1cpe - Revision history

OCA at 06:44, 7 February 2024

2024-02-07T06:44:27Z

←Older revision		Revision as of 06:44, 7 February 2024
Line 3:		Line 3:
	<StructureSection load='1cpe' size='340' side='right'caption='[[1cpe]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='1cpe' size='340' side='right'caption='[[1cpe]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1cpe]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Atcc_18824 Atcc 18824~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1CPE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1CPE FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1cpe]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1CPE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1CPE 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='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max-height: 3em;~~'>~~[[1ccp\|1ccp]], [[2ccp\|2ccp]], [[3ccp\|3ccp]], [[4ccp\|4ccp]], [[1cpd\|1cpd]], [[1cpf\|1cpf]], [[1cpg\|1cpg]], [[1bej\|1bej]], [[1bem\|1bem]], [[1beq\|1beq]], [[1bes\|1bes]]~~</~~div~~><~~/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~~'>~~[https://en.wikipedia.org/wiki/Cytochrome-c_peroxidase Cytochrome-c peroxidase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.5 1.11.1.5]~~ </~~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=1cpe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cpe OCA], [https://pdbe.org/1cpe PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1cpe RCSB], [https://www.ebi.ac.uk/pdbsum/1cpe PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1cpe 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=1cpe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cpe OCA], [https://pdbe.org/1cpe PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1cpe RCSB], [https://www.ebi.ac.uk/pdbsum/1cpe PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1cpe ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/CCPR_YEAST CCPR_YEAST]] Destroys radicals which are normally produced within the cells and which are toxic to biological systems.	+	[https://www.uniprot.org/uniprot/CCPR_YEAST CCPR_YEAST] Destroys radicals which are normally produced within the cells and which are toxic to biological systems.
	== 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=1cpe 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=1cpe ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Cytochrome c peroxidase reacts with peroxide to form compound I, which contains an oxyferryl heme and an indolyl radical at Trp-191. The indolyl free radical has a half-life of several hours at room temperature, and this remarkable stability is essential for the catalytic function of cytochrome c peroxidase. To probe the protein environment that stabilizes the compound I radical, we used site-directed mutagenesis to replace Trp-191 with Gly or Gln. Crystal structures of these mutants revealed a monovalent cation binding site in the cavity formerly occupied by the side chain of Trp-191. Comparison of this site with those found in other known cation binding enzymes shows that the Trp-191 side chain resides in a consensus K+ binding site. Electrostatic potential calculations indicate that the cation binding site is created by partial negative charges at the backbone carbonyl oxygen atoms of residues 175 and 177, the carboxyl end of a long alpha-helix (residues 165-175), the heme propionates, and the carboxylate side chain of Asp-235. These features create a negative potential that envelops the side chain of Trp-191; the calculated free energy change for cation binding in this site is -27 kcal/mol (1 cal = 4.184J). This is more than sufficient to account for the stability of the Trp-191 radical, which our estimates suggest is stabilized by 7.8 kcal/mol relative to a Trp radical in solution.
-
-	A cation binding motif stabilizes the compound I radical of cytochrome c peroxidase.,Miller MA, Han GW, Kraut J Proc Natl Acad Sci U S A. 1994 Nov 8;91(23):11118-22. PMID:7972020<ref>PMID:7972020</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1cpe" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Cytochrome c peroxidase 3D structures\|Cytochrome c peroxidase 3D structures]]		*[[Cytochrome c peroxidase 3D structures\|Cytochrome c peroxidase 3D structures]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Atcc 18824]]
-	[[Category: Cytochrome-c peroxidase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Han~~, G W~~]]	+	[[Category: Saccharomyces cerevisiae]]
-	[[Category: Kraut, J]]	+	[[Category: Han GW]]
-	[[Category: Miller~~, M A~~]]	+	[[Category: Kraut J]]
		+	[[Category: Miller MA]]

OCA at 10:44, 19 May 2021

2021-05-19T10:44:11Z

←Older revision		Revision as of 10:44, 19 May 2021
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	<StructureSection load='1cpe' size='340' side='right'caption='[[1cpe]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='1cpe' size='340' side='right'caption='[[1cpe]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1cpe]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Atcc_18824 Atcc 18824]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1CPE OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1CPE FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1cpe]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_18824 Atcc 18824]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1CPE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1CPE 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='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ccp\|1ccp]], [[2ccp\|2ccp]], [[3ccp\|3ccp]], [[4ccp\|4ccp]], [[1cpd\|1cpd]], [[1cpf\|1cpf]], [[1cpg\|1cpg]], [[1bej\|1bej]], [[1bem\|1bem]], [[1beq\|1beq]], [[1bes\|1bes]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1ccp\|1ccp]], [[2ccp\|2ccp]], [[3ccp\|3ccp]], [[4ccp\|4ccp]], [[1cpd\|1cpd]], [[1cpf\|1cpf]], [[1cpg\|1cpg]], [[1bej\|1bej]], [[1bem\|1bem]], [[1beq\|1beq]], [[1bes\|1bes]]</div></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Cytochrome-c_peroxidase Cytochrome-c peroxidase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.5 1.11.1.5] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Cytochrome-c_peroxidase Cytochrome-c peroxidase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.5 1.11.1.5] </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=1cpe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cpe OCA], [~~http~~://pdbe.org/1cpe PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1cpe RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1cpe PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1cpe 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=1cpe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cpe OCA], [https://pdbe.org/1cpe PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1cpe RCSB], [https://www.ebi.ac.uk/pdbsum/1cpe PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1cpe ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/CCPR_YEAST CCPR_YEAST]] Destroys radicals which are normally produced within the cells and which are toxic to biological systems.	+	[[https://www.uniprot.org/uniprot/CCPR_YEAST CCPR_YEAST]] Destroys radicals which are normally produced within the cells and which are toxic to biological systems.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 10:55, 17 July 2019

2019-07-17T10:55:05Z

←Older revision		Revision as of 10:55, 17 July 2019
Line 1:		Line 1:

	==A CATION BINDING MOTIF STABILIZES THE COMPOUND I RADICAL OF CYTOCHROME C PEROXIDASE==		==A CATION BINDING MOTIF STABILIZES THE COMPOUND I RADICAL OF CYTOCHROME C PEROXIDASE==
-	<StructureSection load='1cpe' size='340' side='right' caption='[[1cpe]], [[Resolution\|resolution]] 2.20Å' scene=''>	+	<StructureSection load='1cpe' size='340' side='right'caption='[[1cpe]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1cpe]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_18824 Atcc 18824]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1CPE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1CPE FirstGlance]. <br>		<table><tr><td colspan='2'>[[1cpe]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_18824 Atcc 18824]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1CPE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1CPE FirstGlance]. <br>
Line 15:		Line 15:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/cp/1cpe_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/cp/1cpe_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 1cpe" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1cpe" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Cytochrome c peroxidase 3D structures\|Cytochrome c peroxidase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 36:		Line 39:
	[[Category: Atcc 18824]]		[[Category: Atcc 18824]]
	[[Category: Cytochrome-c peroxidase]]		[[Category: Cytochrome-c peroxidase]]
		+	[[Category: Large Structures]]
	[[Category: Han, G W]]		[[Category: Han, G W]]
	[[Category: Kraut, J]]		[[Category: Kraut, J]]
	[[Category: Miller, M A]]		[[Category: Miller, M A]]

OCA at 10:53, 8 November 2017

2017-11-08T10:53:16Z

←Older revision		Revision as of 10:53, 8 November 2017
Line 1:		Line 1:
		+
	==A CATION BINDING MOTIF STABILIZES THE COMPOUND I RADICAL OF CYTOCHROME C PEROXIDASE==		==A CATION BINDING MOTIF STABILIZES THE COMPOUND I RADICAL OF CYTOCHROME C PEROXIDASE==
	<StructureSection load='1cpe' size='340' side='right' caption='[[1cpe]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='1cpe' size='340' side='right' caption='[[1cpe]], [[Resolution\|resolution]] 2.20Å' scene=''>
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	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ccp\|1ccp]], [[2ccp\|2ccp]], [[3ccp\|3ccp]], [[4ccp\|4ccp]], [[1cpd\|1cpd]], [[1cpf\|1cpf]], [[1cpg\|1cpg]], [[1bej\|1bej]], [[1bem\|1bem]], [[1beq\|1beq]], [[1bes\|1bes]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ccp\|1ccp]], [[2ccp\|2ccp]], [[3ccp\|3ccp]], [[4ccp\|4ccp]], [[1cpd\|1cpd]], [[1cpf\|1cpf]], [[1cpg\|1cpg]], [[1bej\|1bej]], [[1bem\|1bem]], [[1beq\|1beq]], [[1bes\|1bes]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cytochrome-c_peroxidase Cytochrome-c peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.5 1.11.1.5] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cytochrome-c_peroxidase Cytochrome-c peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.5 1.11.1.5] </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=1cpe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cpe OCA], [http://pdbe.org/1cpe PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1cpe RCSB], [http://www.ebi.ac.uk/pdbsum/1cpe 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=1cpe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cpe OCA], [http://pdbe.org/1cpe PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1cpe RCSB], [http://www.ebi.ac.uk/pdbsum/1cpe PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1cpe ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 29:		Line 30:
	</div>		</div>
	<div class="pdbe-citations 1cpe" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1cpe" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Cytochrome c peroxidase\|Cytochrome c peroxidase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 21:36, 7 February 2016

2016-02-07T21:36:55Z

←Older revision		Revision as of 21:36, 7 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=1cpe ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 05:10, 10 September 2015

2015-09-10T05:10:35Z

←Older revision		Revision as of 05:10, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='1cpe' size='340' side='right' caption='[[1cpe]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='1cpe' size='340' side='right' caption='[[1cpe]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1cpe]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Saccharomyces_cerevisiae Saccharomyces cerevisiae~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1CPE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1CPE FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1cpe]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_18824 Atcc 18824]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1CPE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1CPE 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='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ccp\|1ccp]], [[2ccp\|2ccp]], [[3ccp\|3ccp]], [[4ccp\|4ccp]], [[1cpd\|1cpd]], [[1cpf\|1cpf]], [[1cpg\|1cpg]], [[1bej\|1bej]], [[1bem\|1bem]], [[1beq\|1beq]], [[1bes\|1bes]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ccp\|1ccp]], [[2ccp\|2ccp]], [[3ccp\|3ccp]], [[4ccp\|4ccp]], [[1cpd\|1cpd]], [[1cpf\|1cpf]], [[1cpg\|1cpg]], [[1bej\|1bej]], [[1bem\|1bem]], [[1beq\|1beq]], [[1bes\|1bes]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cytochrome-c_peroxidase Cytochrome-c peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.5 1.11.1.5] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cytochrome-c_peroxidase Cytochrome-c peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.5 1.11.1.5] </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=1cpe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cpe OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1cpe RCSB], [http://www.ebi.ac.uk/pdbsum/1cpe 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=1cpe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cpe OCA], [http://pdbe.org/1cpe PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1cpe RCSB], [http://www.ebi.ac.uk/pdbsum/1cpe 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 1cpe" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 35:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Atcc 18824]]
	[[Category: Cytochrome-c peroxidase]]		[[Category: Cytochrome-c peroxidase]]
-	[[Category: Saccharomyces cerevisiae]]
	[[Category: Han, G W]]		[[Category: Han, G W]]
	[[Category: Kraut, J]]		[[Category: Kraut, J]]
	[[Category: Miller, M A]]		[[Category: Miller, M A]]

OCA at 18:23, 24 December 2014

2014-12-24T18:23:56Z

←Older revision		Revision as of 18:23, 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=1cpe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cpe OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1cpe RCSB], [http://www.ebi.ac.uk/pdbsum/1cpe 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=1cpe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cpe OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1cpe RCSB], [http://www.ebi.ac.uk/pdbsum/1cpe PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/CCPR_YEAST CCPR_YEAST]] Destroys radicals which are normally produced within the cells and which are toxic to biological systems.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 19:52, 22 December 2014

2014-12-22T19:52:54Z

←Older revision		Revision as of 19:52, 22 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1cpe]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1CPE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1CPE FirstGlance]. <br>		<table><tr><td colspan='2'>[[1cpe]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1CPE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1CPE 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>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ccp\|1ccp]], [[2ccp\|2ccp]], [[3ccp\|3ccp]], [[4ccp\|4ccp]], [[1cpd\|1cpd]], [[1cpf\|1cpf]], [[1cpg\|1cpg]], [[1bej\|1bej]], [[1bem\|1bem]], [[1beq\|1beq]], [[1bes\|1bes]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ccp\|1ccp]], [[2ccp\|2ccp]], [[3ccp\|3ccp]], [[4ccp\|4ccp]], [[1cpd\|1cpd]], [[1cpf\|1cpf]], [[1cpg\|1cpg]], [[1bej\|1bej]], [[1bem\|1bem]], [[1beq\|1beq]], [[1bes\|1bes]]</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cytochrome-c_peroxidase Cytochrome-c peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.5 1.11.1.5] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cytochrome-c_peroxidase Cytochrome-c peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.5 1.11.1.5] </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=1cpe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cpe OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1cpe RCSB], [http://www.ebi.ac.uk/pdbsum/1cpe 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=1cpe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cpe OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1cpe RCSB], [http://www.ebi.ac.uk/pdbsum/1cpe PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 35:		Line 35:
	[[Category: Cytochrome-c peroxidase]]		[[Category: Cytochrome-c peroxidase]]
	[[Category: Saccharomyces cerevisiae]]		[[Category: Saccharomyces cerevisiae]]
-	[[Category: Han, G W.]]	+	[[Category: Han, G W]]
-	[[Category: Kraut, J.]]	+	[[Category: Kraut, J]]
-	[[Category: Miller, M A.]]	+	[[Category: Miller, M A]]

OCA at 09:22, 27 August 2014

2014-08-27T09:22:24Z

←Older revision		Revision as of 09:22, 27 August 2014
Line 1:		Line 1:
-	[[~~Image:~~1cpe.~~png~~\|~~left~~\|200px]]	+	==A CATION BINDING MOTIF STABILIZES THE COMPOUND I RADICAL OF CYTOCHROME C PEROXIDASE==
		+	<StructureSection load='1cpe' size='340' side='right' caption='[[1cpe]], [[Resolution\|resolution]] 2.20Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1cpe]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1CPE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1CPE 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>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ccp\|1ccp]], [[2ccp\|2ccp]], [[3ccp\|3ccp]], [[4ccp\|4ccp]], [[1cpd\|1cpd]], [[1cpf\|1cpf]], [[1cpg\|1cpg]], [[1bej\|1bej]], [[1bem\|1bem]], [[1beq\|1beq]], [[1bes\|1bes]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cytochrome-c_peroxidase Cytochrome-c peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.5 1.11.1.5] </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=1cpe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cpe OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1cpe RCSB], [http://www.ebi.ac.uk/pdbsum/1cpe 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/cp/1cpe_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 ==
		+	Cytochrome c peroxidase reacts with peroxide to form compound I, which contains an oxyferryl heme and an indolyl radical at Trp-191. The indolyl free radical has a half-life of several hours at room temperature, and this remarkable stability is essential for the catalytic function of cytochrome c peroxidase. To probe the protein environment that stabilizes the compound I radical, we used site-directed mutagenesis to replace Trp-191 with Gly or Gln. Crystal structures of these mutants revealed a monovalent cation binding site in the cavity formerly occupied by the side chain of Trp-191. Comparison of this site with those found in other known cation binding enzymes shows that the Trp-191 side chain resides in a consensus K+ binding site. Electrostatic potential calculations indicate that the cation binding site is created by partial negative charges at the backbone carbonyl oxygen atoms of residues 175 and 177, the carboxyl end of a long alpha-helix (residues 165-175), the heme propionates, and the carboxylate side chain of Asp-235. These features create a negative potential that envelops the side chain of Trp-191; the calculated free energy change for cation binding in this site is -27 kcal/mol (1 cal = 4.184J). This is more than sufficient to account for the stability of the Trp-191 radical, which our estimates suggest is stabilized by 7.8 kcal/mol relative to a Trp radical in solution.

-	~~{{STRUCTURE_1cpe\| PDB=1cpe \| SCENE= }}~~	+	A cation binding motif stabilizes the compound I radical of cytochrome c peroxidase.,Miller MA, Han GW, Kraut J Proc Natl Acad Sci U S A. 1994 Nov 8;91(23):11118-22. PMID:7972020<ref>PMID:7972020</ref>

-	~~===A CATION BINDING MOTIF STABILIZES THE COMPOUND I RADICAL OF CYTOCHROME C PEROXIDASE===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_7972020}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[1cpe]] is~~ a ~~1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1CPE OCA].~~	+

	==See Also==		==See Also==
	*[[Cytochrome c peroxidase\|Cytochrome c peroxidase]]		*[[Cytochrome c peroxidase\|Cytochrome c peroxidase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:007972020<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Cytochrome-c peroxidase]]		[[Category: Cytochrome-c peroxidase]]
	[[Category: Saccharomyces cerevisiae]]		[[Category: Saccharomyces cerevisiae]]

OCA at 07:55, 20 October 2012

2012-10-20T07:55:22Z

←Older revision		Revision as of 07:55, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[1cpe]] is a 1 chain structure ~~of [[Cytochrome c peroxidase]]~~ with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1CPE OCA].	+	[[1cpe]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1CPE OCA].

	==See Also==		==See Also==