2vn3 - Revision history

OCA at 15:25, 13 December 2023

OCA — Wed, 13 Dec 2023 15:25:38 GMT

←Older revision		Revision as of 15:25, 13 December 2023
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	<StructureSection load='2vn3' size='340' side='right'caption='[[2vn3]], [[Resolution\|resolution]] 2.35Å' scene=''>		<StructureSection load='2vn3' size='340' side='right'caption='[[2vn3]], [[Resolution\|resolution]] 2.35Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2vn3]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"achromobacter_xylosoxidans"_yabuuchi_and_ohyama_1971 "achromobacter~~ xylosoxidans~~" yabuuchi and ohyama 1971~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VN3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2VN3 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2vn3]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Achromobacter_xylosoxidans Achromobacter xylosoxidans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VN3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2VN3 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 2.35Å</td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1gs8\|1gs8]], [[2vm3\|2vm3]], [[1oe2\|1oe2]], [[1gs7\|1gs7]], [[1wa1\|1wa1]], [[2bp8\|2bp8]], [[1oe1\|1oe1]], [[1wa2\|1wa2]], [[2bp0\|2bp0]], [[1haw\|1haw]], [[1ndt\|1ndt]], [[1wae\|1wae]], [[1oe3\|1oe3]], [[2jfc\|2jfc]], [[1gs6\|1gs6]], [[1hau\|1hau]], [[2bo0\|2bo0]], [[1bq5\|1bq5]], [[2vmj\|2vmj]], [[2vm4\|2vm4]], [[1wa0\|1wa0]]</div></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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=2vn3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vn3 OCA], [https://pdbe.org/2vn3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2vn3 RCSB], [https://www.ebi.ac.uk/pdbsum/2vn3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2vn3 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=2vn3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vn3 OCA], [https://pdbe.org/2vn3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2vn3 RCSB], [https://www.ebi.ac.uk/pdbsum/2vn3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2vn3 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/O68601_ALCXX O68601_ALCXX]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 34:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Achromobacter xylosoxidans ~~yabuuchi and ohyama 1971~~]]	+	[[Category: Achromobacter xylosoxidans]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Banfield~~, M J~~]]	+	[[Category: Banfield MJ]]
-	[[Category: Dennison, C]]	+	[[Category: Dennison C]]
-	[[Category: Firbank~~, S J~~]]	+	[[Category: Firbank SJ]]
-	[[Category: Li, C]]	+	[[Category: Li C]]
-	[[Category: Sato, K]]	+	[[Category: Sato K]]
-	~~[[Category: Copper-containing nitrite reductase]]~~	+
-	~~[[Category: Cupredoxin]]~~	+
-	~~[[Category: Electron transfer]]~~	+
-	~~[[Category: Oxidoreductase]]~~	+
-	~~[[Category: Type 1 copper]]~~	+
-	~~[[Category: Type 2 copper~~]]	+

OCA at 11:41, 30 March 2022

OCA — Wed, 30 Mar 2022 11:41:05 GMT

←Older revision		Revision as of 11:41, 30 March 2022
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	<StructureSection load='2vn3' size='340' side='right'caption='[[2vn3]], [[Resolution\|resolution]] 2.35Å' scene=''>		<StructureSection load='2vn3' size='340' side='right'caption='[[2vn3]], [[Resolution\|resolution]] 2.35Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2vn3]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"achromobacter_xylosoxidans"_yabuuchi_and_ohyama_1971 "achromobacter xylosoxidans" yabuuchi and ohyama 1971]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VN3 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=2VN3 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2vn3]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/"achromobacter_xylosoxidans"_yabuuchi_and_ohyama_1971 "achromobacter xylosoxidans" yabuuchi and ohyama 1971]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VN3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2VN3 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1gs8\|1gs8]], [[2vm3\|2vm3]], [[1oe2\|1oe2]], [[1gs7\|1gs7]], [[1wa1\|1wa1]], [[2bp8\|2bp8]], [[1oe1\|1oe1]], [[1wa2\|1wa2]], [[2bp0\|2bp0]], [[1haw\|1haw]], [[1ndt\|1ndt]], [[1wae\|1wae]], [[1oe3\|1oe3]], [[2jfc\|2jfc]], [[1gs6\|1gs6]], [[1hau\|1hau]], [[2bo0\|2bo0]], [[1bq5\|1bq5]], [[2vmj\|2vmj]], [[2vm4\|2vm4]], [[1wa0\|1wa0]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1gs8\|1gs8]], [[2vm3\|2vm3]], [[1oe2\|1oe2]], [[1gs7\|1gs7]], [[1wa1\|1wa1]], [[2bp8\|2bp8]], [[1oe1\|1oe1]], [[1wa2\|1wa2]], [[2bp0\|2bp0]], [[1haw\|1haw]], [[1ndt\|1ndt]], [[1wae\|1wae]], [[1oe3\|1oe3]], [[2jfc\|2jfc]], [[1gs6\|1gs6]], [[1hau\|1hau]], [[2bo0\|2bo0]], [[1bq5\|1bq5]], [[2vmj\|2vmj]], [[2vm4\|2vm4]], [[1wa0\|1wa0]]</div></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=2vn3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vn3 OCA], [~~http~~://pdbe.org/2vn3 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2vn3 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2vn3 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2vn3 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=2vn3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vn3 OCA], [https://pdbe.org/2vn3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2vn3 RCSB], [https://www.ebi.ac.uk/pdbsum/2vn3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2vn3 ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==

OCA at 08:12, 25 June 2020

OCA — Thu, 25 Jun 2020 08:12:02 GMT

←Older revision		Revision as of 08:12, 25 June 2020
Line 1:		Line 1:

	==Nitrite Reductase from Alcaligenes xylosoxidans==		==Nitrite Reductase from Alcaligenes xylosoxidans==
-	<StructureSection load='2vn3' size='340' side='right' caption='[[2vn3]], [[Resolution\|resolution]] 2.35Å' scene=''>	+	<StructureSection load='2vn3' size='340' side='right'caption='[[2vn3]], [[Resolution\|resolution]] 2.35Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2vn3]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"achromobacter_xylosoxidans"_yabuuchi_and_ohyama_1971 "achromobacter xylosoxidans" yabuuchi and ohyama 1971]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VN3 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2VN3 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2vn3]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"achromobacter_xylosoxidans"_yabuuchi_and_ohyama_1971 "achromobacter xylosoxidans" yabuuchi and ohyama 1971]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VN3 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2VN3 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1gs8\|1gs8]], [[2vm3\|2vm3]], [[1oe2\|1oe2]], [[1gs7\|1gs7]], [[1wa1\|1wa1]], [[2bp8\|2bp8]], [[1oe1\|1oe1]], [[1wa2\|1wa2]], [[2bp0\|2bp0]], [[1haw\|1haw]], [[1ndt\|1ndt]], [[1wae\|1wae]], [[1oe3\|1oe3]], [[2jfc\|2jfc]], [[1gs6\|1gs6]], [[1hau\|1hau]], [[2bo0\|2bo0]], [[1bq5\|1bq5]], [[2vmj\|2vmj]], [[2vm4\|2vm4]], [[1wa0\|1wa0]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1gs8\|1gs8]], [[2vm3\|2vm3]], [[1oe2\|1oe2]], [[1gs7\|1gs7]], [[1wa1\|1wa1]], [[2bp8\|2bp8]], [[1oe1\|1oe1]], [[1wa2\|1wa2]], [[2bp0\|2bp0]], [[1haw\|1haw]], [[1ndt\|1ndt]], [[1wae\|1wae]], [[1oe3\|1oe3]], [[2jfc\|2jfc]], [[1gs6\|1gs6]], [[1hau\|1hau]], [[2bo0\|2bo0]], [[1bq5\|1bq5]], [[2vmj\|2vmj]], [[2vm4\|2vm4]], [[1wa0\|1wa0]]</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=2vn3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vn3 OCA], [http://pdbe.org/2vn3 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2vn3 RCSB], [http://www.ebi.ac.uk/pdbsum/2vn3 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2vn3 ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=2vn3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vn3 OCA], [http://pdbe.org/2vn3 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2vn3 RCSB], [http://www.ebi.ac.uk/pdbsum/2vn3 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2vn3 ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 29:		Line 29:

	==See Also==		==See Also==
-	*[[Nitrite reductase\|Nitrite reductase]]	+	*[[Nitrite reductase 3D structures\|Nitrite reductase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Achromobacter xylosoxidans yabuuchi and ohyama 1971]]		[[Category: Achromobacter xylosoxidans yabuuchi and ohyama 1971]]
		+	[[Category: Large Structures]]
	[[Category: Banfield, M J]]		[[Category: Banfield, M J]]
	[[Category: Dennison, C]]		[[Category: Dennison, C]]

OCA at 21:28, 19 September 2018

OCA — Wed, 19 Sep 2018 21:28:13 GMT

←Older revision		Revision as of 21:28, 19 September 2018
Line 1:		Line 1:
-	==~~NITRITE REDUCTASE FROM ALCALIGENES XYLOSOXIDANS~~==	+
		+	==Nitrite Reductase from Alcaligenes xylosoxidans==
	<StructureSection load='2vn3' size='340' side='right' caption='[[2vn3]], [[Resolution\|resolution]] 2.35Å' scene=''>		<StructureSection load='2vn3' size='340' side='right' caption='[[2vn3]], [[Resolution\|resolution]] 2.35Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1gs8\|1gs8]], [[2vm3\|2vm3]], [[1oe2\|1oe2]], [[1gs7\|1gs7]], [[1wa1\|1wa1]], [[2bp8\|2bp8]], [[1oe1\|1oe1]], [[1wa2\|1wa2]], [[2bp0\|2bp0]], [[1haw\|1haw]], [[1ndt\|1ndt]], [[1wae\|1wae]], [[1oe3\|1oe3]], [[2jfc\|2jfc]], [[1gs6\|1gs6]], [[1hau\|1hau]], [[2bo0\|2bo0]], [[1bq5\|1bq5]], [[2vmj\|2vmj]], [[2vm4\|2vm4]], [[1wa0\|1wa0]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1gs8\|1gs8]], [[2vm3\|2vm3]], [[1oe2\|1oe2]], [[1gs7\|1gs7]], [[1wa1\|1wa1]], [[2bp8\|2bp8]], [[1oe1\|1oe1]], [[1wa2\|1wa2]], [[2bp0\|2bp0]], [[1haw\|1haw]], [[1ndt\|1ndt]], [[1wae\|1wae]], [[1oe3\|1oe3]], [[2jfc\|2jfc]], [[1gs6\|1gs6]], [[1hau\|1hau]], [[2bo0\|2bo0]], [[1bq5\|1bq5]], [[2vmj\|2vmj]], [[2vm4\|2vm4]], [[1wa0\|1wa0]]</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=2vn3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vn3 OCA], [http://pdbe.org/2vn3 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2vn3 RCSB], [http://www.ebi.ac.uk/pdbsum/2vn3 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=2vn3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vn3 OCA], [http://pdbe.org/2vn3 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2vn3 RCSB], [http://www.ebi.ac.uk/pdbsum/2vn3 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2vn3 ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 11:		Line 12:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/vn/2vn3_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/vn/2vn3_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 28:		Line 29:

	==See Also==		==See Also==
-	*[[~~Nitric~~ reductase\|~~Nitric~~ reductase]]	+	*[[Nitrite reductase\|Nitrite reductase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 03:47, 7 February 2016

OCA — Sun, 07 Feb 2016 03:47:07 GMT

←Older revision		Revision as of 03:47, 7 February 2016
Line 2:		Line 2:
	<StructureSection load='2vn3' size='340' side='right' caption='[[2vn3]], [[Resolution\|resolution]] 2.35Å' scene=''>		<StructureSection load='2vn3' size='340' side='right' caption='[[2vn3]], [[Resolution\|resolution]] 2.35Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2vn3]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Achromobacter_xylosoxidans Achromobacter~~ xylosoxidans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VN3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VN3 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2vn3]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"achromobacter_xylosoxidans"_yabuuchi_and_ohyama_1971 "achromobacter xylosoxidans" yabuuchi and ohyama 1971]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VN3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VN3 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1gs8\|1gs8]], [[2vm3\|2vm3]], [[1oe2\|1oe2]], [[1gs7\|1gs7]], [[1wa1\|1wa1]], [[2bp8\|2bp8]], [[1oe1\|1oe1]], [[1wa2\|1wa2]], [[2bp0\|2bp0]], [[1haw\|1haw]], [[1ndt\|1ndt]], [[1wae\|1wae]], [[1oe3\|1oe3]], [[2jfc\|2jfc]], [[1gs6\|1gs6]], [[1hau\|1hau]], [[2bo0\|2bo0]], [[1bq5\|1bq5]], [[2vmj\|2vmj]], [[2vm4\|2vm4]], [[1wa0\|1wa0]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1gs8\|1gs8]], [[2vm3\|2vm3]], [[1oe2\|1oe2]], [[1gs7\|1gs7]], [[1wa1\|1wa1]], [[2bp8\|2bp8]], [[1oe1\|1oe1]], [[1wa2\|1wa2]], [[2bp0\|2bp0]], [[1haw\|1haw]], [[1ndt\|1ndt]], [[1wae\|1wae]], [[1oe3\|1oe3]], [[2jfc\|2jfc]], [[1gs6\|1gs6]], [[1hau\|1hau]], [[2bo0\|2bo0]], [[1bq5\|1bq5]], [[2vmj\|2vmj]], [[2vm4\|2vm4]], [[1wa0\|1wa0]]</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=2vn3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vn3 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2vn3 RCSB], [http://www.ebi.ac.uk/pdbsum/2vn3 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=2vn3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vn3 OCA], [http://pdbe.org/2vn3 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2vn3 RCSB], [http://www.ebi.ac.uk/pdbsum/2vn3 PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 15:		Line 15:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2vn3 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 25:		Line 25:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 2vn3" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 32:		Line 33:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Achromobacter xylosoxidans]]	+	[[Category: Achromobacter xylosoxidans yabuuchi and ohyama 1971]]
	[[Category: Banfield, M J]]		[[Category: Banfield, M J]]
	[[Category: Dennison, C]]		[[Category: Dennison, C]]

OCA at 14:36, 19 January 2015

OCA — Mon, 19 Jan 2015 14:36:25 GMT

←Older revision		Revision as of 14:36, 19 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2vn3]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Achromobacter_xylosoxidans Achromobacter xylosoxidans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VN3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VN3 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2vn3]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Achromobacter_xylosoxidans Achromobacter xylosoxidans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VN3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VN3 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1gs8\|1gs8]], [[2vm3\|2vm3]], [[1oe2\|1oe2]], [[1gs7\|1gs7]], [[1wa1\|1wa1]], [[2bp8\|2bp8]], [[1oe1\|1oe1]], [[1wa2\|1wa2]], [[2bp0\|2bp0]], [[1haw\|1haw]], [[1ndt\|1ndt]], [[1wae\|1wae]], [[1oe3\|1oe3]], [[2jfc\|2jfc]], [[1gs6\|1gs6]], [[1hau\|1hau]], [[2bo0\|2bo0]], [[1bq5\|1bq5]], [[2vmj\|2vmj]], [[2vm4\|2vm4]], [[1wa0\|1wa0]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1gs8\|1gs8]], [[2vm3\|2vm3]], [[1oe2\|1oe2]], [[1gs7\|1gs7]], [[1wa1\|1wa1]], [[2bp8\|2bp8]], [[1oe1\|1oe1]], [[1wa2\|1wa2]], [[2bp0\|2bp0]], [[1haw\|1haw]], [[1ndt\|1ndt]], [[1wae\|1wae]], [[1oe3\|1oe3]], [[2jfc\|2jfc]], [[1gs6\|1gs6]], [[1hau\|1hau]], [[2bo0\|2bo0]], [[1bq5\|1bq5]], [[2vmj\|2vmj]], [[2vm4\|2vm4]], [[1wa0\|1wa0]]</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=2vn3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vn3 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2vn3 RCSB], [http://www.ebi.ac.uk/pdbsum/2vn3 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=2vn3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vn3 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2vn3 RCSB], [http://www.ebi.ac.uk/pdbsum/2vn3 PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 33:		Line 33:
	</StructureSection>		</StructureSection>
	[[Category: Achromobacter xylosoxidans]]		[[Category: Achromobacter xylosoxidans]]
-	[[Category: Banfield, M J.]]	+	[[Category: Banfield, M J]]
-	[[Category: Dennison, C.]]	+	[[Category: Dennison, C]]
-	[[Category: Firbank, S J.]]	+	[[Category: Firbank, S J]]
-	[[Category: Li, C.]]	+	[[Category: Li, C]]
-	[[Category: Sato, K.]]	+	[[Category: Sato, K]]
	[[Category: Copper-containing nitrite reductase]]		[[Category: Copper-containing nitrite reductase]]
	[[Category: Cupredoxin]]		[[Category: Cupredoxin]]

OCA at 07:13, 29 September 2014

OCA — Mon, 29 Sep 2014 07:13:39 GMT

←Older revision		Revision as of 07:13, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2vn3.~~png~~\|~~left~~\|200px]]	+	==NITRITE REDUCTASE FROM ALCALIGENES XYLOSOXIDANS==
		+	<StructureSection load='2vn3' size='340' side='right' caption='[[2vn3]], [[Resolution\|resolution]] 2.35Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2vn3]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Achromobacter_xylosoxidans Achromobacter xylosoxidans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VN3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VN3 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1gs8\|1gs8]], [[2vm3\|2vm3]], [[1oe2\|1oe2]], [[1gs7\|1gs7]], [[1wa1\|1wa1]], [[2bp8\|2bp8]], [[1oe1\|1oe1]], [[1wa2\|1wa2]], [[2bp0\|2bp0]], [[1haw\|1haw]], [[1ndt\|1ndt]], [[1wae\|1wae]], [[1oe3\|1oe3]], [[2jfc\|2jfc]], [[1gs6\|1gs6]], [[1hau\|1hau]], [[2bo0\|2bo0]], [[1bq5\|1bq5]], [[2vmj\|2vmj]], [[2vm4\|2vm4]], [[1wa0\|1wa0]]</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=2vn3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vn3 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2vn3 RCSB], [http://www.ebi.ac.uk/pdbsum/2vn3 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/vn/2vn3_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 long 15-residue type 1 copper-binding loop of nitrite reductase has been replaced with that from the cupredoxin amicyanin (7 residues). This sizable loop contraction does not have a significant effect on the spectroscopy, and therefore, the structures of both the type 1 and type 2 Cu(II) sites. The crystal structure of this variant with Zn(II) at both the type 1 and type 2 sites has been determined. The coordination geometry of the type 2 site is almost identical to that found in the wild-type protein. However, the structure of the type 1 centre changes significantly upon metal substitution, which is an unusual feature for this class of site. The positions of most of the coordinating residues are altered of which the largest difference was observed for the coordinating His residue in the centre of the mutated loop. This ligand moves away from the active site, which results in a more open metal centre with a coordinating water molecule. Flexibility has been introduced into this region of the protein. The 200 mV increase in the reduction potential of the type 1 copper site indicates that structural changes upon reduction must stabilise the cuprous form. The resulting unfavourable driving force for electron transfer between the two copper sites, and an increased reorganisation energy for the type 1 centre, contribute to the loop variant having very little nitrite reductase activity. The extended type 1 copper-binding loop of this enzyme makes a number of interactions that are important for maintaining quaternary structure.

-	~~{{STRUCTURE_2vn3\| PDB=2vn3 \| SCENE= }}~~	+	The importance of the long type 1 copper-binding loop of nitrite reductase for structure and function.,Sato K, Firbank SJ, Li C, Banfield MJ, Dennison C Chemistry. 2008;14(19):5820-8. PMID:18491346<ref>PMID:18491346</ref>

-	~~===NITRITE REDUCTASE FROM ALCALIGENES XYLOSOXIDANS===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_18491346}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[2vn3]] is~~ a ~~1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Achromobacter_xylosoxidans Achromobacter xylosoxidans]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2VN3 OCA].~~	+

	==See Also==		==See Also==
	*[[Nitric reductase\|Nitric reductase]]		*[[Nitric reductase\|Nitric reductase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:018491346<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Achromobacter xylosoxidans]]		[[Category: Achromobacter xylosoxidans]]
	[[Category: Banfield, M J.]]		[[Category: Banfield, M J.]]

OCA at 05:30, 20 October 2012

OCA — Sat, 20 Oct 2012 05:30:24 GMT

←Older revision		Revision as of 05:30, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[2vn3]] is a 1 chain structure ~~of [[Nitric reductase]]~~ with sequence from [http://en.wikipedia.org/wiki/Achromobacter_xylosoxidans Achromobacter xylosoxidans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VN3 OCA].	+	[[2vn3]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Achromobacter_xylosoxidans Achromobacter xylosoxidans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VN3 OCA].

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

OCA: Protected "2vn3" [edit=sysop:move=sysop]

OCA — Wed, 25 Jul 2012 10:16:31 GMT

Protected "2vn3" [edit=sysop:move=sysop]

←Older revision

Revision as of 10:16, 25 July 2012

OCA at 10:16, 25 July 2012

OCA — Wed, 25 Jul 2012 10:16:28 GMT

←Older revision		Revision as of 10:16, 25 July 2012
Line 1:		Line 1:
-	~~{{Seed}}~~	+	[[Image:2vn3.png\|left\|200px]]
-	[[Image:2vn3.~~jpg~~\|left\|200px]]	+

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2vn3", 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_2vn3\| PDB=2vn3 \| SCENE= }}		{{STRUCTURE_2vn3\| PDB=2vn3 \| SCENE= }}

	===NITRITE REDUCTASE FROM ALCALIGENES XYLOSOXIDANS===		===NITRITE REDUCTASE FROM ALCALIGENES XYLOSOXIDANS===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_18491346}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 18491346 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_18491346}}		{{ABSTRACT_PUBMED_18491346}}

	==About this Structure==		==About this Structure==
-	~~2VN3~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Achromobacter_xylosoxidans Achromobacter xylosoxidans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VN3 OCA].	+	[[2vn3]] is a 1 chain structure of [[Nitric reductase]] with sequence from [http://en.wikipedia.org/wiki/Achromobacter_xylosoxidans Achromobacter xylosoxidans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VN3 OCA].
		+
		+	==See Also==
		+	*[[Nitric reductase\|Nitric reductase]]

	==Reference==		==Reference==
-	~~The importance of the long type 1 copper-binding loop of nitrite reductase for structure and function., Sato K, Firbank SJ, Li C, Banfield MJ, Dennison C, Chemistry. 2008;14(19):5820-8.~~ PMID:~~[http://www.ncbi.nlm.nih.gov~~/~~pubmed~~/~~18491346 18491346]~~	+	<ref group="xtra">PMID:018491346</ref><references group="xtra"/>
	[[Category: Achromobacter xylosoxidans]]		[[Category: Achromobacter xylosoxidans]]
	[[Category: Banfield, M J.]]		[[Category: Banfield, M J.]]
Line 36:		Line 27:
	[[Category: Type 1 copper]]		[[Category: Type 1 copper]]
	[[Category: Type 2 copper]]		[[Category: Type 2 copper]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Dec 24 11:25:29 2008''