2kaj - Revision history

OCA at 09:46, 9 May 2024

OCA — Thu, 09 May 2024 09:46:25 GMT

←Older revision		Revision as of 09:46, 9 May 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2kaj]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Synechocystis_sp._PCC_6803 Synechocystis sp. PCC 6803]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KAJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2KAJ FirstGlance]. <br>		<table><tr><td colspan='2'>[[2kaj]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Synechocystis_sp._PCC_6803 Synechocystis sp. PCC 6803]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KAJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2KAJ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GA:GALLIUM+(III)+ION'>GA</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=GA:GALLIUM+(III)+ION'>GA</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=2kaj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2kaj OCA], [https://pdbe.org/2kaj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2kaj RCSB], [https://www.ebi.ac.uk/pdbsum/2kaj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2kaj 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=2kaj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2kaj OCA], [https://pdbe.org/2kaj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2kaj RCSB], [https://www.ebi.ac.uk/pdbsum/2kaj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2kaj ProSAT]</span></td></tr>
	</table>		</table>

OCA at 08:43, 14 June 2023

OCA — Wed, 14 Jun 2023 08:43:15 GMT

←Older revision		Revision as of 08:43, 14 June 2023
Line 1:		Line 1:

	==NMR structure of gallium substituted ferredoxin==		==NMR structure of gallium substituted ferredoxin==
-	<StructureSection load='2kaj' size='340' side='right'caption='[[2kaj~~]], [[NMR_Ensembles_of_Models \| 10 NMR models~~]]' scene=''>	+	<StructureSection load='2kaj' size='340' side='right'caption='[[2kaj]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2kaj]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Aphanocapsa_sp~~.~~_(strain_n-1) Aphanocapsa~~ sp. ~~(strain n-1)~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KAJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2KAJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2kaj]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Synechocystis_sp._PCC_6803 Synechocystis sp. PCC 6803]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KAJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2KAJ FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GA:GALLIUM+(III)+ION'>GA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GA:GALLIUM+(III)+ION'>GA</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">petF, fed, ssl0020 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1148 Aphanocapsa sp. (strain N-1)])</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=2kaj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2kaj OCA], [https://pdbe.org/2kaj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2kaj RCSB], [https://www.ebi.ac.uk/pdbsum/2kaj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2kaj 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=2kaj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2kaj OCA], [https://pdbe.org/2kaj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2kaj RCSB], [https://www.ebi.ac.uk/pdbsum/2kaj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2kaj ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/FER_SYNY3 FER_SYNY3]] Ferredoxins are iron-sulfur proteins that transfer electrons in a wide variety of metabolic reactions.	+	[https://www.uniprot.org/uniprot/FER_SYNY3 FER_SYNY3] Ferredoxins are iron-sulfur proteins that transfer electrons in a wide variety of metabolic reactions.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 37:		Line 36:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Knaff, D B~~]]	+	[[Category: Synechocystis sp. PCC 6803]]
-	[[Category: ~~Ubbink, M~~]]	+	[[Category: Knaff DB]]
-	[[Category: ~~Xu, X~~]]	+	[[Category: Ubbink M]]
-	[[Category: ~~Electron transport]]~~	+	[[Category: Xu X]]
-	~~[[Category: Ferredoxin]]~~	+
-	~~[[Category: Iron]]~~	+
-	~~[[Category: Iron-sulfur]]~~	+
-	~~[[Category: Metal binding protein]]~~	+
-	~~[[Category: Transport~~]]	+

OCA at 13:30, 24 November 2021

OCA — Wed, 24 Nov 2021 13:30:26 GMT

←Older revision		Revision as of 13:30, 24 November 2021
Line 3:		Line 3:
	<StructureSection load='2kaj' size='340' side='right'caption='[[2kaj]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>		<StructureSection load='2kaj' size='340' side='right'caption='[[2kaj]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2kaj]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Aphanocapsa_sp._(strain_n-1) Aphanocapsa sp. (strain n-1)]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KAJ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2KAJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2kaj]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Aphanocapsa_sp._(strain_n-1) Aphanocapsa sp. (strain n-1)]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KAJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2KAJ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GA:GALLIUM+(III)+ION'>GA</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GA:GALLIUM+(III)+ION'>GA</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">petF, fed, ssl0020 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1148 Aphanocapsa sp. (strain N-1)])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">petF, fed, ssl0020 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1148 Aphanocapsa sp. (strain N-1)])</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=2kaj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2kaj OCA], [~~http~~://pdbe.org/2kaj PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2kaj RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2kaj PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2kaj 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=2kaj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2kaj OCA], [https://pdbe.org/2kaj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2kaj RCSB], [https://www.ebi.ac.uk/pdbsum/2kaj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2kaj ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/FER_SYNY3 FER_SYNY3]] Ferredoxins are iron-sulfur proteins that transfer electrons in a wide variety of metabolic reactions.	+	[[https://www.uniprot.org/uniprot/FER_SYNY3 FER_SYNY3]] Ferredoxins are iron-sulfur proteins that transfer electrons in a wide variety of metabolic reactions.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 06:57, 19 February 2020

OCA — Wed, 19 Feb 2020 06:57:53 GMT

←Older revision		Revision as of 06:57, 19 February 2020
Line 1:		Line 1:

	==NMR structure of gallium substituted ferredoxin==		==NMR structure of gallium substituted ferredoxin==
-	<StructureSection load='2kaj' size='340' side='right' caption='[[2kaj]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>	+	<StructureSection load='2kaj' size='340' side='right'caption='[[2kaj]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2kaj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Aphanocapsa_sp._(strain_n-1) Aphanocapsa sp. (strain n-1)]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KAJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2KAJ FirstGlance]. <br>		<table><tr><td colspan='2'>[[2kaj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Aphanocapsa_sp._(strain_n-1) Aphanocapsa sp. (strain n-1)]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KAJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2KAJ FirstGlance]. <br>
Line 31:		Line 31:

	==See Also==		==See Also==
-	*[[Ferredoxin\|Ferredoxin]]	+	*[[Ferredoxin 3D structures\|Ferredoxin 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Knaff, D B]]		[[Category: Knaff, D B]]
	[[Category: Ubbink, M]]		[[Category: Ubbink, M]]

OCA at 11:13, 18 July 2018

OCA — Wed, 18 Jul 2018 11:13:22 GMT

←Older revision		Revision as of 11:13, 18 July 2018
Line 1:		Line 1:
		+
	==NMR structure of gallium substituted ferredoxin==		==NMR structure of gallium substituted ferredoxin==
	<StructureSection load='2kaj' size='340' side='right' caption='[[2kaj]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>		<StructureSection load='2kaj' size='340' side='right' caption='[[2kaj]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GA:GALLIUM+(III)+ION'>GA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GA:GALLIUM+(III)+ION'>GA</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">petF, fed, ssl0020 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1148 Aphanocapsa sp. (strain N-1)])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">petF, fed, ssl0020 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1148 Aphanocapsa sp. (strain N-1)])</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=2kaj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2kaj OCA], [http://pdbe.org/2kaj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2kaj RCSB], [http://www.ebi.ac.uk/pdbsum/2kaj 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=2kaj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2kaj OCA], [http://pdbe.org/2kaj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2kaj RCSB], [http://www.ebi.ac.uk/pdbsum/2kaj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2kaj ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 13:		Line 14:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ka/2kaj_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ka/2kaj_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>
	</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=2kaj ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 14:06, 11 September 2015

OCA — Fri, 11 Sep 2015 14:06:55 GMT

←Older revision		Revision as of 14:06, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='2kaj' size='340' side='right' caption='[[2kaj]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>		<StructureSection load='2kaj' size='340' side='right' caption='[[2kaj]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2kaj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Synechocystis_sp~~.~~_pcc_6803 Synechocystis~~ sp. ~~pcc 6803~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KAJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2KAJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2kaj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Aphanocapsa_sp._(strain_n-1) Aphanocapsa sp. (strain n-1)]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KAJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2KAJ FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GA:GALLIUM+(III)+ION'>GA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GA:GALLIUM+(III)+ION'>GA</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">petF, fed, ssl0020 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1148 ~~Synechocystis~~ sp. ~~PCC 6803~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">petF, fed, ssl0020 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1148 Aphanocapsa sp. (strain N-1)])</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=2kaj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2kaj OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2kaj RCSB], [http://www.ebi.ac.uk/pdbsum/2kaj 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=2kaj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2kaj OCA], [http://pdbe.org/2kaj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2kaj RCSB], [http://www.ebi.ac.uk/pdbsum/2kaj PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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 2kaj" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 34:		Line 35:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Synechocystis sp. pcc 6803]]
	[[Category: Knaff, D B]]		[[Category: Knaff, D B]]
	[[Category: Ubbink, M]]		[[Category: Ubbink, M]]

OCA at 17:29, 25 December 2014

OCA — Thu, 25 Dec 2014 17:29:47 GMT

←Older revision		Revision as of 17:29, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2kaj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Synechocystis_sp._pcc_6803 Synechocystis sp. pcc 6803]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KAJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2KAJ FirstGlance]. <br>		<table><tr><td colspan='2'>[[2kaj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Synechocystis_sp._pcc_6803 Synechocystis sp. pcc 6803]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KAJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2KAJ FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GA:GALLIUM+(III)+ION'>GA</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GA:GALLIUM+(III)+ION'>GA</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">petF, fed, ssl0020 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1148 Synechocystis sp. PCC 6803])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">petF, fed, ssl0020 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1148 Synechocystis sp. PCC 6803])</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=2kaj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2kaj OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2kaj RCSB], [http://www.ebi.ac.uk/pdbsum/2kaj 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=2kaj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2kaj OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2kaj RCSB], [http://www.ebi.ac.uk/pdbsum/2kaj PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/FER_SYNY3 FER_SYNY3]] Ferredoxins are iron-sulfur proteins that transfer electrons in a wide variety of metabolic reactions.
	== 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: Synechocystis sp. pcc 6803]]		[[Category: Synechocystis sp. pcc 6803]]
-	[[Category: Knaff, D B.]]	+	[[Category: Knaff, D B]]
-	[[Category: Ubbink, M.]]	+	[[Category: Ubbink, M]]
-	[[Category: Xu, X.]]	+	[[Category: Xu, X]]
	[[Category: Electron transport]]		[[Category: Electron transport]]
	[[Category: Ferredoxin]]		[[Category: Ferredoxin]]

OCA at 04:50, 29 September 2014

OCA — Mon, 29 Sep 2014 04:50:54 GMT

←Older revision		Revision as of 04:50, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2kaj.~~png~~\|~~left~~\|200px]]	+	==NMR structure of gallium substituted ferredoxin==
		+	<StructureSection load='2kaj' size='340' side='right' caption='[[2kaj]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2kaj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Synechocystis_sp._pcc_6803 Synechocystis sp. pcc 6803]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KAJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2KAJ FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GA:GALLIUM+(III)+ION'>GA</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">petF, fed, ssl0020 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1148 Synechocystis sp. PCC 6803])</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=2kaj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2kaj OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2kaj RCSB], [http://www.ebi.ac.uk/pdbsum/2kaj 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/ka/2kaj_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 photosynthetic organisms, ferredoxin (Fd) interacts with many proteins, acting as a shuttle for electrons from Photosystem I to a group of enzymes involved in NADP(+) reduction, sulfur and nitrogen assimilation, and the regulation of carbon assimilation. The study of the dynamic interactions between ferredoxin and these enzymes by nuclear magnetic resonance is severely hindered by the paramagnetic [2Fe-2S] cluster of a ferredoxin. To establish whether ferredoxin in which the cluster has been replaced by Ga is a suitable diamagnetic mimic, the solution structure of Synechocystis Ga-substituted ferredoxin has been determined and compared with the structure of the native protein. The ensemble of 10 structures with the lowest energies has an average root-mean-square deviation of 0.30 +/- 0.05 A for backbone atoms and 0.65 +/- 0.04 A for all heavy atoms. Comparison of the NMR structure of GaFd with the crystal structure of the native Fd indicates that the general structural fold found for the native, iron-containing ferredoxin is conserved in GaFd. The ferredoxin contains a single gallium and no inorganic sulfide. The distortion of the metal binding loop caused by the single gallium substitution is small. The binding site on Fd for binding ferredoxin:NADP(+) reductase in solution, determined using GaFd, includes the metal binding loop and its surroundings, consistent with the crystal structures of related complexes. The results provide a structural justification for the use of the gallium-substituted analogue in interaction studies.

-	~~{{STRUCTURE_2kaj\| PDB=2kaj \| SCENE= }}~~	+	Structural and functional characterization of the ga-substituted ferredoxin from Synechocystis sp. PCC6803, a mimic of the native protein.,Xu X, Scanu S, Chung JS, Hirasawa M, Knaff DB, Ubbink M Biochemistry. 2010 Sep 14;49(36):7790-7. PMID:20690702<ref>PMID:20690702</ref>

-	~~===NMR structure~~ of ~~gallium substituted ferredoxin===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_20690702}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[2kaj]] is a 1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Synechocystis_sp~~.~~_pcc_6803 Synechocystis sp. pcc 6803]. Full experimental information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2KAJ OCA].~~	+

	==See Also==		==See Also==
	*[[Ferredoxin\|Ferredoxin]]		*[[Ferredoxin\|Ferredoxin]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:020690702<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Synechocystis sp. pcc 6803]]		[[Category: Synechocystis sp. pcc 6803]]
	[[Category: Knaff, D B.]]		[[Category: Knaff, D B.]]

OCA at 19:27, 20 October 2012

OCA — Sat, 20 Oct 2012 19:27:43 GMT

←Older revision		Revision as of 19:27, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[2kaj]] is a 1 chain structure ~~of [[Ferredoxin]]~~ with sequence from [http://en.wikipedia.org/wiki/Synechocystis_sp._pcc_6803 Synechocystis sp. pcc 6803]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KAJ OCA].	+	[[2kaj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Synechocystis_sp._pcc_6803 Synechocystis sp. pcc 6803]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KAJ OCA].

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

OCA at 07:25, 27 July 2012

OCA — Fri, 27 Jul 2012 07:25:44 GMT

←Older revision		Revision as of 07:25, 27 July 2012
Line 1:		Line 1:
	[[Image:2kaj.png\|left\|200px]]		[[Image:2kaj.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2kaj", 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_2kaj\| PDB=2kaj \| SCENE= }}		{{STRUCTURE_2kaj\| PDB=2kaj \| SCENE= }}

	===NMR structure of gallium substituted ferredoxin===		===NMR structure of gallium substituted ferredoxin===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_20690702}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 20690702 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_20690702}}		{{ABSTRACT_PUBMED_20690702}}

Line 22:		Line 11:

	==See Also==		==See Also==
-	*[[Ferredoxin]]	+	*[[Ferredoxin\|Ferredoxin]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~20690702~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:020690702</ref><references group="xtra"/>
	[[Category: Synechocystis sp. pcc 6803]]		[[Category: Synechocystis sp. pcc 6803]]
	[[Category: Knaff, D B.]]		[[Category: Knaff, D B.]]
	[[Category: Ubbink, M.]]		[[Category: Ubbink, M.]]
	[[Category: Xu, X.]]		[[Category: Xu, X.]]
		+	[[Category: Electron transport]]
		+	[[Category: Ferredoxin]]
		+	[[Category: Iron]]
		+	[[Category: Iron-sulfur]]
		+	[[Category: Metal binding protein]]
		+	[[Category: Transport]]