3bng - Revision history

OCA at 14:48, 1 November 2023

OCA — Wed, 01 Nov 2023 14:48:14 GMT

←Older revision		Revision as of 14:48, 1 November 2023
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	<StructureSection load='3bng' size='340' side='right'caption='[[3bng]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='3bng' size='340' side='right'caption='[[3bng]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3bng]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Atcc_29543 Atcc 29543~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BNG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BNG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3bng]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Wolinella_succinogenes Wolinella succinogenes]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BNG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BNG FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=Y1:YTTRIUM+ION'>Y1</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='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1fs7\|1fs7]], [[3bnf\|3bnf]], [[3bnh\|3bnh]], [[3bnj\|3bnj]]</div></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=Y1:YTTRIUM+ION'>Y1</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">nrfA Y218F ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=844 ATCC 29543])</td></tr>	+
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Nitrite_reductase_(cytochrome;_ammonia-forming) Nitrite reductase (cytochrome; ammonia-forming)], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.7.2.2 1.7.2.2] </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=3bng FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bng OCA], [https://pdbe.org/3bng PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3bng RCSB], [https://www.ebi.ac.uk/pdbsum/3bng PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3bng 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=3bng FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bng OCA], [https://pdbe.org/3bng PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3bng RCSB], [https://www.ebi.ac.uk/pdbsum/3bng PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3bng ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/NRFA_WOLSU NRFA_WOLSU]] Plays a role in nitrite reduction.<ref>PMID:10672190</ref>	+	[https://www.uniprot.org/uniprot/NRFA_WOLSU NRFA_WOLSU] Plays a role in nitrite reduction.<ref>PMID:10672190</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 34:		Line 32:
	==See Also==		==See Also==
	*[[Cytochrome c nitrite reductase\|Cytochrome c nitrite reductase]]		*[[Cytochrome c nitrite reductase\|Cytochrome c nitrite reductase]]
-	*[[Nitrite reductase 3D structures\|Nitrite reductase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Atcc 29543]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Einsle, O~~]]	+	[[Category: Wolinella succinogenes]]
-	[[Category: ~~Lukat, P~~]]	+	[[Category: Einsle O]]
-	[[Category: ~~C-type cytochrome]]~~	+	[[Category: Lukat P]]
-	~~[[Category: Calcium]]~~	+
-	~~[[Category: Electron transport]]~~	+
-	~~[[Category: Heme]]~~	+
-	~~[[Category: Iron]]~~	+
-	~~[[Category: Metal-binding]]~~	+
-	~~[[Category: Nitrite reductase]]~~	+
-	~~[[Category: Oxidoreductase]]~~	+
-	~~[[Category: Periplasm]]~~	+
-	~~[[Category: Transport~~]]	+

OCA at 07:27, 10 November 2021

OCA — Wed, 10 Nov 2021 07:27:41 GMT

←Older revision		Revision as of 07:27, 10 November 2021
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	==W. succinogenes NrfA Y218F==		==W. succinogenes NrfA Y218F==
-	<StructureSection load='3bng' size='340' side='right' caption='[[3bng]], [[Resolution\|resolution]] 1.50Å' scene=''>	+	<StructureSection load='3bng' size='340' side='right'caption='[[3bng]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3bng]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Atcc_29543 Atcc 29543]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BNG OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3BNG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3bng]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_29543 Atcc 29543]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BNG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BNG FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=Y1:YTTRIUM+ION'>Y1</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=Y1:YTTRIUM+ION'>Y1</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1fs7\|1fs7]], [[3bnf\|3bnf]], [[3bnh\|3bnh]], [[3bnj\|3bnj]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1fs7\|1fs7]], [[3bnf\|3bnf]], [[3bnh\|3bnh]], [[3bnj\|3bnj]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">nrfA Y218F ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=844 ATCC 29543])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">nrfA Y218F ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=844 ATCC 29543])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Nitrite_reductase_(cytochrome;_ammonia-forming) Nitrite reductase (cytochrome; ammonia-forming)], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.7.2.2 1.7.2.2] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Nitrite_reductase_(cytochrome;_ammonia-forming) Nitrite reductase (cytochrome; ammonia-forming)], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.7.2.2 1.7.2.2] </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=3bng FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bng OCA], [~~http~~://pdbe.org/3bng PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3bng RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3bng PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3bng 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=3bng FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bng OCA], [https://pdbe.org/3bng PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3bng RCSB], [https://www.ebi.ac.uk/pdbsum/3bng PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3bng ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/NRFA_WOLSU NRFA_WOLSU]] Plays a role in nitrite reduction.<ref>PMID:10672190</ref>	+	[[https://www.uniprot.org/uniprot/NRFA_WOLSU NRFA_WOLSU]] Plays a role in nitrite reduction.<ref>PMID:10672190</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 33:		Line 33:

	==See Also==		==See Also==
-	*[[Nitrite reductase\|Nitrite reductase]]	+	*[[Cytochrome c nitrite reductase\|Cytochrome c nitrite reductase]]
		+	*[[Nitrite reductase 3D structures\|Nitrite reductase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 39:		Line 40:
	</StructureSection>		</StructureSection>
	[[Category: Atcc 29543]]		[[Category: Atcc 29543]]
		+	[[Category: Large Structures]]
	[[Category: Einsle, O]]		[[Category: Einsle, O]]
	[[Category: Lukat, P]]		[[Category: Lukat, P]]

OCA at 08:08, 31 October 2018

OCA — Wed, 31 Oct 2018 08:08:33 GMT

←Older revision		Revision as of 08:08, 31 October 2018
Line 16:		Line 16:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bn/3bng_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bn/3bng_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 33:

	==See Also==		==See Also==
-	*[[~~Nitric~~ reductase\|~~Nitric~~ reductase]]	+	*[[Nitrite reductase\|Nitrite reductase]]
	== References ==		== References ==
	<references/>		<references/>
Line 42:		Line 42:
	[[Category: Lukat, P]]		[[Category: Lukat, P]]
	[[Category: C-type cytochrome]]		[[Category: C-type cytochrome]]
		+	[[Category: Calcium]]
	[[Category: Electron transport]]		[[Category: Electron transport]]
	[[Category: Heme]]		[[Category: Heme]]
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	[[Category: Nitrite reductase]]		[[Category: Nitrite reductase]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]
		+	[[Category: Periplasm]]
	[[Category: Transport]]		[[Category: Transport]]

OCA at 07:30, 5 August 2016

OCA — Fri, 05 Aug 2016 07:30:16 GMT

←Older revision		Revision as of 07:30, 5 August 2016
Line 1:		Line 1:
		+
	==W. succinogenes NrfA Y218F==		==W. succinogenes NrfA Y218F==
	<StructureSection load='3bng' size='340' side='right' caption='[[3bng]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='3bng' size='340' side='right' caption='[[3bng]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3bng]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Wolinella_succinogenes Wolinella succinogenes~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BNG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3BNG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3bng]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_29543 Atcc 29543]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BNG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3BNG FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=Y1:YTTRIUM+ION'>Y1</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=Y1:YTTRIUM+ION'>Y1</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1fs7\|1fs7]], [[3bnf\|3bnf]], [[3bnh\|3bnh]], [[3bnj\|3bnj]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1fs7\|1fs7]], [[3bnf\|3bnf]], [[3bnh\|3bnh]], [[3bnj\|3bnj]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">nrfA Y218F ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=844 ~~Wolinella succinogenes~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">nrfA Y218F ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=844 ATCC 29543])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Nitrite_reductase_(cytochrome;_ammonia-forming) Nitrite reductase (cytochrome; ammonia-forming)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.7.2.2 1.7.2.2] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Nitrite_reductase_(cytochrome;_ammonia-forming) Nitrite reductase (cytochrome; ammonia-forming)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.7.2.2 1.7.2.2] </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=3bng FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bng OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3bng RCSB], [http://www.ebi.ac.uk/pdbsum/3bng 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=3bng FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bng OCA], [http://pdbe.org/3bng PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3bng RCSB], [http://www.ebi.ac.uk/pdbsum/3bng PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3bng ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 19:		Line 20:
	<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=3bng ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 29:		Line 30:
	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 3bng" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 36:		Line 38:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Wolinella succinogenes~~]]	+	[[Category: Atcc 29543]]
	[[Category: Einsle, O]]		[[Category: Einsle, O]]
	[[Category: Lukat, P]]		[[Category: Lukat, P]]

OCA at 16:54, 25 December 2014

OCA — Thu, 25 Dec 2014 16:54:07 GMT

←Older revision		Revision as of 16:54, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3bng]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Wolinella_succinogenes Wolinella succinogenes]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BNG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3BNG FirstGlance]. <br>		<table><tr><td colspan='2'>[[3bng]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Wolinella_succinogenes Wolinella succinogenes]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BNG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3BNG FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=Y1:YTTRIUM+ION'>Y1</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=Y1:YTTRIUM+ION'>Y1</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1fs7\|1fs7]], [[3bnf\|3bnf]], [[3bnh\|3bnh]], [[3bnj\|3bnj]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1fs7\|1fs7]], [[3bnf\|3bnf]], [[3bnh\|3bnh]], [[3bnj\|3bnj]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">nrfA Y218F ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=844 Wolinella succinogenes])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">nrfA Y218F ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=844 Wolinella succinogenes])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Nitrite_reductase_(cytochrome;_ammonia-forming) Nitrite reductase (cytochrome; ammonia-forming)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.7.2.2 1.7.2.2] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Nitrite_reductase_(cytochrome;_ammonia-forming) Nitrite reductase (cytochrome; ammonia-forming)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.7.2.2 1.7.2.2] </span></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=3bng FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bng OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3bng RCSB], [http://www.ebi.ac.uk/pdbsum/3bng 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=3bng FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bng OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3bng RCSB], [http://www.ebi.ac.uk/pdbsum/3bng PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/NRFA_WOLSU NRFA_WOLSU]] Plays a role in nitrite reduction.<ref>PMID:10672190</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 35:		Line 37:
	</StructureSection>		</StructureSection>
	[[Category: Wolinella succinogenes]]		[[Category: Wolinella succinogenes]]
-	[[Category: Einsle, O.]]	+	[[Category: Einsle, O]]
-	[[Category: Lukat, P.]]	+	[[Category: Lukat, P]]
	[[Category: C-type cytochrome]]		[[Category: C-type cytochrome]]
	[[Category: Electron transport]]		[[Category: Electron transport]]

OCA at 10:13, 29 September 2014

OCA — Mon, 29 Sep 2014 10:13:28 GMT

←Older revision		Revision as of 10:13, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~3bng.~~png~~\|~~left~~\|200px]]	+	==W. succinogenes NrfA Y218F==
		+	<StructureSection load='3bng' size='340' side='right' caption='[[3bng]], [[Resolution\|resolution]] 1.50Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3bng]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Wolinella_succinogenes Wolinella succinogenes]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BNG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3BNG FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=Y1:YTTRIUM+ION'>Y1</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1fs7\|1fs7]], [[3bnf\|3bnf]], [[3bnh\|3bnh]], [[3bnj\|3bnj]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">nrfA Y218F ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=844 Wolinella succinogenes])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Nitrite_reductase_(cytochrome;_ammonia-forming) Nitrite reductase (cytochrome; ammonia-forming)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.7.2.2 1.7.2.2] </span></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=3bng FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bng OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3bng RCSB], [http://www.ebi.ac.uk/pdbsum/3bng 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/bn/3bng_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 ==
		+	Pentaheme cytochrome c nitrite reductase (ccNiR) catalyzes the six-electron reduction of nitrite to ammonia as the final step in the dissimilatory pathway of nitrate ammonification. It has also been shown to reduce sulfite to sulfide, thus forming the only known link between the biogeochemical cycles of nitrogen and of sulfur. We have found the sulfite reductase activity of ccNiR from Wolinella succinogenes to be significantly smaller than its nitrite reductase activity but still several times higher than the one described for dissimilatory, siroheme-containing sulfite reductases. To compare the sulfite reductase activity of ccNiR with our previous data on nitrite reduction, we determined the binding mode of sulfite to the catalytic heme center of ccNiR from W. succinogenes at a resolution of 1.7 A. Sulfite and nitrite both provide a pair of electrons to form the coordinative bond to the Fe(III) active site of the enzyme, and the oxygen atoms of sulfite are found to interact with the three active site protein residues conserved within the enzyme family. Furthermore, we have characterized the active site variant Y218F of ccNiR that exhibited an almost complete loss of nitrite reductase activity, while sulfite reduction remained unaffected. These data provide a first direct insight into the role of the first sphere of protein ligands at the active site in ccNiR catalysis.

-	~~{{STRUCTURE_3bng\| PDB=3bng \| SCENE= }}~~	+	Binding and Reduction of Sulfite by Cytochrome c Nitrite Reductase(,).,Lukat P, Rudolf M, Stach P, Messerschmidt A, Kroneck PM, Simon J, Einsle O Biochemistry. 2008 Feb 19;47(7):2080-2086. Epub 2008 Jan 18. PMID:18201106<ref>PMID:18201106</ref>

-	~~===W. succinogenes NrfA Y218F===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_18201106}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[3bng]] is~~ a ~~1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Wolinella_succinogenes Wolinella succinogenes]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3BNG OCA].~~	+

	==See Also==		==See Also==
-	*[[Cytochrome c\|Cytochrome c]]
	*[[Nitric reductase\|Nitric reductase]]		*[[Nitric reductase\|Nitric reductase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:018201106<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Wolinella succinogenes]]		[[Category: Wolinella succinogenes]]
	[[Category: Einsle, O.]]		[[Category: Einsle, O.]]

OCA at 19:08, 20 October 2012

OCA — Sat, 20 Oct 2012 19:08:57 GMT

←Older revision		Revision as of 19:08, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[3bng]] is a 1 chain structure ~~of [[Cytochrome c]] and [[Nitric reductase]]~~ with sequence from [http://en.wikipedia.org/wiki/Wolinella_succinogenes Wolinella succinogenes]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BNG OCA].	+	[[3bng]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Wolinella_succinogenes Wolinella succinogenes]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BNG OCA].

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

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

OCA — Fri, 27 Jul 2012 06:26:16 GMT

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

←Older revision

Revision as of 06:26, 27 July 2012

OCA at 06:26, 27 July 2012

OCA — Fri, 27 Jul 2012 06:26:15 GMT

←Older revision		Revision as of 06:26, 27 July 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:3bng.png\|left\|200px]]		[[Image:3bng.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3bng", 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_3bng\| PDB=3bng \| SCENE= }}		{{STRUCTURE_3bng\| PDB=3bng \| SCENE= }}

	===W. succinogenes NrfA Y218F===		===W. succinogenes NrfA Y218F===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_18201106}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 18201106 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_18201106}}		{{ABSTRACT_PUBMED_18201106}}

	==About this Structure==		==About this Structure==
-	~~3BNG~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Wolinella_succinogenes Wolinella succinogenes]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BNG OCA].	+	[[3bng]] is a 1 chain structure of [[Cytochrome c]] and [[Nitric reductase]] with sequence from [http://en.wikipedia.org/wiki/Wolinella_succinogenes Wolinella succinogenes]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BNG OCA].
		+
		+	==See Also==
		+	*[[Cytochrome c\|Cytochrome c]]
		+	*[[Nitric reductase\|Nitric reductase]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~18201106~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:018201106</ref><references group="xtra"/>
	[[Category: Wolinella succinogenes]]		[[Category: Wolinella succinogenes]]
	[[Category: Einsle, O.]]		[[Category: Einsle, O.]]
	[[Category: Lukat, P.]]		[[Category: Lukat, P.]]
	[[Category: C-type cytochrome]]		[[Category: C-type cytochrome]]
-	[[Category: Calcium]]
	[[Category: Electron transport]]		[[Category: Electron transport]]
	[[Category: Heme]]		[[Category: Heme]]
Line 35:		Line 26:
	[[Category: Nitrite reductase]]		[[Category: Nitrite reductase]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]
-	[[Category: Periplasm]]
	[[Category: Transport]]		[[Category: Transport]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 22:21:47 2009''

OCA at 20:21, 17 February 2009

OCA — Tue, 17 Feb 2009 20:21:52 GMT

←Older revision		Revision as of 20:21, 17 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	3BNG is a ~~[[Single protein]]~~ structure of sequence from [http://en.wikipedia.org/wiki/Wolinella_succinogenes Wolinella succinogenes]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BNG OCA].	+	3BNG is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Wolinella_succinogenes Wolinella succinogenes]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BNG OCA].

	==Reference==		==Reference==
-	Binding and Reduction of Sulfite by Cytochrome c Nitrite Reductase(,)., Lukat P, Rudolf M, Stach P, Messerschmidt A, Kroneck PM, Simon J, Einsle O, Biochemistry. 2008 Feb 19;47(7):2080-2086. Epub 2008 Jan 18. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/18201106 18201106]~~	+	<ref group="xtra">PMID:18201106</ref><references group="xtra"/>
-	~~[[Category: Single protein]]~~	+
	[[Category: Wolinella succinogenes]]		[[Category: Wolinella succinogenes]]
	[[Category: Einsle, O.]]		[[Category: Einsle, O.]]
Line 39:		Line 38:
	[[Category: Transport]]		[[Category: Transport]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue ~~Jul 29 06~~:36:~~07 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 22:21:47 2009''