3a9f - Revision history

OCA at 14:00, 13 March 2024

OCA — Wed, 13 Mar 2024 14:00:04 GMT

←Older revision		Revision as of 14:00, 13 March 2024
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	<StructureSection load='3a9f' size='340' side='right'caption='[[3a9f]], [[Resolution\|resolution]] 1.30Å' scene=''>		<StructureSection load='3a9f' size='340' side='right'caption='[[3a9f]], [[Resolution\|resolution]] 1.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3a9f]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Atcc_49652 Atcc 49652~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A9F OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3A9F FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3a9f]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Chlorobaculum_tepidum Chlorobaculum tepidum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A9F OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3A9F 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>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=P33:3,6,9,12,15,18-HEXAOXAICOSANE-1,20-DIOL'>P33</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene>, <scene name='pdbligand=PGE:TRIETHYLENE+GLYCOL'>PGE</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 1.3Å</td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pscC ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1097 ATCC 49652])~~</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>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=P33:3,6,9,12,15,18-HEXAOXAICOSANE-1,20-DIOL'>P33</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene>, <scene name='pdbligand=PGE:TRIETHYLENE+GLYCOL'>PGE</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=3a9f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a9f OCA], [https://pdbe.org/3a9f PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3a9f RCSB], [https://www.ebi.ac.uk/pdbsum/3a9f PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3a9f 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=3a9f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a9f OCA], [https://pdbe.org/3a9f PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3a9f RCSB], [https://www.ebi.ac.uk/pdbsum/3a9f PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3a9f ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/CY551_CHLTE CY551_CHLTE]] Monoheme cytochrome which is the immediate electron donor to P840 of the photosynthetic reaction center complex.	+	[https://www.uniprot.org/uniprot/CY551_CHLTE CY551_CHLTE] Monoheme cytochrome which is the immediate electron donor to P840 of the photosynthetic reaction center complex.
	== 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=3a9f 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=3a9f ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	In green sulfur photosynthetic bacteria, the cytochrome c(z) (cyt c(z)) subunit in the reaction center complex mediates electron transfer mainly from menaquinol/cytochrome c oxidoreductase to the special pair (P840) of the reaction center. The cyt c(z) subunit consists of an N-terminal transmembrane domain and a C-terminal soluble domain that binds a single heme group. The periplasmic soluble domain has been proposed to be highly mobile and to fluctuate between oxidoreductase and P840 during photosynthetic electron transfer. We have determined the crystal structure of the oxidized form of the C-terminal functional domain of the cyt c(z) subunit (C-cyt c(z)) from thermophilic green sulfur bacterium Chlorobium tepidum at 1.3-A resolution. The overall fold of C-cyt c(z) consists of four alpha-helices and is similar to that of class I cytochrome c proteins despite the low similarity in their amino acid sequences. The N-terminal structure of C-cyt c(z) supports the swinging mechanism previously proposed in relation with electron transfer, and the surface properties provide useful information on possible interaction sites with its electron transfer partners. Several characteristic features are observed for the heme environment: These include orientation of the axial ligands with respect to the heme plane, surface-exposed area of the heme, positions of water molecules, and hydrogen-bond network involving heme propionate groups. These structural features are essential for elucidating the mechanism for regulating the redox state of cyt c(z).
-
-	Crystal structure of the electron carrier domain of the reaction center cytochrome c(z) subunit from green photosynthetic bacterium Chlorobium tepidum.,Hirano Y, Higuchi M, Azai C, Oh-Oka H, Miki K, Wang ZY J Mol Biol. 2010 Apr 16;397(5):1175-87. Epub 2010 Feb 12. PMID:20156447<ref>PMID:20156447</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 3a9f" 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: ~~Atcc 49652~~]]	+	[[Category: Chlorobaculum tepidum]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Azai, C]]	+	[[Category: Azai C]]
-	[[Category: Higuchi, M]]	+	[[Category: Higuchi M]]
-	[[Category: Hirano, Y]]	+	[[Category: Hirano Y]]
-	[[Category: Miki, K]]	+	[[Category: Miki K]]
-	[[Category: Oh-oka, H]]	+	[[Category: Oh-oka H]]
-	[[Category: Wang, Z Y]]	+	[[Category: Wang Z-Y]]
-	~~[[Category: Alpha helix]]~~	+
-	~~[[Category: Cytochrome]]~~	+
-	~~[[Category: Electron transport]]~~	+
-	~~[[Category: Mono heme~~]]	+

OCA at 16:20, 22 December 2021

OCA — Wed, 22 Dec 2021 16:20:16 GMT

←Older revision		Revision as of 16:20, 22 December 2021
Line 1:		Line 1:

	==Crystal structure of the C-terminal domain of cytochrome cz from Chlorobium tepidum==		==Crystal structure of the C-terminal domain of cytochrome cz from Chlorobium tepidum==
-	<StructureSection load='3a9f' size='340' side='right' caption='[[3a9f]], [[Resolution\|resolution]] 1.30Å' scene=''>	+	<StructureSection load='3a9f' size='340' side='right'caption='[[3a9f]], [[Resolution\|resolution]] 1.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3a9f]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Atcc_49652 Atcc 49652]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A9F OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3A9F FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3a9f]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_49652 Atcc 49652]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A9F OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3A9F 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>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=P33:3,6,9,12,15,18-HEXAOXAICOSANE-1,20-DIOL'>P33</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene>, <scene name='pdbligand=PGE:TRIETHYLENE+GLYCOL'>PGE</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=P33:3,6,9,12,15,18-HEXAOXAICOSANE-1,20-DIOL'>P33</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene>, <scene name='pdbligand=PGE:TRIETHYLENE+GLYCOL'>PGE</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pscC ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1097 ATCC 49652])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pscC ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1097 ATCC 49652])</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=3a9f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a9f OCA], [~~http~~://pdbe.org/3a9f PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3a9f RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3a9f PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3a9f 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=3a9f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a9f OCA], [https://pdbe.org/3a9f PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3a9f RCSB], [https://www.ebi.ac.uk/pdbsum/3a9f PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3a9f ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/CY551_CHLTE CY551_CHLTE]] Monoheme cytochrome which is the immediate electron donor to P840 of the photosynthetic reaction center complex.	+	[[https://www.uniprot.org/uniprot/CY551_CHLTE CY551_CHLTE]] Monoheme cytochrome which is the immediate electron donor to P840 of the photosynthetic reaction center complex.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/a9/3a9f_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/a9/3a9f_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 29:		Line 29:
	</div>		</div>
	<div class="pdbe-citations 3a9f" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 3a9f" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Cytochrome C 3D structures\|Cytochrome C 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 34:		Line 37:
	</StructureSection>		</StructureSection>
	[[Category: Atcc 49652]]		[[Category: Atcc 49652]]
		+	[[Category: Large Structures]]
	[[Category: Azai, C]]		[[Category: Azai, C]]
	[[Category: Higuchi, M]]		[[Category: Higuchi, M]]

OCA at 16:30, 12 October 2017

OCA — Thu, 12 Oct 2017 16:30:48 GMT

←Older revision		Revision as of 16:30, 12 October 2017
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		+
	==Crystal structure of the C-terminal domain of cytochrome cz from Chlorobium tepidum==		==Crystal structure of the C-terminal domain of cytochrome cz from Chlorobium tepidum==
	<StructureSection load='3a9f' size='340' side='right' caption='[[3a9f]], [[Resolution\|resolution]] 1.30Å' scene=''>		<StructureSection load='3a9f' size='340' side='right' caption='[[3a9f]], [[Resolution\|resolution]] 1.30Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEC:HEME+C'>HEC</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=P33:3,6,9,12,15,18-HEXAOXAICOSANE-1,20-DIOL'>P33</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene>, <scene name='pdbligand=PGE:TRIETHYLENE+GLYCOL'>PGE</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=P33:3,6,9,12,15,18-HEXAOXAICOSANE-1,20-DIOL'>P33</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene>, <scene name='pdbligand=PGE:TRIETHYLENE+GLYCOL'>PGE</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pscC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1097 ATCC 49652])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pscC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1097 ATCC 49652])</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=3a9f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a9f OCA], [http://pdbe.org/3a9f PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3a9f RCSB], [http://www.ebi.ac.uk/pdbsum/3a9f 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=3a9f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a9f OCA], [http://pdbe.org/3a9f PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3a9f RCSB], [http://www.ebi.ac.uk/pdbsum/3a9f PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3a9f ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 28:		Line 29:
	</div>		</div>
	<div class="pdbe-citations 3a9f" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 3a9f" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Cytochrome c\|Cytochrome c]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 08:29, 8 February 2016

OCA — Mon, 08 Feb 2016 08:29:18 GMT

←Older revision		Revision as of 08:29, 8 February 2016
Line 5:		Line 5:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEC:HEME+C'>HEC</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=P33:3,6,9,12,15,18-HEXAOXAICOSANE-1,20-DIOL'>P33</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene>, <scene name='pdbligand=PGE:TRIETHYLENE+GLYCOL'>PGE</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=P33:3,6,9,12,15,18-HEXAOXAICOSANE-1,20-DIOL'>P33</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene>, <scene name='pdbligand=PGE:TRIETHYLENE+GLYCOL'>PGE</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pscC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1097 ATCC 49652])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pscC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1097 ATCC 49652])</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=3a9f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a9f OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3a9f RCSB], [http://www.ebi.ac.uk/pdbsum/3a9f 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=3a9f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a9f OCA], [http://pdbe.org/3a9f PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3a9f RCSB], [http://www.ebi.ac.uk/pdbsum/3a9f PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 17:		Line 17:
	<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=3a9f ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 27:		Line 27:
	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 3a9f" style="background-color:#fffaf0;"></div>

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

OCA at 21:58, 24 December 2014

OCA — Wed, 24 Dec 2014 21:58:55 GMT

←Older revision		Revision as of 21:58, 24 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3a9f]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_49652 Atcc 49652]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A9F OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3A9F FirstGlance]. <br>		<table><tr><td colspan='2'>[[3a9f]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_49652 Atcc 49652]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A9F OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3A9F FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEC:HEME+C'>HEC</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=P33:3,6,9,12,15,18-HEXAOXAICOSANE-1,20-DIOL'>P33</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene>, <scene name='pdbligand=PGE:TRIETHYLENE+GLYCOL'>PGE</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=P33:3,6,9,12,15,18-HEXAOXAICOSANE-1,20-DIOL'>P33</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene>, <scene name='pdbligand=PGE:TRIETHYLENE+GLYCOL'>PGE</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pscC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1097 ATCC 49652])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pscC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1097 ATCC 49652])</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=3a9f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a9f OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3a9f RCSB], [http://www.ebi.ac.uk/pdbsum/3a9f 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=3a9f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a9f OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3a9f RCSB], [http://www.ebi.ac.uk/pdbsum/3a9f PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/CY551_CHLTE CY551_CHLTE]] Monoheme cytochrome which is the immediate electron donor to P840 of the photosynthetic reaction center complex.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 33:		Line 35:
	</StructureSection>		</StructureSection>
	[[Category: Atcc 49652]]		[[Category: Atcc 49652]]
-	[[Category: Azai, C.]]	+	[[Category: Azai, C]]
-	[[Category: Higuchi, M.]]	+	[[Category: Higuchi, M]]
-	[[Category: Hirano, Y.]]	+	[[Category: Hirano, Y]]
-	[[Category: Miki, K.]]	+	[[Category: Miki, K]]
-	[[Category: Oh-oka, H.]]	+	[[Category: Oh-oka, H]]
-	[[Category: Wang, Z Y.]]	+	[[Category: Wang, Z Y]]
	[[Category: Alpha helix]]		[[Category: Alpha helix]]
	[[Category: Cytochrome]]		[[Category: Cytochrome]]
	[[Category: Electron transport]]		[[Category: Electron transport]]
	[[Category: Mono heme]]		[[Category: Mono heme]]

OCA at 08:17, 3 October 2014

OCA — Fri, 03 Oct 2014 08:17:53 GMT

←Older revision		Revision as of 08:17, 3 October 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_3a9f\| PDB=3a9f \| SCENE= }}~~	+	==Crystal structure of the C-terminal domain of cytochrome cz from Chlorobium tepidum==
-	===Crystal structure of the C-terminal domain of cytochrome cz from Chlorobium tepidum===	+	<StructureSection load='3a9f' size='340' side='right' caption='[[3a9f]], [[Resolution\|resolution]] 1.30Å' scene=''>
-	~~{{ABSTRACT_PUBMED_20156447}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3a9f]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_49652 Atcc 49652]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A9F OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3A9F FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEC:HEME+C'>HEC</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=P33:3,6,9,12,15,18-HEXAOXAICOSANE-1,20-DIOL'>P33</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene>, <scene name='pdbligand=PGE:TRIETHYLENE+GLYCOL'>PGE</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pscC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1097 ATCC 49652])</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=3a9f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a9f OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3a9f RCSB], [http://www.ebi.ac.uk/pdbsum/3a9f 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/a9/3a9f_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 green sulfur photosynthetic bacteria, the cytochrome c(z) (cyt c(z)) subunit in the reaction center complex mediates electron transfer mainly from menaquinol/cytochrome c oxidoreductase to the special pair (P840) of the reaction center. The cyt c(z) subunit consists of an N-terminal transmembrane domain and a C-terminal soluble domain that binds a single heme group. The periplasmic soluble domain has been proposed to be highly mobile and to fluctuate between oxidoreductase and P840 during photosynthetic electron transfer. We have determined the crystal structure of the oxidized form of the C-terminal functional domain of the cyt c(z) subunit (C-cyt c(z)) from thermophilic green sulfur bacterium Chlorobium tepidum at 1.3-A resolution. The overall fold of C-cyt c(z) consists of four alpha-helices and is similar to that of class I cytochrome c proteins despite the low similarity in their amino acid sequences. The N-terminal structure of C-cyt c(z) supports the swinging mechanism previously proposed in relation with electron transfer, and the surface properties provide useful information on possible interaction sites with its electron transfer partners. Several characteristic features are observed for the heme environment: These include orientation of the axial ligands with respect to the heme plane, surface-exposed area of the heme, positions of water molecules, and hydrogen-bond network involving heme propionate groups. These structural features are essential for elucidating the mechanism for regulating the redox state of cyt c(z).

-	~~==Function==~~	+	Crystal structure of the electron carrier domain of the reaction center cytochrome c(z) subunit from green photosynthetic bacterium Chlorobium tepidum.,Hirano Y, Higuchi M, Azai C, Oh-Oka H, Miki K, Wang ZY J Mol Biol. 2010 Apr 16;397(5):1175-87. Epub 2010 Feb 12. PMID:20156447<ref>PMID:20156447</ref>
-	~~[[http://www.uniprot.org/uniprot/CY551_CHLTE CY551_CHLTE]] Monoheme cytochrome which is~~ the ~~immediate~~ electron ~~donor to P840~~ of the ~~photosynthetic~~ reaction center ~~complex~~.	+

-	~~==About this Structure==~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[3a9f]] is~~ a ~~2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Atcc_49652 Atcc 49652]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3A9F OCA].~~	+	</div>

	==See Also==		==See Also==
	*[[Cytochrome c\|Cytochrome c]]		*[[Cytochrome c\|Cytochrome c]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	~~<ref group="xtra">PMID:020156447</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Atcc 49652]]		[[Category: Atcc 49652]]
	[[Category: Azai, C.]]		[[Category: Azai, C.]]

OCA at 06:20, 22 January 2014

OCA — Wed, 22 Jan 2014 06:20:29 GMT

←Older revision		Revision as of 06:20, 22 January 2014
Line 1:		Line 1:
-	[[Image:3a9f.png\|left\|200px]]
-
	{{STRUCTURE_3a9f\| PDB=3a9f \| SCENE= }}		{{STRUCTURE_3a9f\| PDB=3a9f \| SCENE= }}
-
	===Crystal structure of the C-terminal domain of cytochrome cz from Chlorobium tepidum===		===Crystal structure of the C-terminal domain of cytochrome cz from Chlorobium tepidum===
		+	{{ABSTRACT_PUBMED_20156447}}

-	~~{{ABSTRACT_PUBMED_20156447}}~~	+	==Function==
		+	[[http://www.uniprot.org/uniprot/CY551_CHLTE CY551_CHLTE]] Monoheme cytochrome which is the immediate electron donor to P840 of the photosynthetic reaction center complex.

	==About this Structure==		==About this Structure==
-	[[3a9f]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Chlorobaculum_tepidum Chlorobaculum tepidum~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A9F OCA].	+	[[3a9f]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_49652 Atcc 49652]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A9F OCA].

	==See Also==		==See Also==
Line 14:		Line 13:

	==Reference==		==Reference==
-	<ref group="xtra">PMID:020156447</ref><references group="xtra"/>	+	<ref group="xtra">PMID:020156447</ref><references group="xtra"/><references/>
-	[[Category: ~~Chlorobaculum tepidum~~]]	+	[[Category: Atcc 49652]]
	[[Category: Azai, C.]]		[[Category: Azai, C.]]
	[[Category: Higuchi, M.]]		[[Category: Higuchi, M.]]

OCA at 09:33, 20 October 2012

OCA — Sat, 20 Oct 2012 09:33:05 GMT

←Older revision		Revision as of 09:33, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[3a9f]] is a 2 chain structure ~~of [[Cytochrome c]]~~ with sequence from [http://en.wikipedia.org/wiki/Chlorobaculum_tepidum Chlorobaculum tepidum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A9F OCA].	+	[[3a9f]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Chlorobaculum_tepidum Chlorobaculum tepidum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A9F OCA].

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

OCA: Protected "3a9f" [edit=sysop:move=sysop]

OCA — Wed, 25 Jul 2012 23:14:33 GMT

Protected "3a9f" [edit=sysop:move=sysop]

←Older revision

Revision as of 23:14, 25 July 2012

OCA at 23:14, 25 July 2012

OCA — Wed, 25 Jul 2012 23:14:31 GMT

←Older revision		Revision as of 23:14, 25 July 2012
Line 1:		Line 1:
-	~~{{Seed}}~~	+	[[Image:3a9f.png\|left\|200px]]
-	[[Image:3a9f.~~jpg~~\|left\|200px]]	+

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3a9f", 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_3a9f\| PDB=3a9f \| SCENE= }}		{{STRUCTURE_3a9f\| PDB=3a9f \| SCENE= }}

	===Crystal structure of the C-terminal domain of cytochrome cz from Chlorobium tepidum===		===Crystal structure of the C-terminal domain of cytochrome cz from Chlorobium tepidum===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_20156447}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 20156447 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_20156447}}		{{ABSTRACT_PUBMED_20156447}}

	==About this Structure==		==About this Structure==
-	~~3A9F~~ is a 2 ~~chains~~ structure with ~~sequences~~ from [http://en.wikipedia.org/wiki/Chlorobaculum_tepidum Chlorobaculum tepidum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A9F OCA].	+	[[3a9f]] is a 2 chain structure of [[Cytochrome c]] with sequence from [http://en.wikipedia.org/wiki/Chlorobaculum_tepidum Chlorobaculum tepidum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A9F OCA].
		+
		+	==See Also==
		+	*[[Cytochrome c\|Cytochrome c]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~20156447~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:020156447</ref><references group="xtra"/>
	[[Category: Chlorobaculum tepidum]]		[[Category: Chlorobaculum tepidum]]
	[[Category: Azai, C.]]		[[Category: Azai, C.]]
Line 35:		Line 26:
	[[Category: Electron transport]]		[[Category: Electron transport]]
	[[Category: Mono heme]]		[[Category: Mono heme]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Mar 3 16:31:23 2010''