3vm1 - Revision history

OCA at 12:26, 8 November 2023

2023-11-08T12:26:13Z

←Older revision		Revision as of 12:26, 8 November 2023
Line 3:		Line 3:
	<StructureSection load='3vm1' size='340' side='right'caption='[[3vm1]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='3vm1' size='340' side='right'caption='[[3vm1]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3vm1]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~American_tobacco American tobacco~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VM1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3VM1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3vm1]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Nicotiana_tabacum Nicotiana tabacum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VM1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3VM1 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BCT:BICARBONATE+ION'>BCT</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene>, <scene name='pdbligand=SRM:SIROHEME'>SRM</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;'>[[3b0g\|3b0g]], [[3vlx\|3vlx]], [[3vly\|3vly]], [[3vlz\|3vlz]], [[3vm0\|3vm0]]</div></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BCT:BICARBONATE+ION'>BCT</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene>, <scene name='pdbligand=SRM:SIROHEME'>SRM</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">nii3 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4097 American tobacco])</td></tr>	+
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Ferredoxin--nitrite_reductase Ferredoxin--nitrite reductase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.7.7.1 1.7.7.1] </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=3vm1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vm1 OCA], [https://pdbe.org/3vm1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3vm1 RCSB], [https://www.ebi.ac.uk/pdbsum/3vm1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3vm1 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=3vm1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vm1 OCA], [https://pdbe.org/3vm1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3vm1 RCSB], [https://www.ebi.ac.uk/pdbsum/3vm1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3vm1 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q76KB0_TOBAC Q76KB0_TOBAC]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 26:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: American tobacco]]
-	[[Category: Ferredoxin--nitrite reductase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Katayanagi, K]]	+	[[Category: Nicotiana tabacum]]
-	[[Category: Morikawa, H]]	+	[[Category: Katayanagi K]]
-	[[Category: Nakano, S]]	+	[[Category: Morikawa H]]
-	[[Category: Sakamoto, A]]	+	[[Category: Nakano S]]
-	[[Category: Takahashi, M]]	+	[[Category: Sakamoto A]]
-	~~[[Category: Alpha/beta domain]]~~	+	[[Category: Takahashi M]]
-	~~[[Category: Hco3 complex]]~~	+
-	~~[[Category: Nii3 n226k mutant]]~~	+
-	~~[[Category: Oxidoreductase]]~~	+
-	~~[[Category: Reductase~~]]	+

OCA at 18:52, 27 July 2022

2022-07-27T18:52:24Z

←Older revision		Revision as of 18:52, 27 July 2022
Line 1:		Line 1:

	==assimilatory nitrite reductase (Nii3) - N226K mutant - HCO3 complex from tobacco leaf==		==assimilatory nitrite reductase (Nii3) - N226K mutant - HCO3 complex from tobacco leaf==
-	<StructureSection load='3vm1' size='340' side='right' caption='[[3vm1]], [[Resolution\|resolution]] 1.50Å' scene=''>	+	<StructureSection load='3vm1' size='340' side='right'caption='[[3vm1]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3vm1]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/American_tobacco American tobacco]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VM1 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3VM1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3vm1]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/American_tobacco American tobacco]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VM1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3VM1 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BCT:BICARBONATE+ION'>BCT</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene>, <scene name='pdbligand=SRM:SIROHEME'>SRM</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BCT:BICARBONATE+ION'>BCT</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene>, <scene name='pdbligand=SRM:SIROHEME'>SRM</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3b0g\|3b0g]], [[3vlx\|3vlx]], [[3vly\|3vly]], [[3vlz\|3vlz]], [[3vm0\|3vm0]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3b0g\|3b0g]], [[3vlx\|3vlx]], [[3vly\|3vly]], [[3vlz\|3vlz]], [[3vm0\|3vm0]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">nii3 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4097 American tobacco])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">nii3 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4097 American tobacco])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Ferredoxin--nitrite_reductase Ferredoxin--nitrite reductase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.7.7.1 1.7.7.1] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Ferredoxin--nitrite_reductase Ferredoxin--nitrite reductase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.7.7.1 1.7.7.1] </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=3vm1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vm1 OCA], [~~http~~://pdbe.org/3vm1 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3vm1 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3vm1 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3vm1 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=3vm1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vm1 OCA], [https://pdbe.org/3vm1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3vm1 RCSB], [https://www.ebi.ac.uk/pdbsum/3vm1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3vm1 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 19:		Line 19:
	</div>		</div>
	<div class="pdbe-citations 3vm1" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 3vm1" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Nitrite reductase 3D structures\|Nitrite reductase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 25:		Line 28:
	[[Category: American tobacco]]		[[Category: American tobacco]]
	[[Category: Ferredoxin--nitrite reductase]]		[[Category: Ferredoxin--nitrite reductase]]
		+	[[Category: Large Structures]]
	[[Category: Katayanagi, K]]		[[Category: Katayanagi, K]]
	[[Category: Morikawa, H]]		[[Category: Morikawa, H]]

OCA at 18:58, 11 August 2016

2016-08-11T18:58:51Z

←Older revision		Revision as of 18:58, 11 August 2016
Line 1:		Line 1:
		+
	==assimilatory nitrite reductase (Nii3) - N226K mutant - HCO3 complex from tobacco leaf==		==assimilatory nitrite reductase (Nii3) - N226K mutant - HCO3 complex from tobacco leaf==
	<StructureSection load='3vm1' size='340' side='right' caption='[[3vm1]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='3vm1' size='340' side='right' caption='[[3vm1]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3vm1]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Nicotiana_tabacum Nicotiana tabacum~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VM1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3VM1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3vm1]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/American_tobacco American tobacco]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VM1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3VM1 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BCT:BICARBONATE+ION'>BCT</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene>, <scene name='pdbligand=SRM:SIROHEME'>SRM</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BCT:BICARBONATE+ION'>BCT</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene>, <scene name='pdbligand=SRM:SIROHEME'>SRM</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3b0g\|3b0g]], [[3vlx\|3vlx]], [[3vly\|3vly]], [[3vlz\|3vlz]], [[3vm0\|3vm0]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3b0g\|3b0g]], [[3vlx\|3vlx]], [[3vly\|3vly]], [[3vlz\|3vlz]], [[3vm0\|3vm0]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">nii3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4097 ~~Nicotiana tabacum~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">nii3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4097 American tobacco])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ferredoxin--nitrite_reductase Ferredoxin--nitrite reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.7.7.1 1.7.7.1] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ferredoxin--nitrite_reductase Ferredoxin--nitrite reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.7.7.1 1.7.7.1] </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=3vm1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vm1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3vm1 RCSB], [http://www.ebi.ac.uk/pdbsum/3vm1 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=3vm1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vm1 OCA], [http://pdbe.org/3vm1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3vm1 RCSB], [http://www.ebi.ac.uk/pdbsum/3vm1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3vm1 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 17:		Line 18:
	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 3vm1" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: American tobacco]]
	[[Category: Ferredoxin--nitrite reductase]]		[[Category: Ferredoxin--nitrite reductase]]
-	[[Category: Nicotiana tabacum]]
	[[Category: Katayanagi, K]]		[[Category: Katayanagi, K]]
	[[Category: Morikawa, H]]		[[Category: Morikawa, H]]

OCA at 10:36, 4 January 2015

2015-01-04T10:36:34Z

←Older revision		Revision as of 10:36, 4 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3vm1]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Nicotiana_tabacum Nicotiana tabacum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VM1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3VM1 FirstGlance]. <br>		<table><tr><td colspan='2'>[[3vm1]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Nicotiana_tabacum Nicotiana tabacum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VM1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3VM1 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BCT:BICARBONATE+ION'>BCT</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene>, <scene name='pdbligand=SRM:SIROHEME'>SRM</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BCT:BICARBONATE+ION'>BCT</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene>, <scene name='pdbligand=SRM:SIROHEME'>SRM</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3b0g\|3b0g]], [[3vlx\|3vlx]], [[3vly\|3vly]], [[3vlz\|3vlz]], [[3vm0\|3vm0]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3b0g\|3b0g]], [[3vlx\|3vlx]], [[3vly\|3vly]], [[3vlz\|3vlz]], [[3vm0\|3vm0]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">nii3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4097 Nicotiana tabacum])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">nii3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4097 Nicotiana tabacum])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ferredoxin--nitrite_reductase Ferredoxin--nitrite reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.7.7.1 1.7.7.1] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ferredoxin--nitrite_reductase Ferredoxin--nitrite reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.7.7.1 1.7.7.1] </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=3vm1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vm1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3vm1 RCSB], [http://www.ebi.ac.uk/pdbsum/3vm1 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=3vm1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vm1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3vm1 RCSB], [http://www.ebi.ac.uk/pdbsum/3vm1 PDBsum]</span></td></tr>
-	<table>	+	</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 23:		Line 23:
	[[Category: Ferredoxin--nitrite reductase]]		[[Category: Ferredoxin--nitrite reductase]]
	[[Category: Nicotiana tabacum]]		[[Category: Nicotiana tabacum]]
-	[[Category: Katayanagi, K.]]	+	[[Category: Katayanagi, K]]
-	[[Category: Morikawa, H.]]	+	[[Category: Morikawa, H]]
-	[[Category: Nakano, S.]]	+	[[Category: Nakano, S]]
-	[[Category: Sakamoto, A.]]	+	[[Category: Sakamoto, A]]
-	[[Category: Takahashi, M.]]	+	[[Category: Takahashi, M]]
-	[[Category: ~~3 alpha~~/beta domain]]	+	[[Category: Alpha/beta domain]]
	[[Category: Hco3 complex]]		[[Category: Hco3 complex]]
	[[Category: Nii3 n226k mutant]]		[[Category: Nii3 n226k mutant]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]
	[[Category: Reductase]]		[[Category: Reductase]]

OCA at 09:11, 2 July 2014

2014-07-02T09:11:10Z

←Older revision		Revision as of 09:11, 2 July 2014
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-	[[~~Image:~~3vm1.~~jpg~~\|~~left~~\|~~200px~~]]	+	==assimilatory nitrite reductase (Nii3) - N226K mutant - HCO3 complex from tobacco leaf==
		+	<StructureSection load='3vm1' size='340' side='right' caption='[[3vm1]], [[Resolution\|resolution]] 1.50Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3vm1]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Nicotiana_tabacum Nicotiana tabacum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VM1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3VM1 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BCT:BICARBONATE+ION'>BCT</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene>, <scene name='pdbligand=SRM:SIROHEME'>SRM</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3b0g\|3b0g]], [[3vlx\|3vlx]], [[3vly\|3vly]], [[3vlz\|3vlz]], [[3vm0\|3vm0]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">nii3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4097 Nicotiana tabacum])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ferredoxin--nitrite_reductase Ferredoxin--nitrite reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.7.7.1 1.7.7.1] </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=3vm1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vm1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3vm1 RCSB], [http://www.ebi.ac.uk/pdbsum/3vm1 PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Assimilatory nitrite reductase (aNiR) reduces nitrite ions (NO$\rm{{_{2}^{-}}}$) to ammonium ions (NH$\rm{{_{4}^{+}}}$), whereas assimilatory sulfite reductase reduces sulfite (SO$\rm{{_{3}^{2-}}}$) to hydrogen sulfide (HS(-) ). Although aNiR can also reduce SO$\rm{{_{3}^{2-}}}$, its activity is much lower than when NO$\rm{{_{2}^{-}}}$ is reduced as the substrate. To increase the SO$\rm{{_{3}^{2-}}}$-reduction activity of aNiR, we performed a N226K mutation of Nii3, a representative aNiR. The resulting Nii3-N226K variant could bind non-native targets, SO$\rm{{_{3}^{2-}}}$, and HCO$\rm{{_{3}^{-}}}$, in addition to its native target, i.e., NO$\rm{{_{2}^{-}}}$. We have determined the high-resolution structure of Nii3-N226K in its apo-state and in complex with SO$\rm{{_{3}^{2-}}}$, NO$\rm{{_{2}^{-}}}$, and HCO$\rm{{_{3}^{-}}}$. This analysis revealed conformational changes of Lys226 and the adjacent Lys224 upon binding of SO$\rm{{_{3}^{2-}}}$, but not NO$\rm{{_{2}^{-}}}$. In contrast, HCO$\rm{{_{3}^{-}}}$ binding induced a conformational change at Arg179. After replacing Asn226 with a positively charged Lys, aNiR showed affinity for several anions. A comparison of all ligand-bound structures for Nii3-N226K revealed that structural changes in the active site depend on the size of the substrate.

-	~~{{STRUCTURE_3vm1\| PDB=3vm1 \| SCENE= }}~~	+	X-ray crystal structure of a mutant assimilatory nitrite reductase that shows sulfite reductase-like activity.,Nakano S, Takahashi M, Sakamoto A, Morikawa H, Katayanagi K Chem Biodivers. 2012 Sep;9(9):1989-99. doi: 10.1002/cbdv.201100442. PMID:22976986<ref>PMID:22976986</ref>

-	~~===assimilatory nitrite reductase (Nii3) - N226K mutant - HCO3 complex from tobacco leaf===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_22976986}}~~	+	== References ==
-		+	<references/>
-	==~~About this Structure~~==	+	__TOC__
-	~~[[3vm1]] is a 1 chain structure with sequence from [http:~~//~~en.wikipedia.org/wiki/Nicotiana_tabacum Nicotiana tabacum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VM1 OCA].~~	+	</StructureSection>
	[[Category: Ferredoxin--nitrite reductase]]		[[Category: Ferredoxin--nitrite reductase]]
	[[Category: Nicotiana tabacum]]		[[Category: Nicotiana tabacum]]

OCA at 20:37, 26 September 2012

2012-09-26T20:37:48Z

←Older revision		Revision as of 20:37, 26 September 2012
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-	~~'''Unreleased structure'''~~	+	[[Image:3vm1.jpg\|left\|200px]]

-	~~The entry~~ 3vm1 ~~is ON HOLD~~ ~~until Paper Publication~~	+	{{STRUCTURE_3vm1\| PDB=3vm1 \| SCENE= }}

-	~~Authors: Nakano, S., Takahashi, M., Sakamoto, A., Morikawa, H., Katayanagi, K.~~	+	===assimilatory nitrite reductase (Nii3) - N226K mutant - HCO3 complex from tobacco leaf===

-	~~Description~~: ~~assimilatory~~ nitrite reductase (Nii3~~) -N226K~~ mutant ~~-HCO3 complex from tobacco leaf~~	+	{{ABSTRACT_PUBMED_22976986}}
		+
		+	==About this Structure==
		+	[[3vm1]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Nicotiana_tabacum Nicotiana tabacum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VM1 OCA].
		+	[[Category: Ferredoxin--nitrite reductase]]
		+	[[Category: Nicotiana tabacum]]
		+	[[Category: Katayanagi, K.]]
		+	[[Category: Morikawa, H.]]
		+	[[Category: Nakano, S.]]
		+	[[Category: Sakamoto, A.]]
		+	[[Category: Takahashi, M.]]
		+	[[Category: 3 alpha/beta domain]]
		+	[[Category: Hco3 complex]]
		+	[[Category: Nii3 n226k mutant]]
		+	[[Category: Oxidoreductase]]
		+	[[Category: Reductase]]

OCA at 06:05, 8 February 2012

2012-02-08T06:05:41Z

←Older revision		Revision as of 06:05, 8 February 2012
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 3vm1 is ON HOLD	+	The entry 3vm1 is ON HOLD until Paper Publication

	Authors: Nakano, S., Takahashi, M., Sakamoto, A., Morikawa, H., Katayanagi, K.		Authors: Nakano, S., Takahashi, M., Sakamoto, A., Morikawa, H., Katayanagi, K.

	Description: assimilatory nitrite reductase (Nii3) -N226K mutant -HCO3 complex from tobacco leaf		Description: assimilatory nitrite reductase (Nii3) -N226K mutant -HCO3 complex from tobacco leaf

OCA at 06:56, 28 December 2011

2011-12-28T06:56:48Z

←Older revision		Revision as of 06:56, 28 December 2011
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	The entry 3vm1 is ON HOLD		The entry 3vm1 is ON HOLD

-	Authors: Nakano, S., Takahashi, M, Sakamoto, A., Morikawa, H., Katayanagi, K.	+	Authors: Nakano, S., Takahashi, M., Sakamoto, A., Morikawa, H., Katayanagi, K.

-	Description: assimilatory nitrite reductase (Nii3) -N226K mutant -HCO3 complex from ~~tobbaco~~ leaf	+	Description: assimilatory nitrite reductase (Nii3) -N226K mutant -HCO3 complex from tobacco leaf

OCA: Protected "3vm1" [edit=sysop:move=sysop]

2011-12-14T11:19:49Z

Protected "3vm1" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:19, 14 December 2011

OCA: New page: '''Unreleased structure''' The entry 3vm1 is ON HOLD Authors: Nakano, S., Takahashi, M, Sakamoto, A., Morikawa, H., Katayanagi, K. Description: assimilatory nitrite reductase (Nii3) -N...

2011-12-14T11:19:46Z

New page: '''Unreleased structure''' The entry 3vm1 is ON HOLD Authors: Nakano, S., Takahashi, M, Sakamoto, A., Morikawa, H., Katayanagi, K. Description: assimilatory nitrite reductase (Nii3) -N...

New page

'''Unreleased structure'''

The entry 3vm1 is ON HOLD

Authors: Nakano, S., Takahashi, M, Sakamoto, A., Morikawa, H., Katayanagi, K.

Description: assimilatory nitrite reductase (Nii3) -N226K mutant -HCO3 complex from tobbaco leaf