1neh - Revision history

OCA at 08:53, 22 May 2024

2024-05-22T08:53:38Z

←Older revision		Revision as of 08:53, 22 May 2024
Line 20:		Line 20:
	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1neh 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=1neh ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The NMR solution structure of the oxidized HiPIP from Chromatium vinosum has been solved. Despite the fact that the protein is paramagnetic, 85% of the 1H and 80% of the 15N signals have been assigned. Through 1537 NOEs, out of which 1142 were found to be relevant for the structure determination, a family of structures has been obtained by distance geometry calculations. These structures have then been subjected to restrained energy minimization (REM) and restrained molecular dynamics (RMD) calculations in vacuum. Finally, the mean structure of the RMD family has been treated through RMD in water. The RMSD values for the backbone and heavy atoms within the RMD family are 0.57 +/- 0.14 and 1.08 +/- 0.16 A, respectively. These values together with other parameters indicate that the structure is of good quality and as good as the structure of the reduced protein. The RMDw structures of the reduced and oxidized proteins are different beyond the experimental indetermination. The set of constraints for the reduced and oxidized forms have been used to treat the available X-ray structure by RMD in water. The two structures generated in this way are quite similar to their respective solution structures, thus confirming that the experimental constraints are capable of yielding two different structures from the same starting structural model. This is the first time that independently determined solution structures of two redox states of a paramagnetic protein are available. Differences between them and the X-ray structure are discussed.
		+
		+	Three-dimensional solution structure of the oxidized high potential iron-sulfur protein from Chromatium vinosum through NMR. Comparative analysis with the solution structure of the reduced species.,Bertini I, Dikiy A, Kastrau DH, Luchinat C, Sompornpisut P Biochemistry. 1995 Aug 8;34(31):9851-8. PMID:7632685<ref>PMID:7632685</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 1neh" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 08:48, 10 April 2024

2024-04-10T08:48:47Z

←Older revision		Revision as of 08:48, 10 April 2024
Line 1:		Line 1:

	==HIGH POTENTIAL IRON-SULFUR PROTEIN==		==HIGH POTENTIAL IRON-SULFUR PROTEIN==
-	<StructureSection load='1neh' size='340' side='right'caption='[[1neh~~]], [[NMR_Ensembles_of_Models \| 1 NMR models~~]]' scene=''>	+	<StructureSection load='1neh' size='340' side='right'caption='[[1neh]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1neh]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Allochromatium_vinosum Allochromatium vinosum]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NEH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1NEH FirstGlance]. <br>		<table><tr><td colspan='2'>[[1neh]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Allochromatium_vinosum Allochromatium vinosum]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NEH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1NEH FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</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=SF4:IRON/SULFUR+CLUSTER'>SF4</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=1neh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1neh OCA], [https://pdbe.org/1neh PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1neh RCSB], [https://www.ebi.ac.uk/pdbsum/1neh PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1neh 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=1neh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1neh OCA], [https://pdbe.org/1neh PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1neh RCSB], [https://www.ebi.ac.uk/pdbsum/1neh PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1neh ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/HIP_ALLVD HIP_ALLVD]] Specific class of high-redox-potential 4Fe-4S ferredoxins. Functions in anaerobic electron transport in most purple and in some other photosynthetic bacteria and in at least one genus (Paracoccus) of halophilic, denitrifying bacteria.	+	[https://www.uniprot.org/uniprot/HIP_ALLVD HIP_ALLVD] Specific class of high-redox-potential 4Fe-4S ferredoxins. Functions in anaerobic electron transport in most purple and in some other photosynthetic bacteria and in at least one genus (Paracoccus) of halophilic, denitrifying bacteria.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 19:		Line 20:
	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1neh 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=1neh ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The NMR solution structure of the oxidized HiPIP from Chromatium vinosum has been solved. Despite the fact that the protein is paramagnetic, 85% of the 1H and 80% of the 15N signals have been assigned. Through 1537 NOEs, out of which 1142 were found to be relevant for the structure determination, a family of structures has been obtained by distance geometry calculations. These structures have then been subjected to restrained energy minimization (REM) and restrained molecular dynamics (RMD) calculations in vacuum. Finally, the mean structure of the RMD family has been treated through RMD in water. The RMSD values for the backbone and heavy atoms within the RMD family are 0.57 +/- 0.14 and 1.08 +/- 0.16 A, respectively. These values together with other parameters indicate that the structure is of good quality and as good as the structure of the reduced protein. The RMDw structures of the reduced and oxidized proteins are different beyond the experimental indetermination. The set of constraints for the reduced and oxidized forms have been used to treat the available X-ray structure by RMD in water. The two structures generated in this way are quite similar to their respective solution structures, thus confirming that the experimental constraints are capable of yielding two different structures from the same starting structural model. This is the first time that independently determined solution structures of two redox states of a paramagnetic protein are available. Differences between them and the X-ray structure are discussed.
-
-	Three-dimensional solution structure of the oxidized high potential iron-sulfur protein from Chromatium vinosum through NMR. Comparative analysis with the solution structure of the reduced species.,Bertini I, Dikiy A, Kastrau DH, Luchinat C, Sompornpisut P Biochemistry. 1995 Aug 8;34(31):9851-8. PMID:7632685<ref>PMID:7632685</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1neh" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Allochromatium vinosum]]		[[Category: Allochromatium vinosum]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Bertini, I]]	+	[[Category: Bertini I]]
-	[[Category: Dikiy, A]]	+	[[Category: Dikiy A]]
-	[[Category: Kastrau~~, D H.W~~]]	+	[[Category: Kastrau DHW]]
-	[[Category: Luchinat, C]]	+	[[Category: Luchinat C]]
-	[[Category: Sompornpisut, P]]	+	[[Category: Sompornpisut P]]
-	~~[[Category: 4fe-4]]~~	+
-	~~[[Category: Electron transport]]~~	+
-	~~[[Category: Iron-sulfur~~]]	+

OCA at 07:01, 25 August 2021

2021-08-25T07:01:48Z

←Older revision		Revision as of 07:01, 25 August 2021
Line 3:		Line 3:
	<StructureSection load='1neh' size='340' side='right'caption='[[1neh]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>		<StructureSection load='1neh' size='340' side='right'caption='[[1neh]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1neh]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Allochromatium_vinosum Allochromatium vinosum]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NEH OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1NEH FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1neh]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Allochromatium_vinosum Allochromatium vinosum]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NEH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1NEH FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1neh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1neh OCA], [~~http~~://pdbe.org/1neh PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1neh RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1neh PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1neh 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=1neh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1neh OCA], [https://pdbe.org/1neh PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1neh RCSB], [https://www.ebi.ac.uk/pdbsum/1neh PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1neh ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/HIP_ALLVD HIP_ALLVD]] Specific class of high-redox-potential 4Fe-4S ferredoxins. Functions in anaerobic electron transport in most purple and in some other photosynthetic bacteria and in at least one genus (Paracoccus) of halophilic, denitrifying bacteria.	+	[[https://www.uniprot.org/uniprot/HIP_ALLVD HIP_ALLVD]] Specific class of high-redox-potential 4Fe-4S ferredoxins. Functions in anaerobic electron transport in most purple and in some other photosynthetic bacteria and in at least one genus (Paracoccus) of halophilic, denitrifying bacteria.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 18:51, 20 November 2019

2019-11-20T18:51:14Z

←Older revision		Revision as of 18:51, 20 November 2019
Line 1:		Line 1:

	==HIGH POTENTIAL IRON-SULFUR PROTEIN==		==HIGH POTENTIAL IRON-SULFUR PROTEIN==
-	<StructureSection load='1neh' size='340' side='right' caption='[[1neh]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>	+	<StructureSection load='1neh' size='340' side='right'caption='[[1neh]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1neh]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Allochromatium_vinosum Allochromatium vinosum]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NEH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1NEH FirstGlance]. <br>		<table><tr><td colspan='2'>[[1neh]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Allochromatium_vinosum Allochromatium vinosum]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NEH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1NEH FirstGlance]. <br>
Line 33:		Line 33:
	</StructureSection>		</StructureSection>
	[[Category: Allochromatium vinosum]]		[[Category: Allochromatium vinosum]]
		+	[[Category: Large Structures]]
	[[Category: Bertini, I]]		[[Category: Bertini, I]]
	[[Category: Dikiy, A]]		[[Category: Dikiy, A]]

OCA at 07:36, 7 February 2018

2018-02-07T07:36:57Z

←Older revision		Revision as of 07:36, 7 February 2018
Line 1:		Line 1:
		+
	==HIGH POTENTIAL IRON-SULFUR PROTEIN==		==HIGH POTENTIAL IRON-SULFUR PROTEIN==
	<StructureSection load='1neh' size='340' side='right' caption='[[1neh]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>		<StructureSection load='1neh' size='340' side='right' caption='[[1neh]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>
Line 4:		Line 5:
	<table><tr><td colspan='2'>[[1neh]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Allochromatium_vinosum Allochromatium vinosum]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NEH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1NEH FirstGlance]. <br>		<table><tr><td colspan='2'>[[1neh]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Allochromatium_vinosum Allochromatium vinosum]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NEH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1NEH FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1neh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1neh OCA], [http://pdbe.org/1neh PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1neh RCSB], [http://www.ebi.ac.uk/pdbsum/1neh 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=1neh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1neh OCA], [http://pdbe.org/1neh PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1neh RCSB], [http://www.ebi.ac.uk/pdbsum/1neh PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1neh ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 12:		Line 13:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ne/1neh_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ne/1neh_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 37:		Line 38:
	[[Category: Luchinat, C]]		[[Category: Luchinat, C]]
	[[Category: Sompornpisut, P]]		[[Category: Sompornpisut, P]]
		+	[[Category: 4fe-4]]
	[[Category: Electron transport]]		[[Category: Electron transport]]
	[[Category: Iron-sulfur]]		[[Category: Iron-sulfur]]

OCA at 03:53, 10 February 2016

2016-02-10T03:53:46Z

←Older revision		Revision as of 03:53, 10 February 2016
Line 16:		Line 16:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1neh ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 05:07, 11 September 2015

2015-09-11T05:07:25Z

←Older revision		Revision as of 05:07, 11 September 2015
Line 4:		Line 4:
	<table><tr><td colspan='2'>[[1neh]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Allochromatium_vinosum Allochromatium vinosum]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NEH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1NEH FirstGlance]. <br>		<table><tr><td colspan='2'>[[1neh]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Allochromatium_vinosum Allochromatium vinosum]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NEH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1NEH FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1neh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1neh OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1neh RCSB], [http://www.ebi.ac.uk/pdbsum/1neh 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=1neh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1neh OCA], [http://pdbe.org/1neh PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1neh RCSB], [http://www.ebi.ac.uk/pdbsum/1neh PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 26:		Line 26:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 1neh" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 11:36, 25 December 2014

2014-12-25T11:36:50Z

←Older revision		Revision as of 11:36, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1neh]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Allochromatium_vinosum Allochromatium vinosum]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NEH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1NEH FirstGlance]. <br>		<table><tr><td colspan='2'>[[1neh]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Allochromatium_vinosum Allochromatium vinosum]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NEH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1NEH FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene></td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1neh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1neh OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1neh RCSB], [http://www.ebi.ac.uk/pdbsum/1neh 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=1neh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1neh OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1neh RCSB], [http://www.ebi.ac.uk/pdbsum/1neh PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/HIP_ALLVD HIP_ALLVD]] Specific class of high-redox-potential 4Fe-4S ferredoxins. Functions in anaerobic electron transport in most purple and in some other photosynthetic bacteria and in at least one genus (Paracoccus) of halophilic, denitrifying bacteria.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 29:		Line 31:
	</StructureSection>		</StructureSection>
	[[Category: Allochromatium vinosum]]		[[Category: Allochromatium vinosum]]
-	[[Category: Bertini, I.]]	+	[[Category: Bertini, I]]
-	[[Category: Dikiy, A.]]	+	[[Category: Dikiy, A]]
-	[[Category: Kastrau, D H.W.]]	+	[[Category: Kastrau, D H.W]]
-	[[Category: Luchinat, C.]]	+	[[Category: Luchinat, C]]
-	[[Category: Sompornpisut, P.]]	+	[[Category: Sompornpisut, P]]
	[[Category: Electron transport]]		[[Category: Electron transport]]
	[[Category: Iron-sulfur]]		[[Category: Iron-sulfur]]

OCA at 13:32, 28 September 2014

2014-09-28T13:32:50Z

←Older revision		Revision as of 13:32, 28 September 2014
Line 1:		Line 1:
-	[[~~Image~~:1neh.~~png\|left~~\|200px]]	+	==HIGH POTENTIAL IRON-SULFUR PROTEIN==
		+	<StructureSection load='1neh' size='340' side='right' caption='[[1neh]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1neh]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Allochromatium_vinosum Allochromatium vinosum]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NEH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1NEH FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene><br>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1neh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1neh OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1neh RCSB], [http://www.ebi.ac.uk/pdbsum/1neh 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/ne/1neh_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 ==
		+	The NMR solution structure of the oxidized HiPIP from Chromatium vinosum has been solved. Despite the fact that the protein is paramagnetic, 85% of the 1H and 80% of the 15N signals have been assigned. Through 1537 NOEs, out of which 1142 were found to be relevant for the structure determination, a family of structures has been obtained by distance geometry calculations. These structures have then been subjected to restrained energy minimization (REM) and restrained molecular dynamics (RMD) calculations in vacuum. Finally, the mean structure of the RMD family has been treated through RMD in water. The RMSD values for the backbone and heavy atoms within the RMD family are 0.57 +/- 0.14 and 1.08 +/- 0.16 A, respectively. These values together with other parameters indicate that the structure is of good quality and as good as the structure of the reduced protein. The RMDw structures of the reduced and oxidized proteins are different beyond the experimental indetermination. The set of constraints for the reduced and oxidized forms have been used to treat the available X-ray structure by RMD in water. The two structures generated in this way are quite similar to their respective solution structures, thus confirming that the experimental constraints are capable of yielding two different structures from the same starting structural model. This is the first time that independently determined solution structures of two redox states of a paramagnetic protein are available. Differences between them and the X-ray structure are discussed.

-	~~{{STRUCTURE_1neh\| PDB=1neh \| SCENE= }}~~	+	Three-dimensional solution structure of the oxidized high potential iron-sulfur protein from Chromatium vinosum through NMR. Comparative analysis with the solution structure of the reduced species.,Bertini I, Dikiy A, Kastrau DH, Luchinat C, Sompornpisut P Biochemistry. 1995 Aug 8;34(31):9851-8. PMID:7632685<ref>PMID:7632685</ref>

-	~~===HIGH POTENTIAL IRON-SULFUR PROTEIN===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_7632685}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[1neh]] is~~ a ~~1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Allochromatium_vinosum Allochromatium vinosum]~~. ~~Full experimental information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1NEH OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:007632685<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Allochromatium vinosum]]		[[Category: Allochromatium vinosum]]
	[[Category: Bertini, I.]]		[[Category: Bertini, I.]]

OCA: Protected "1neh" [edit=sysop:move=sysop]

2012-12-05T20:26:50Z

Protected "1neh" [edit=sysop:move=sysop]

←Older revision

Revision as of 20:26, 5 December 2012