==CRYSTAL STRUCTURE OF RECOMBINANT ASCORBATE PEROXIDASE==
-	===~~CRYSTAL STRUCTURE OF RECOMBINANT ASCORBATE PEROXIDASE~~===	+	<StructureSection load='1apx' size='340' side='right' caption='[[1apx]], [[Resolution\|resolution]] 2.20Å' scene=''>
-	~~{{ABSTRACT_PUBMED_7703247}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1apx]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Pisum_sativum Pisum sativum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1APX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1APX FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CDNA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3888 Pisum sativum])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/L-ascorbate_peroxidase L-ascorbate peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.11 1.11.1.11] </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=1apx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1apx OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1apx RCSB], [http://www.ebi.ac.uk/pdbsum/1apx 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/ap/1apx_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 crystal structure of recombinant pea cytosolic ascorbate peroxidase has been refined to an R = 0.19 for data between 8.0 and 2.2 A resolution and magnitude of F > or = 2 sigma(magnitude of F). The refined model consists of four ascorbate peroxidase monomers consisting of 249 residues per monomer assembled into two homodimers, with one heme group per monomer. The ascorbate peroxidase model confirms that the pea cytosolic enzyme is a noncovalent homodimer held together by a series of ionic interactions arranged around the 2-fold noncrystallographic dimer axis. As expected from the high level of sequence identity (33%), the overall fold of the ascorbate peroxidase monomer closely resembles that of cytochrome c peroxidase. The average root mean square differences for 137 helical alpha-carbon atoms between the four ascorbate peroxidase monomers and cytochrome c peroxidase and for 249 topologically equivalent alpha-carbon atoms are 0.9 and 1.3 A, respectively. The active site structures are also the same, including the hydrogen-bonding interactions between the proximal His ligand, a buried Asp residue, and a Trp residue, whose indole ring is parallel to and in contact with the proximal His ligand just under the heme ring. This proximal Trp residue is thought to be the site of free radical formation in cytochrome c peroxidase compound I and is also essential for enzyme activity. The corresponding Trp in ascorbate peroxidase, Trp179, occupies exactly the same position. The most interesting, and possibly functionally important, difference between the two peroxidases is the presence of a cation binding site in ascorbate peroxidase located approximately 8 A from the alpha-carbon atom of Trp179.

-	~~==About this Structure==~~	+	Crystal structure of recombinant pea cytosolic ascorbate peroxidase.,Patterson WR, Poulos TL Biochemistry. 1995 Apr 4;34(13):4331-41. PMID:7703247<ref>PMID:7703247</ref>
-	~~[[1apx]] is a 4 chain~~ structure ~~with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Pisum_sativum Pisum sativum]~~. ~~Full crystallographic information is available from [http~~://~~oca~~.~~weizmann~~.ac.il/~~oca-bin/ocashort?id=1APX OCA].~~	+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

	==See Also==		==See Also==
	*[[Ascorbate peroxidase\|Ascorbate peroxidase]]		*[[Ascorbate peroxidase\|Ascorbate peroxidase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:007703247<~~/~~ref~~><~~ref group="xtra">PMID:019187033</ref><references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: L-ascorbate peroxidase]]		[[Category: L-ascorbate peroxidase]]
	[[Category: Pisum sativum]]		[[Category: Pisum sativum]]

OCA at 10:13, 11 March 2013

2013-03-11T10:13:56Z

←Older revision		Revision as of 10:13, 11 March 2013
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-	[[Image:1apx.png\|left\|200px]]
-
	{{STRUCTURE_1apx\| PDB=1apx \| SCENE= }}		{{STRUCTURE_1apx\| PDB=1apx \| SCENE= }}
-
	===CRYSTAL STRUCTURE OF RECOMBINANT ASCORBATE PEROXIDASE===		===CRYSTAL STRUCTURE OF RECOMBINANT ASCORBATE PEROXIDASE===
-
	{{ABSTRACT_PUBMED_7703247}}		{{ABSTRACT_PUBMED_7703247}}

OCA at 14:23, 21 October 2012

2012-10-21T14:23:06Z

←Older revision		Revision as of 14:23, 21 October 2012
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	[[Image:1apx.png\|left\|200px]]		[[Image:1apx.png\|left\|200px]]

-	<!--
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-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
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	{{STRUCTURE_1apx\| PDB=1apx \| SCENE= }}		{{STRUCTURE_1apx\| PDB=1apx \| SCENE= }}

	===CRYSTAL STRUCTURE OF RECOMBINANT ASCORBATE PEROXIDASE===		===CRYSTAL STRUCTURE OF RECOMBINANT ASCORBATE PEROXIDASE===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_7703247}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 7703247 is the PubMed ID number.
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	{{ABSTRACT_PUBMED_7703247}}		{{ABSTRACT_PUBMED_7703247}}

	==About this Structure==		==About this Structure==
	[[1apx]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Pisum_sativum Pisum sativum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1APX OCA].		[[1apx]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Pisum_sativum Pisum sativum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1APX OCA].
		+
		+	==See Also==
		+	*[[Ascorbate peroxidase\|Ascorbate peroxidase]]

	==Reference==		==Reference==