2zxy - Revision history

OCA at 13:58, 13 March 2024

OCA — Wed, 13 Mar 2024 13:58:54 GMT

←Older revision		Revision as of 13:58, 13 March 2024
Line 3:		Line 3:
	<StructureSection load='2zxy' size='340' side='right'caption='[[2zxy]], [[Resolution\|resolution]] 1.15Å' scene=''>		<StructureSection load='2zxy' size='340' side='right'caption='[[2zxy]], [[Resolution\|resolution]] 1.15Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2zxy]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"aquifex_aeolicus"_huber_and_stetter_2001 "aquifex~~ aeolicus~~" huber and stetter 2001~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZXY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2ZXY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2zxy]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Aquifex_aeolicus Aquifex aeolicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZXY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2ZXY FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=HEC:HEME+C'>HEC</scene>~~</td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 1.15Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>cycB2, aq_1550 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~63363~~ "~~Aquifex aeolicus~~" ~~Huber and Stetter 2001])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HEC:HEME+C'>HEC</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=2zxy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zxy OCA], [https://pdbe.org/2zxy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2zxy RCSB], [https://www.ebi.ac.uk/pdbsum/2zxy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2zxy 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=2zxy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zxy OCA], [https://pdbe.org/2zxy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2zxy RCSB], [https://www.ebi.ac.uk/pdbsum/2zxy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2zxy ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/O67504_AQUAE O67504_AQUAE]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 18:		Line 20:
	</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=2zxy 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=2zxy ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	In order to elucidate the relationship between the stability and the structure of the monohaem cytochrome c(555) (AA c(555)) from the hyperthermophilic bacterium Aquifex aeolicus, chemical denaturation and crystal structure determination were carried out. AA c(555) exhibited higher stability than the thermophilic Hydrogenobacter thermophilus cytochrome c(552) (HT c(552)), which is one of the most stable cytochromes c. The three-dimensional crystal structure of AA c(555), which was determined using the multiple anomalous dispersion technique at 1.15 A resolution, included a unique 14-residue extra helix, while the side-chain interactions of several amino-acid residues responsible for the stability of HT c(552) were conserved in AA c(555). The side chain of the Met61 residue in the extra helix was aligned towards the haem, forming a coordination bond between the Met S and haem Fe atoms. In other cytochromes c the corresponding regions always form Omega loops which also include the haem-liganding Met residue and are known to be involved in the initial step in cytochrome c denaturation. The formation of the extra helix in AA c(555) results in the highest helix content, 59.8%, among the monohaem cytochromes c. The extra helix should mainly contribute to the hyperstability of AA c(555) and is presumed to be a novel strategy of cytochromes c for adaptation to a hyperthermophilic environment.
-
-	Hyperstability and crystal structure of cytochrome c(555) from hyperthermophilic Aquifex aeolicus.,Obuchi M, Kawahara K, Motooka D, Nakamura S, Yamanaka M, Takeda T, Uchiyama S, Kobayashi Y, Ohkubo T, Sambongi Y Acta Crystallogr D Biol Crystallogr. 2009 Aug;65(Pt 8):804-13. Epub 2009, Jul 17. PMID:19622864<ref>PMID:19622864</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 2zxy" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Cytochrome C 3D structures\|Cytochrome C 3D structures]]		*[[Cytochrome C 3D structures\|Cytochrome C 3D structures]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Aquifex aeolicus ~~huber and stetter 2001~~]]	+	[[Category: Aquifex aeolicus]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Kawahara, K]]	+	[[Category: Kawahara K]]
-	[[Category: Kobayashi, Y]]	+	[[Category: Kobayashi Y]]
-	[[Category: Motooka, D]]	+	[[Category: Motooka D]]
-	[[Category: Nakamura, S]]	+	[[Category: Nakamura S]]
-	[[Category: Obuchi, M]]	+	[[Category: Obuchi M]]
-	[[Category: Ohkubo, T]]	+	[[Category: Ohkubo T]]
-	[[Category: Sambongi, Y]]	+	[[Category: Sambongi Y]]
-	[[Category: Takeda, T]]	+	[[Category: Takeda T]]
-	[[Category: Uchiyama, S]]	+	[[Category: Uchiyama S]]
-	[[Category: Yamanaka, M]]	+	[[Category: Yamanaka M]]
-	~~[[Category: Heme protein]]~~	+
-	~~[[Category: Oxygen binding]]~~	+
-	~~[[Category: Transport protein~~]]	+

OCA at 16:10, 22 December 2021

OCA — Wed, 22 Dec 2021 16:10:44 GMT

←Older revision		Revision as of 16:10, 22 December 2021
Line 1:		Line 1:

	==Crystal Structure of Cytochrome c555 from Aquifex aeolicus==		==Crystal Structure of Cytochrome c555 from Aquifex aeolicus==
-	<StructureSection load='2zxy' size='340' side='right' caption='[[2zxy]], [[Resolution\|resolution]] 1.15Å' scene=''>	+	<StructureSection load='2zxy' size='340' side='right'caption='[[2zxy]], [[Resolution\|resolution]] 1.15Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2zxy]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"aquifex_aeolicus"_huber_and_stetter_2001 "aquifex aeolicus" huber and stetter 2001]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZXY OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2ZXY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2zxy]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/"aquifex_aeolicus"_huber_and_stetter_2001 "aquifex aeolicus" huber and stetter 2001]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZXY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2ZXY FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEC:HEME+C'>HEC</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HEC:HEME+C'>HEC</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cycB2, aq_1550 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=63363 "Aquifex aeolicus" Huber and Stetter 2001])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cycB2, aq_1550 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=63363 "Aquifex aeolicus" Huber and Stetter 2001])</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=2zxy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zxy OCA], [~~http~~://pdbe.org/2zxy PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2zxy RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2zxy PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2zxy 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=2zxy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zxy OCA], [https://pdbe.org/2zxy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2zxy RCSB], [https://www.ebi.ac.uk/pdbsum/2zxy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2zxy ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 29:		Line 29:

	==See Also==		==See Also==
-	*[[Cytochrome c\|Cytochrome c]]	+	*[[Cytochrome C 3D structures\|Cytochrome C 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 35:		Line 35:
	</StructureSection>		</StructureSection>
	[[Category: Aquifex aeolicus huber and stetter 2001]]		[[Category: Aquifex aeolicus huber and stetter 2001]]
		+	[[Category: Large Structures]]
	[[Category: Kawahara, K]]		[[Category: Kawahara, K]]
	[[Category: Kobayashi, Y]]		[[Category: Kobayashi, Y]]

OCA at 07:24, 18 October 2018

OCA — Thu, 18 Oct 2018 07:24:51 GMT

←Older revision		Revision as of 07:24, 18 October 2018
Line 12:		Line 12:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/zx/2zxy_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/zx/2zxy_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>

OCA at 16:32, 11 August 2016

OCA — Thu, 11 Aug 2016 16:32:01 GMT

←Older revision		Revision as of 16:32, 11 August 2016
Line 1:		Line 1:
		+
	==Crystal Structure of Cytochrome c555 from Aquifex aeolicus==		==Crystal Structure of Cytochrome c555 from Aquifex aeolicus==
	<StructureSection load='2zxy' size='340' side='right' caption='[[2zxy]], [[Resolution\|resolution]] 1.15Å' scene=''>		<StructureSection load='2zxy' size='340' side='right' caption='[[2zxy]], [[Resolution\|resolution]] 1.15Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2zxy]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Aquifex_aeolicus Aquifex~~ aeolicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZXY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZXY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2zxy]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"aquifex_aeolicus"_huber_and_stetter_2001 "aquifex aeolicus" huber and stetter 2001]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZXY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZXY FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEC:HEME+C'>HEC</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEC:HEME+C'>HEC</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cycB2, aq_1550 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=63363 Aquifex aeolicus])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cycB2, aq_1550 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=63363 "Aquifex aeolicus" Huber and Stetter 2001])</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=2zxy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zxy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2zxy RCSB], [http://www.ebi.ac.uk/pdbsum/2zxy 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=2zxy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zxy OCA], [http://pdbe.org/2zxy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2zxy RCSB], [http://www.ebi.ac.uk/pdbsum/2zxy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2zxy ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 15:		Line 16:
	<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=2zxy ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 25:		Line 26:
	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 2zxy" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 32:		Line 34:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Aquifex aeolicus]]	+	[[Category: Aquifex aeolicus huber and stetter 2001]]
	[[Category: Kawahara, K]]		[[Category: Kawahara, K]]
	[[Category: Kobayashi, Y]]		[[Category: Kobayashi, Y]]

OCA at 10:42, 20 January 2015

OCA — Tue, 20 Jan 2015 10:42:56 GMT

←Older revision		Revision as of 10:42, 20 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2zxy]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Aquifex_aeolicus Aquifex aeolicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZXY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZXY FirstGlance]. <br>		<table><tr><td colspan='2'>[[2zxy]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Aquifex_aeolicus Aquifex aeolicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZXY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZXY FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEC:HEME+C'>HEC</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEC:HEME+C'>HEC</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cycB2, aq_1550 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=63363 Aquifex aeolicus])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cycB2, aq_1550 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=63363 Aquifex aeolicus])</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=2zxy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zxy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2zxy RCSB], [http://www.ebi.ac.uk/pdbsum/2zxy 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=2zxy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zxy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2zxy RCSB], [http://www.ebi.ac.uk/pdbsum/2zxy 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 33:		Line 33:
	</StructureSection>		</StructureSection>
	[[Category: Aquifex aeolicus]]		[[Category: Aquifex aeolicus]]
-	[[Category: Kawahara, K.]]	+	[[Category: Kawahara, K]]
-	[[Category: Kobayashi, Y.]]	+	[[Category: Kobayashi, Y]]
-	[[Category: Motooka, D.]]	+	[[Category: Motooka, D]]
-	[[Category: Nakamura, S.]]	+	[[Category: Nakamura, S]]
-	[[Category: Obuchi, M.]]	+	[[Category: Obuchi, M]]
-	[[Category: Ohkubo, T.]]	+	[[Category: Ohkubo, T]]
-	[[Category: Sambongi, Y.]]	+	[[Category: Sambongi, Y]]
-	[[Category: Takeda, T.]]	+	[[Category: Takeda, T]]
-	[[Category: Uchiyama, S.]]	+	[[Category: Uchiyama, S]]
-	[[Category: Yamanaka, M.]]	+	[[Category: Yamanaka, M]]
	[[Category: Heme protein]]		[[Category: Heme protein]]
	[[Category: Oxygen binding]]		[[Category: Oxygen binding]]
	[[Category: Transport protein]]		[[Category: Transport protein]]

OCA at 09:10, 29 September 2014

OCA — Mon, 29 Sep 2014 09:10:27 GMT

←Older revision		Revision as of 09:10, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2zxy.~~png~~\|~~left~~\|200px]]	+	==Crystal Structure of Cytochrome c555 from Aquifex aeolicus==
		+	<StructureSection load='2zxy' size='340' side='right' caption='[[2zxy]], [[Resolution\|resolution]] 1.15Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2zxy]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Aquifex_aeolicus Aquifex aeolicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZXY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZXY FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEC:HEME+C'>HEC</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cycB2, aq_1550 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=63363 Aquifex aeolicus])</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=2zxy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zxy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2zxy RCSB], [http://www.ebi.ac.uk/pdbsum/2zxy 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/zx/2zxy_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 ==
		+	In order to elucidate the relationship between the stability and the structure of the monohaem cytochrome c(555) (AA c(555)) from the hyperthermophilic bacterium Aquifex aeolicus, chemical denaturation and crystal structure determination were carried out. AA c(555) exhibited higher stability than the thermophilic Hydrogenobacter thermophilus cytochrome c(552) (HT c(552)), which is one of the most stable cytochromes c. The three-dimensional crystal structure of AA c(555), which was determined using the multiple anomalous dispersion technique at 1.15 A resolution, included a unique 14-residue extra helix, while the side-chain interactions of several amino-acid residues responsible for the stability of HT c(552) were conserved in AA c(555). The side chain of the Met61 residue in the extra helix was aligned towards the haem, forming a coordination bond between the Met S and haem Fe atoms. In other cytochromes c the corresponding regions always form Omega loops which also include the haem-liganding Met residue and are known to be involved in the initial step in cytochrome c denaturation. The formation of the extra helix in AA c(555) results in the highest helix content, 59.8%, among the monohaem cytochromes c. The extra helix should mainly contribute to the hyperstability of AA c(555) and is presumed to be a novel strategy of cytochromes c for adaptation to a hyperthermophilic environment.

-	~~{{STRUCTURE_2zxy\| PDB=2zxy \| SCENE= }}~~	+	Hyperstability and crystal structure of cytochrome c(555) from hyperthermophilic Aquifex aeolicus.,Obuchi M, Kawahara K, Motooka D, Nakamura S, Yamanaka M, Takeda T, Uchiyama S, Kobayashi Y, Ohkubo T, Sambongi Y Acta Crystallogr D Biol Crystallogr. 2009 Aug;65(Pt 8):804-13. Epub 2009, Jul 17. PMID:19622864<ref>PMID:19622864</ref>

-	~~===Crystal Structure~~ of ~~Cytochrome c555 from Aquifex aeolicus===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_19622864}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[2zxy]] is a 1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Aquifex_aeolicus Aquifex aeolicus]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2ZXY OCA].~~	+

	==See Also==		==See Also==
	*[[Cytochrome c\|Cytochrome c]]		*[[Cytochrome c\|Cytochrome c]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:019622864<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Aquifex aeolicus]]		[[Category: Aquifex aeolicus]]
	[[Category: Kawahara, K.]]		[[Category: Kawahara, K.]]

OCA at 21:01, 20 October 2012

OCA — Sat, 20 Oct 2012 21:01:28 GMT

←Older revision		Revision as of 21:01, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[2zxy]] is a 1 chain structure ~~of [[Cytochrome c]]~~ with sequence from [http://en.wikipedia.org/wiki/Aquifex_aeolicus Aquifex aeolicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZXY OCA].	+	[[2zxy]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Aquifex_aeolicus Aquifex aeolicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZXY OCA].

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

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

OCA — Fri, 27 Jul 2012 12:21:04 GMT

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

←Older revision

Revision as of 12:21, 27 July 2012

OCA at 12:21, 27 July 2012

OCA — Fri, 27 Jul 2012 12:21:01 GMT

←Older revision		Revision as of 12:21, 27 July 2012
Line 1:		Line 1:
-	~~{{Seed}}~~	+	[[Image:2zxy.png\|left\|200px]]
-	[[Image:2zxy.~~jpg~~\|left\|200px]]	+

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2zxy", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_2zxy\| PDB=2zxy \| SCENE= }}		{{STRUCTURE_2zxy\| PDB=2zxy \| SCENE= }}

	===Crystal Structure of Cytochrome c555 from Aquifex aeolicus===		===Crystal Structure of Cytochrome c555 from Aquifex aeolicus===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_19622864}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 19622864 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_19622864}}		{{ABSTRACT_PUBMED_19622864}}

	==About this Structure==		==About this Structure==
-	~~2ZXY~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Aquifex_aeolicus Aquifex aeolicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZXY OCA].	+	[[2zxy]] is a 1 chain structure of [[Cytochrome c]] with sequence from [http://en.wikipedia.org/wiki/Aquifex_aeolicus Aquifex aeolicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZXY OCA].
		+
		+	==See Also==
		+	*[[Cytochrome c\|Cytochrome c]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~19622864~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:019622864</ref><references group="xtra"/>
	[[Category: Aquifex aeolicus]]		[[Category: Aquifex aeolicus]]
	[[Category: Kawahara, K.]]		[[Category: Kawahara, K.]]
Line 38:		Line 29:
	[[Category: Oxygen binding]]		[[Category: Oxygen binding]]
	[[Category: Transport protein]]		[[Category: Transport protein]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Aug 5 10:32:05 2009''

OCA at 07:32, 5 August 2009

OCA — Wed, 05 Aug 2009 07:32:10 GMT

←Older revision		Revision as of 07:32, 5 August 2009
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{Seed}}
		+	[[Image:2zxy.jpg\|left\|200px]]

-	The ~~entry 2zxy~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_2zxy", creates the "Structure Box" on the page.
		+	You may change the PDB parameter (which sets the PDB file loaded into the applet)
		+	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
		+	or leave the SCENE parameter empty for the default display.
		+	-->
		+	{{STRUCTURE_2zxy\| PDB=2zxy \| SCENE= }}

-	~~Authors: Obuchi, M., Kawahara, K., Motooka, D., Nakamura, S., Yamanaka, M., Takeda, T., Uchiyama, S., Kobayashi, Y., Ohkubo, T., Sambongi, Y.~~	+	===Crystal Structure of Cytochrome c555 from Aquifex aeolicus===

-	Description: Crystal Structure of Cytochrome c555 from Aquifex aeolicus

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Feb 11 12~~:34:29 2009''	+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_19622864}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 19622864 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_19622864}}
		+
		+	==About this Structure==
		+	2ZXY is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Aquifex_aeolicus Aquifex aeolicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZXY OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:19622864</ref><references group="xtra"/>
		+	[[Category: Aquifex aeolicus]]
		+	[[Category: Kawahara, K.]]
		+	[[Category: Kobayashi, Y.]]
		+	[[Category: Motooka, D.]]
		+	[[Category: Nakamura, S.]]
		+	[[Category: Obuchi, M.]]
		+	[[Category: Ohkubo, T.]]
		+	[[Category: Sambongi, Y.]]
		+	[[Category: Takeda, T.]]
		+	[[Category: Uchiyama, S.]]
		+	[[Category: Yamanaka, M.]]
		+	[[Category: Heme protein]]
		+	[[Category: Oxygen binding]]
		+	[[Category: Transport protein]]
		+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Aug 5 10:32:05 2009''