1dvv - Revision history

OCA at 09:54, 20 March 2024

2024-03-20T09:54:34Z

←Older revision		Revision as of 09:54, 20 March 2024
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	==SOLUTION STRUCTURE OF THE QUINTUPLE MUTANT OF CYTOCHROME C-551 FROM PSEUDOMONAS AERUGINOSA==		==SOLUTION STRUCTURE OF THE QUINTUPLE MUTANT OF CYTOCHROME C-551 FROM PSEUDOMONAS AERUGINOSA==
-	<StructureSection load='1dvv' size='340' side='right'caption='[[1dvv~~]], [[NMR_Ensembles_of_Models \| 20 NMR models~~]]' scene=''>	+	<StructureSection load='1dvv' size='340' side='right'caption='[[1dvv]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1dvv]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"bacillus_aeruginosus"_(schroeter_1872)_trevisan_1885 "bacillus aeruginosus" (schroeter 1872) trevisan 1885~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1DVV FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1dvv]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_aeruginosa Pseudomonas aeruginosa]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1DVV 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></td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</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></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=1dvv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvv OCA], [https://pdbe.org/1dvv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1dvv RCSB], [https://www.ebi.ac.uk/pdbsum/1dvv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1dvv 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=1dvv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvv OCA], [https://pdbe.org/1dvv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1dvv RCSB], [https://www.ebi.ac.uk/pdbsum/1dvv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1dvv ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/CY551_PSEAE CY551_PSEAE]] Electron donor for cytochrome cd1 in nitrite and nitrate respiration.	+	[https://www.uniprot.org/uniprot/CY551_PSEAE CY551_PSEAE] Electron donor for cytochrome cd1 in nitrite and nitrate respiration.
	== 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=1dvv 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=1dvv ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Mesophilic cytochrome c(551) of Pseudomonas aeruginosa (PA c(551)) became as stable as its thermophilic counterpart, Hydrogenobacter thermophilus cytochrome c(552) (HT c(552)), through only five amino acid substitutions. The five residues, distributed in three spatially separated regions, were selected and mutated with reference to the corresponding residues in HT c(552) through careful structure comparison. Thermodynamic analysis indicated that the stability of the quintuple mutant of PA c(551) could be partly attained through an enthalpic factor. The solution structure of the mutant showed that, as in HT c(552), there were tighter side chain packings in the mutated regions. Furthermore, the mutant had an increased total accessible surface area, resulting in great negative hydration free energy. Our results provide a novel example of protein stabilization in that limited amino acid substitutions can confer the overall stability of a natural highly thermophilic protein upon a mesophilic molecule.
-
-	Selected mutations in a mesophilic cytochrome c confer the stability of a thermophilic counterpart.,Hasegawa J, Uchiyama S, Tanimoto Y, Mizutani M, Kobayashi Y, Sambongi Y, Igarashi Y J Biol Chem. 2000 Dec 1;275(48):37824-8. PMID:10918067<ref>PMID:10918067</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1dvv" 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: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Hasegawa, J]]	+	[[Category: Pseudomonas aeruginosa]]
-	[[Category: Igarashi, Y]]	+	[[Category: Hasegawa J]]
-	[[Category: Kobayashi, Y]]	+	[[Category: Igarashi Y]]
-	[[Category: Mizutani, M]]	+	[[Category: Kobayashi Y]]
-	[[Category: Sambongi, Y]]	+	[[Category: Mizutani M]]
-	[[Category: Tanimoto, Y]]	+	[[Category: Sambongi Y]]
-	[[Category: Uchiyama, S]]	+	[[Category: Tanimoto Y]]
-	~~[[Category: Cytochrome c]]~~	+	[[Category: Uchiyama S]]
-	~~[[Category: Electron transport]]~~	+
-	~~[[Category: Stability~~]]	+

OCA at 07:15, 22 September 2021

2021-09-22T07:15:35Z

←Older revision		Revision as of 07:15, 22 September 2021
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	<StructureSection load='1dvv' size='340' side='right'caption='[[1dvv]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>		<StructureSection load='1dvv' size='340' side='right'caption='[[1dvv]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1dvv]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"bacillus_aeruginosus"_(schroeter_1872)_trevisan_1885 "bacillus aeruginosus" (schroeter 1872) trevisan 1885]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVV OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1DVV FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1dvv]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/"bacillus_aeruginosus"_(schroeter_1872)_trevisan_1885 "bacillus aeruginosus" (schroeter 1872) trevisan 1885]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1DVV 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></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></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=1dvv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvv OCA], [~~http~~://pdbe.org/1dvv PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1dvv RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1dvv PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1dvv 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=1dvv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvv OCA], [https://pdbe.org/1dvv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1dvv RCSB], [https://www.ebi.ac.uk/pdbsum/1dvv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1dvv ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/CY551_PSEAE CY551_PSEAE]] Electron donor for cytochrome cd1 in nitrite and nitrate respiration.	+	[[https://www.uniprot.org/uniprot/CY551_PSEAE CY551_PSEAE]] Electron donor for cytochrome cd1 in nitrite and nitrate respiration.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 14:23, 18 December 2019

2019-12-18T14:23:22Z

←Older revision		Revision as of 14:23, 18 December 2019
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	==SOLUTION STRUCTURE OF THE QUINTUPLE MUTANT OF CYTOCHROME C-551 FROM PSEUDOMONAS AERUGINOSA==		==SOLUTION STRUCTURE OF THE QUINTUPLE MUTANT OF CYTOCHROME C-551 FROM PSEUDOMONAS AERUGINOSA==
-	<StructureSection load='1dvv' size='340' side='right' caption='[[1dvv]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>	+	<StructureSection load='1dvv' size='340' side='right'caption='[[1dvv]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1dvv]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_aeruginosus"_(schroeter_1872)_trevisan_1885 "bacillus aeruginosus" (schroeter 1872) trevisan 1885]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DVV FirstGlance]. <br>		<table><tr><td colspan='2'>[[1dvv]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_aeruginosus"_(schroeter_1872)_trevisan_1885 "bacillus aeruginosus" (schroeter 1872) trevisan 1885]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DVV FirstGlance]. <br>
Line 30:		Line 30:

	==See Also==		==See Also==
-	*[[Cytochrome c\|Cytochrome c]]	+	*[[Cytochrome C 3D structures\|Cytochrome C 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Hasegawa, J]]		[[Category: Hasegawa, J]]
	[[Category: Igarashi, Y]]		[[Category: Igarashi, Y]]

OCA at 06:39, 14 March 2018

2018-03-14T06:39:56Z

←Older revision		Revision as of 06:39, 14 March 2018
Line 28:		Line 28:
	</div>		</div>
	<div class="pdbe-citations 1dvv" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1dvv" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Cytochrome c\|Cytochrome c]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 08:01, 13 December 2017

2017-12-13T08:01:55Z

←Older revision		Revision as of 08:01, 13 December 2017
Line 1:		Line 1:
		+
	==SOLUTION STRUCTURE OF THE QUINTUPLE MUTANT OF CYTOCHROME C-551 FROM PSEUDOMONAS AERUGINOSA==		==SOLUTION STRUCTURE OF THE QUINTUPLE MUTANT OF CYTOCHROME C-551 FROM PSEUDOMONAS AERUGINOSA==
	<StructureSection load='1dvv' size='340' side='right' caption='[[1dvv]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>		<StructureSection load='1dvv' size='340' side='right' caption='[[1dvv]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
Line 4:		Line 5:
	<table><tr><td colspan='2'>[[1dvv]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_aeruginosus"_(schroeter_1872)_trevisan_1885 "bacillus aeruginosus" (schroeter 1872) trevisan 1885]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DVV FirstGlance]. <br>		<table><tr><td colspan='2'>[[1dvv]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_aeruginosus"_(schroeter_1872)_trevisan_1885 "bacillus aeruginosus" (schroeter 1872) trevisan 1885]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DVV 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></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></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=1dvv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvv OCA], [http://pdbe.org/1dvv PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1dvv RCSB], [http://www.ebi.ac.uk/pdbsum/1dvv 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=1dvv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvv OCA], [http://pdbe.org/1dvv PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1dvv RCSB], [http://www.ebi.ac.uk/pdbsum/1dvv PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1dvv 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/dv/1dvv_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/dv/1dvv_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
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	</div>		</div>
	<div class="pdbe-citations 1dvv" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1dvv" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Cytochrome c\|Cytochrome c]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 17:56, 9 February 2016

2016-02-09T17:56:00Z

←Older revision		Revision as of 17:56, 9 February 2016
Line 16:		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=1dvv ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 00:38, 11 September 2015

2015-09-11T00:38:16Z

←Older revision		Revision as of 00:38, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='1dvv' size='340' side='right' caption='[[1dvv]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>		<StructureSection load='1dvv' size='340' side='right' caption='[[1dvv]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1dvv]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Pseudomonas_aeruginosa Pseudomonas aeruginosa~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DVV FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1dvv]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_aeruginosus"_(schroeter_1872)_trevisan_1885 "bacillus aeruginosus" (schroeter 1872) trevisan 1885]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DVV 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></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></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=1dvv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvv OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1dvv RCSB], [http://www.ebi.ac.uk/pdbsum/1dvv 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=1dvv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvv OCA], [http://pdbe.org/1dvv PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1dvv RCSB], [http://www.ebi.ac.uk/pdbsum/1dvv PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 1dvv" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 33:		Line 34:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Pseudomonas aeruginosa]]
	[[Category: Hasegawa, J]]		[[Category: Hasegawa, J]]
	[[Category: Igarashi, Y]]		[[Category: Igarashi, Y]]

OCA at 08:28, 25 December 2014

2014-12-25T08:28:54Z

←Older revision		Revision as of 08:28, 25 December 2014
Line 6:		Line 6:
	<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=1dvv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvv OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1dvv RCSB], [http://www.ebi.ac.uk/pdbsum/1dvv 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=1dvv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvv OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1dvv RCSB], [http://www.ebi.ac.uk/pdbsum/1dvv PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/CY551_PSEAE CY551_PSEAE]] Electron donor for cytochrome cd1 in nitrite and nitrate respiration.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 20:45, 22 December 2014

2014-12-22T20:45:48Z

←Older revision		Revision as of 20:45, 22 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1dvv]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_aeruginosa Pseudomonas aeruginosa]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DVV FirstGlance]. <br>		<table><tr><td colspan='2'>[[1dvv]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_aeruginosa Pseudomonas aeruginosa]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DVV 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><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></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=1dvv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvv OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1dvv RCSB], [http://www.ebi.ac.uk/pdbsum/1dvv 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=1dvv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvv OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1dvv RCSB], [http://www.ebi.ac.uk/pdbsum/1dvv 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 32:		Line 32:
	</StructureSection>		</StructureSection>
	[[Category: Pseudomonas aeruginosa]]		[[Category: Pseudomonas aeruginosa]]
-	[[Category: Hasegawa, J.]]	+	[[Category: Hasegawa, J]]
-	[[Category: Igarashi, Y.]]	+	[[Category: Igarashi, Y]]
-	[[Category: Kobayashi, Y.]]	+	[[Category: Kobayashi, Y]]
-	[[Category: Mizutani, M.]]	+	[[Category: Mizutani, M]]
-	[[Category: Sambongi, Y.]]	+	[[Category: Sambongi, Y]]
-	[[Category: Tanimoto, Y.]]	+	[[Category: Tanimoto, Y]]
-	[[Category: Uchiyama, S.]]	+	[[Category: Uchiyama, S]]
	[[Category: Cytochrome c]]		[[Category: Cytochrome c]]
	[[Category: Electron transport]]		[[Category: Electron transport]]
	[[Category: Stability]]		[[Category: Stability]]

OCA at 10:53, 10 September 2014

2014-09-10T10:53:35Z

←Older revision		Revision as of 10:53, 10 September 2014
Line 1:		Line 1:
-	[[~~Image~~:1dvv.~~png\|left~~\|200px]]	+	==SOLUTION STRUCTURE OF THE QUINTUPLE MUTANT OF CYTOCHROME C-551 FROM PSEUDOMONAS AERUGINOSA==
		+	<StructureSection load='1dvv' size='340' side='right' caption='[[1dvv]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1dvv]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_aeruginosa Pseudomonas aeruginosa]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DVV 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><br>
		+	<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=1dvv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvv OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1dvv RCSB], [http://www.ebi.ac.uk/pdbsum/1dvv 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/dv/1dvv_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 ==
		+	Mesophilic cytochrome c(551) of Pseudomonas aeruginosa (PA c(551)) became as stable as its thermophilic counterpart, Hydrogenobacter thermophilus cytochrome c(552) (HT c(552)), through only five amino acid substitutions. The five residues, distributed in three spatially separated regions, were selected and mutated with reference to the corresponding residues in HT c(552) through careful structure comparison. Thermodynamic analysis indicated that the stability of the quintuple mutant of PA c(551) could be partly attained through an enthalpic factor. The solution structure of the mutant showed that, as in HT c(552), there were tighter side chain packings in the mutated regions. Furthermore, the mutant had an increased total accessible surface area, resulting in great negative hydration free energy. Our results provide a novel example of protein stabilization in that limited amino acid substitutions can confer the overall stability of a natural highly thermophilic protein upon a mesophilic molecule.

-	~~{{STRUCTURE_1dvv\| PDB=1dvv \| SCENE= }}~~	+	Selected mutations in a mesophilic cytochrome c confer the stability of a thermophilic counterpart.,Hasegawa J, Uchiyama S, Tanimoto Y, Mizutani M, Kobayashi Y, Sambongi Y, Igarashi Y J Biol Chem. 2000 Dec 1;275(48):37824-8. PMID:10918067<ref>PMID:10918067</ref>

-	~~===SOLUTION STRUCTURE OF THE QUINTUPLE MUTANT OF CYTOCHROME C-551 FROM PSEUDOMONAS AERUGINOSA===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_10918067}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[1dvv]] is~~ a ~~1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Pseudomonas_aeruginosa Pseudomonas aeruginosa]~~. ~~Full experimental information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1DVV OCA].~~	+

	==See Also==		==See Also==
	*[[Cytochrome c\|Cytochrome c]]		*[[Cytochrome c\|Cytochrome c]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:010918067<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Pseudomonas aeruginosa]]		[[Category: Pseudomonas aeruginosa]]
	[[Category: Hasegawa, J.]]		[[Category: Hasegawa, J.]]