3dmi - Revision history

OCA at 15:12, 1 November 2023

2023-11-01T15:12:33Z

←Older revision		Revision as of 15:12, 1 November 2023
Line 3:		Line 3:
	<StructureSection load='3dmi' size='340' side='right'caption='[[3dmi]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='3dmi' size='340' side='right'caption='[[3dmi]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3dmi]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Diatom Diatom~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DMI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3DMI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3dmi]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Phaeodactylum_tricornutum Phaeodactylum tricornutum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DMI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3DMI 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=MG:MAGNESIUM+ION'>MG</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]] 1.5Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~pet J ([https~~:/~~/www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=2850 Diatom])~~</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=MG:MAGNESIUM+ION'>MG</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=3dmi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dmi OCA], [https://pdbe.org/3dmi PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3dmi RCSB], [https://www.ebi.ac.uk/pdbsum/3dmi PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3dmi 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=3dmi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dmi OCA], [https://pdbe.org/3dmi PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3dmi RCSB], [https://www.ebi.ac.uk/pdbsum/3dmi PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3dmi ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q8GTB5_PHATR Q8GTB5_PHATR]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</div>		</div>
	<div class="pdbe-citations 3dmi" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 3dmi" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Cytochrome C 3D structures\|Cytochrome C 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Diatom]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Akazaki, H]]
-	[[Category: Hakamata, W]]
-	[[Category: Hama, T]]
-	[[Category: Hirano, T]]
-	[[Category: Hosokawa, M]]
-	[[Category: Kawai, F]]
-	[[Category: Lim, B K]]
-	[[Category: Nishio, T]]
-	[[Category: Oku, T]]
-	[[Category: Park, S Y]]
-	[[Category: Sakurai, N]]
-	[[Category: Cytochrome c6]]
-	[[Category: Electron transport]]
	[[Category: Phaeodactylum tricornutum]]		[[Category: Phaeodactylum tricornutum]]
-	[[Category: ~~Transit peptide~~]]	+	[[Category: Akazaki H]]
		+	[[Category: Hakamata W]]
		+	[[Category: Hama T]]
		+	[[Category: Hirano T]]
		+	[[Category: Hosokawa M]]
		+	[[Category: Kawai F]]
		+	[[Category: Lim B-K]]
		+	[[Category: Nishio T]]
		+	[[Category: Oku T]]
		+	[[Category: Park S-Y]]
		+	[[Category: Sakurai N]]

OCA at 08:02, 9 February 2022

2022-02-09T08:02:43Z

←Older revision		Revision as of 08:02, 9 February 2022
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	<StructureSection load='3dmi' size='340' side='right'caption='[[3dmi]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='3dmi' size='340' side='right'caption='[[3dmi]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3dmi]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Diatom Diatom]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DMI OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3DMI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3dmi]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Diatom Diatom]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DMI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3DMI 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=MG:MAGNESIUM+ION'>MG</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=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pet J ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2850 Diatom])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pet J ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2850 Diatom])</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=3dmi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dmi OCA], [~~http~~://pdbe.org/3dmi PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3dmi RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3dmi PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3dmi 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=3dmi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dmi OCA], [https://pdbe.org/3dmi PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3dmi RCSB], [https://www.ebi.ac.uk/pdbsum/3dmi PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3dmi ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==

OCA at 10:46, 2 October 2019

2019-10-02T10:46:44Z

←Older revision		Revision as of 10:46, 2 October 2019
Line 1:		Line 1:

	==Crystallization and Structural Analysis of Cytochrome c6 from the Diatom Phaeodactylum tricornutum at 1.5 A resolution==		==Crystallization and Structural Analysis of Cytochrome c6 from the Diatom Phaeodactylum tricornutum at 1.5 A resolution==
-	<StructureSection load='3dmi' size='340' side='right' caption='[[3dmi]], [[Resolution\|resolution]] 1.50Å' scene=''>	+	<StructureSection load='3dmi' size='340' side='right'caption='[[3dmi]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3dmi]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Diatom Diatom]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DMI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3DMI FirstGlance]. <br>		<table><tr><td colspan='2'>[[3dmi]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Diatom Diatom]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DMI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3DMI FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=~~HEM~~:~~PROTOPORPHYRIN~~+~~IX+CONTAINING+FE~~'>~~HEM~~</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=MG:MAGNESIUM+ION'>MG</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pet J ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2850 Diatom])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pet J ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2850 Diatom])</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=3dmi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dmi OCA], [http://pdbe.org/3dmi PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3dmi RCSB], [http://www.ebi.ac.uk/pdbsum/3dmi PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3dmi ProSAT]</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=3dmi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dmi OCA], [http://pdbe.org/3dmi PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3dmi RCSB], [http://www.ebi.ac.uk/pdbsum/3dmi PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3dmi ProSAT]</span></td></tr>
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: Diatom]]		[[Category: Diatom]]
		+	[[Category: Large Structures]]
	[[Category: Akazaki, H]]		[[Category: Akazaki, H]]
	[[Category: Hakamata, W]]		[[Category: Hakamata, W]]

OCA at 09:34, 14 November 2018

2018-11-14T09:34:19Z

←Older revision		Revision as of 09:34, 14 November 2018
Line 1:		Line 1:
		+
	==Crystallization and Structural Analysis of Cytochrome c6 from the Diatom Phaeodactylum tricornutum at 1.5 A resolution==		==Crystallization and Structural Analysis of Cytochrome c6 from the Diatom Phaeodactylum tricornutum at 1.5 A resolution==
	<StructureSection load='3dmi' size='340' side='right' caption='[[3dmi]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='3dmi' size='340' side='right' caption='[[3dmi]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3dmi]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Phatr Phatr~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DMI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3DMI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3dmi]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Diatom Diatom]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DMI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3DMI FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pet J ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2850 ~~PHATR~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pet J ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2850 Diatom])</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=3dmi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dmi OCA], [http://pdbe.org/3dmi PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3dmi RCSB], [http://www.ebi.ac.uk/pdbsum/3dmi 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=3dmi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dmi OCA], [http://pdbe.org/3dmi PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3dmi RCSB], [http://www.ebi.ac.uk/pdbsum/3dmi PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3dmi ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 11:		Line 12:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/dm/3dmi_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/dm/3dmi_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 33:		Line 34:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Phatr~~]]	+	[[Category: Diatom]]
	[[Category: Akazaki, H]]		[[Category: Akazaki, H]]
	[[Category: Hakamata, W]]		[[Category: Hakamata, W]]

OCA at 07:49, 9 February 2016

2016-02-09T07:49:49Z

←Older revision		Revision as of 07:49, 9 February 2016
Line 2:		Line 2:
	<StructureSection load='3dmi' size='340' side='right' caption='[[3dmi]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='3dmi' size='340' side='right' caption='[[3dmi]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3dmi]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Phaeodactylum_tricornutum Phaeodactylum tricornutum~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DMI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3DMI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3dmi]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Phatr Phatr]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DMI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3DMI FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pet J ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2850 ~~Phaeodactylum tricornutum~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pet J ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2850 PHATR])</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=3dmi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dmi OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3dmi RCSB], [http://www.ebi.ac.uk/pdbsum/3dmi 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=3dmi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dmi OCA], [http://pdbe.org/3dmi PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3dmi RCSB], [http://www.ebi.ac.uk/pdbsum/3dmi PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 15:		Line 15:
	<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=3dmi ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 25:		Line 25:
	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 3dmi" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 32:		Line 33:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Phaeodactylum tricornutum~~]]	+	[[Category: Phatr]]
	[[Category: Akazaki, H]]		[[Category: Akazaki, H]]
	[[Category: Hakamata, W]]		[[Category: Hakamata, W]]
Line 46:		Line 47:
	[[Category: Cytochrome c6]]		[[Category: Cytochrome c6]]
	[[Category: Electron transport]]		[[Category: Electron transport]]
		+	[[Category: Phaeodactylum tricornutum]]
	[[Category: Transit peptide]]		[[Category: Transit peptide]]

OCA at 09:19, 20 January 2015

2015-01-20T09:19:07Z

←Older revision		Revision as of 09:19, 20 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3dmi]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Phaeodactylum_tricornutum Phaeodactylum tricornutum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DMI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3DMI FirstGlance]. <br>		<table><tr><td colspan='2'>[[3dmi]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Phaeodactylum_tricornutum Phaeodactylum tricornutum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DMI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3DMI FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pet J ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2850 Phaeodactylum tricornutum])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pet J ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2850 Phaeodactylum tricornutum])</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=3dmi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dmi OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3dmi RCSB], [http://www.ebi.ac.uk/pdbsum/3dmi 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=3dmi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dmi OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3dmi RCSB], [http://www.ebi.ac.uk/pdbsum/3dmi 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: Phaeodactylum tricornutum]]		[[Category: Phaeodactylum tricornutum]]
-	[[Category: Akazaki, H.]]	+	[[Category: Akazaki, H]]
-	[[Category: Hakamata, W.]]	+	[[Category: Hakamata, W]]
-	[[Category: Hama, T.]]	+	[[Category: Hama, T]]
-	[[Category: Hirano, T.]]	+	[[Category: Hirano, T]]
-	[[Category: Hosokawa, M.]]	+	[[Category: Hosokawa, M]]
-	[[Category: Kawai, F.]]	+	[[Category: Kawai, F]]
-	[[Category: Lim, B K.]]	+	[[Category: Lim, B K]]
-	[[Category: Nishio, T.]]	+	[[Category: Nishio, T]]
-	[[Category: Oku, T.]]	+	[[Category: Oku, T]]
-	[[Category: Park, S Y.]]	+	[[Category: Park, S Y]]
-	[[Category: Sakurai, N.]]	+	[[Category: Sakurai, N]]
	[[Category: Cytochrome c6]]		[[Category: Cytochrome c6]]
	[[Category: Electron transport]]		[[Category: Electron transport]]
-	[[Category: Phaeodactylum tricornutum]]
	[[Category: Transit peptide]]		[[Category: Transit peptide]]

OCA at 13:07, 29 September 2014

2014-09-29T13:07:00Z

←Older revision		Revision as of 13:07, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~3dmi.~~png~~\|~~left~~\|200px]]	+	==Crystallization and Structural Analysis of Cytochrome c6 from the Diatom Phaeodactylum tricornutum at 1.5 A resolution==
		+	<StructureSection load='3dmi' size='340' side='right' caption='[[3dmi]], [[Resolution\|resolution]] 1.50Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3dmi]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Phaeodactylum_tricornutum Phaeodactylum tricornutum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DMI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3DMI FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pet J ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2850 Phaeodactylum tricornutum])</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=3dmi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dmi OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3dmi RCSB], [http://www.ebi.ac.uk/pdbsum/3dmi 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/dm/3dmi_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 ==
		+	We determined for the first time the crystal structure of diatom cytochrome c(6) from Phaeodactylum tricornutum at 1.5 A resolution. The overall structure of the protein was classified as a class I c-type cytochrome. The physicochemical properties of the protein were examined by denaturation with guanidine hydrochloride and urea, and compared with those of other algal cytochrome c(6).

-	~~{{STRUCTURE_3dmi\| PDB=3dmi \| SCENE= }}~~	+	Crystallization and structural analysis of cytochrome c(6) from the diatom Phaeodactylum tricornutum at 1.5 A resolution.,Akazaki H, Kawai F, Hosokawa M, Hama T, Chida H, Hirano T, Lim BK, Sakurai N, Hakamata W, Park SY, Nishio T, Oku T Biosci Biotechnol Biochem. 2009 Jan;73(1):189-91. Epub 2009 Jan 7. PMID:19129656<ref>PMID:19129656</ref>

-	~~===Crystallization and Structural Analysis~~ of ~~Cytochrome c6 from~~ the ~~Diatom Phaeodactylum tricornutum at 1~~.~~5 A resolution===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_19129656}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[3dmi]] is a 1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org~~/~~wiki/Phaeodactylum_tricornutum Phaeodactylum tricornutum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DMI OCA].~~	+

	==See Also==		==See Also==
	*[[Cytochrome c\|Cytochrome c]]		*[[Cytochrome c\|Cytochrome c]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:019129656<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Phaeodactylum tricornutum]]		[[Category: Phaeodactylum tricornutum]]
	[[Category: Akazaki, H.]]		[[Category: Akazaki, H.]]

OCA at 13:10, 20 October 2012

2012-10-20T13:10:37Z

←Older revision		Revision as of 13:10, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[3dmi]] is a 1 chain structure ~~of [[Cytochrome c]]~~ with sequence from [http://en.wikipedia.org/wiki/Phaeodactylum_tricornutum Phaeodactylum tricornutum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DMI OCA].	+	[[3dmi]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Phaeodactylum_tricornutum Phaeodactylum tricornutum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DMI OCA].

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

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

2012-07-26T11:08:17Z

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

←Older revision

Revision as of 11:08, 26 July 2012

OCA at 11:08, 26 July 2012

2012-07-26T11:08:15Z

←Older revision		Revision as of 11:08, 26 July 2012
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:3dmi.png\|left\|200px]]

-	~~The entry~~ 3dmi ~~is ON HOLD~~ ~~until Paper Publication~~	+	{{STRUCTURE_3dmi\| PDB=3dmi \| SCENE= }}

-	~~Authors: Akazaki, H., Kawai, F., Hosokawa, M., Hama, T., Hirano, T., Lim, B.-K., Sakurai, N., Hakamata, W., Park, S.-Y., Nishio, T., Oku, T~~.	+	===Crystallization and Structural Analysis of Cytochrome c6 from the Diatom Phaeodactylum tricornutum at 1.5 A resolution===

-	~~Description: Crystallization and Structural Analysis of Cytochrome c6 from the Diatom Phaeodactylum tricornutum at 1.5 A resolution~~	+	{{ABSTRACT_PUBMED_19129656}}

-	~~''Page seeded by~~ [http://oca.weizmann.ac.il/oca OCA ] ~~on Wed Jul 23 12~~:15:~~12 2008''~~	+	==About this Structure==
		+	[[3dmi]] is a 1 chain structure of [[Cytochrome c]] with sequence from [http://en.wikipedia.org/wiki/Phaeodactylum_tricornutum Phaeodactylum tricornutum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DMI OCA].
		+
		+	==See Also==
		+	*[[Cytochrome c\|Cytochrome c]]
		+
		+	==Reference==
		+	<ref group="xtra">PMID:019129656</ref><references group="xtra"/>
		+	[[Category: Phaeodactylum tricornutum]]
		+	[[Category: Akazaki, H.]]
		+	[[Category: Hakamata, W.]]
		+	[[Category: Hama, T.]]
		+	[[Category: Hirano, T.]]
		+	[[Category: Hosokawa, M.]]
		+	[[Category: Kawai, F.]]
		+	[[Category: Lim, B K.]]
		+	[[Category: Nishio, T.]]
		+	[[Category: Oku, T.]]
		+	[[Category: Park, S Y.]]
		+	[[Category: Sakurai, N.]]
		+	[[Category: Cytochrome c6]]
		+	[[Category: Electron transport]]
		+	[[Category: Phaeodactylum tricornutum]]
		+	[[Category: Transit peptide]]