7apy - Revision history

OCA at 18:57, 8 September 2026

2026-09-08T18:57:04Z

← Older revision		Revision as of 18:57, 8 September 2026
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	<StructureSection load='7apy' size='340' side='right'caption='[[7apy]], [[Resolution\|resolution]] 1.78Å' scene=''>		<StructureSection load='7apy' size='340' side='right'caption='[[7apy]], [[Resolution\|resolution]] 1.78Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>~~[[7apy]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_stutzeri Pseudomonas stutzeri].~~ Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7APY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7APY FirstGlance]. <br>		<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7APY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7APY FirstGlance]. <br>
	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 1.778Å</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]] 1.778Å</td></tr>
	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=B3P:2-[3-(2-HYDROXY-1,1-DIHYDROXYMETHYL-ETHYLAMINO)-PROPYLAMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>B3P</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=CUA:DINUCLEAR+COPPER+ION'>CUA</scene>, <scene name='pdbligand=CUZ:(MU-4-SULFIDO)-TETRA-NUCLEAR+COPPER+ION'>CUZ</scene>, <scene name='pdbligand=FMT:FORMIC+ACID'>FMT</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=B3P:2-[3-(2-HYDROXY-1,1-DIHYDROXYMETHYL-ETHYLAMINO)-PROPYLAMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>B3P</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=CUA:DINUCLEAR+COPPER+ION'>CUA</scene>, <scene name='pdbligand=CUZ:(MU-4-SULFIDO)-TETRA-NUCLEAR+COPPER+ION'>CUZ</scene>, <scene name='pdbligand=FMT:FORMIC+ACID'>FMT</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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=7apy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7apy OCA], [https://pdbe.org/7apy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7apy RCSB], [https://www.ebi.ac.uk/pdbsum/7apy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7apy 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=7apy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7apy OCA], [https://pdbe.org/7apy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7apy RCSB], [https://www.ebi.ac.uk/pdbsum/7apy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7apy ProSAT]</span></td></tr>
	</table>		</table>
	~~== Function ==~~
	[https://www.uniprot.org/uniprot/NOSZ_STUST NOSZ_STUST] Nitrous-oxide reductase is part of a bacterial respiratory system which is activated under anaerobic conditions in the presence of nitrate or nitrous oxide.<ref>PMID:3000778</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	~~[[Category: Pseudomonas stutzeri]]~~
	[[Category: Bill E]]		[[Category: Bill E]]
	[[Category: Einsle O]]		[[Category: Einsle O]]
	[[Category: Kroneck PMH]]		[[Category: Kroneck PMH]]
	[[Category: Zhang L]]		[[Category: Zhang L]]

OCA at 12:14, 1 February 2024

2024-02-01T12:14:01Z

← Older revision		Revision as of 12:14, 1 February 2024
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	==Pseudomonas stutzeri nitrous oxide reductase mutant, D576A==		==Pseudomonas stutzeri nitrous oxide reductase mutant, D576A==
	<StructureSection load='7apy' size='340' side='right'caption='[[7apy]]' scene=''>		<StructureSection load='7apy' size='340' side='right'caption='[[7apy]], [[Resolution\|resolution]] 1.78Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7APY OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=7APY FirstGlance]. <br>		<table><tr><td colspan='2'>[[7apy]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_stutzeri Pseudomonas stutzeri]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7APY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7APY FirstGlance]. <br>
	</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=7apy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7apy OCA], [~~http~~://pdbe.org/7apy PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=7apy RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/7apy PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=7apy ProSAT]</span></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]] 1.778Å</td></tr>
			<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=B3P:2-[3-(2-HYDROXY-1,1-DIHYDROXYMETHYL-ETHYLAMINO)-PROPYLAMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>B3P</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=CUA:DINUCLEAR+COPPER+ION'>CUA</scene>, <scene name='pdbligand=CUZ:(MU-4-SULFIDO)-TETRA-NUCLEAR+COPPER+ION'>CUZ</scene>, <scene name='pdbligand=FMT:FORMIC+ACID'>FMT</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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=7apy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7apy OCA], [https://pdbe.org/7apy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7apy RCSB], [https://www.ebi.ac.uk/pdbsum/7apy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7apy ProSAT]</span></td></tr>
	</table>		</table>
			== Function ==
			[https://www.uniprot.org/uniprot/NOSZ_STUST NOSZ_STUST] Nitrous-oxide reductase is part of a bacterial respiratory system which is activated under anaerobic conditions in the presence of nitrate or nitrous oxide.<ref>PMID:3000778</ref>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			Copper-containing nitrous oxide reductase (N2OR) is the only known enzyme to catalyze the conversion of the environmentally critical greenhouse gas nitrous oxide (N2O) to dinitrogen (N2) as the final step of bacterial denitrification. Other than its unique tetranuclear active site CuZ, the binuclear electron entry point CuA is also utilized in other enzymes, including cytochrome c oxidase. In the CuA site of Pseudomonas stutzeri N2OR, a histidine ligand was found to undergo a conformational flip upon binding of the substrate N2O between the two copper centers. Here we report on the systematic mutagenesis and spectroscopic and structural characterization of this histidine and surrounding H-bonding residues, based on an established functional expression system for PsN2OR in E. coli. A single hydrogen bond from Ser550 is sufficient to stabilize an unbound conformation of His583, as shown in a Asp576Ala variant, while the additional removal of the hydrogen bond in a Asp576Ala/Ser550Ala double variant compelled His583 to stay in a bound conformation as a ligand to CuA. Systematic mutagenesis of His583 to Ala, Asp, Asn, Glu, Gln, Lys, Phe, Tyr, and Trp showed that although both the CuZ and CuA sites were present in all the variants, only the ones with a protonable side chain, i.e., His, Asp, and Glu, were able to mediate electron transfer at physiological pH. This observation is in line with a proton-coupled electron transfer mechanism at the CuA site of N2OR.

			Histidine-Gated Proton-Coupled Electron Transfer to the CuA Site of Nitrous Oxide Reductase.,Zhang L, Bill E, Kroneck PMH, Einsle O J Am Chem Soc. 2020 Dec 30. doi: 10.1021/jacs.0c10057. PMID:33377777<ref>PMID:33377777</ref>

			From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
			<div class="pdbe-citations 7apy" style="background-color:#fffaf0;"></div>
			== References ==
			<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
			[[Category: Pseudomonas stutzeri]]
	[[Category: Bill E]]		[[Category: Bill E]]
	[[Category: Einsle O]]		[[Category: Einsle O]]
	[[Category: Kroneck PMH]]		[[Category: Kroneck PMH]]
	[[Category: Zhang L]]		[[Category: Zhang L]]

OCA at 05:52, 20 January 2021

2021-01-20T05:52:43Z

← Older revision		Revision as of 05:52, 20 January 2021
Line 1:		Line 1:
	~~'''Unreleased structure'''~~

	~~The entry~~ 7apy is ~~ON HOLD until Paper Publication~~		==Pseudomonas stutzeri nitrous oxide reductase mutant, D576A==
			<StructureSection load='7apy' size='340' side='right'caption='[[7apy]]' scene=''>
	~~Authors~~: ~~Zhang~~, L., ~~Bill~~, E., ~~Kroneck, P~~.M.H., ~~Einsle, O~~.		== Structural highlights ==
			<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7APY OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=7APY FirstGlance]. <br>
	~~Description: Pseudomonas stutzeri nitrous oxide reductase mutant, D576A~~		</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=7apy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7apy OCA], [http://pdbe.org/7apy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=7apy RCSB], [http://www.ebi.ac.uk/pdbsum/7apy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=7apy ProSAT]</span></td></tr>
	[[Category: ~~Unreleased~~ Structures]]		</table>
	[[Category: ~~Einsle, O~~]]		__TOC__
	[[Category: ~~Bill, E~~]]		</StructureSection>
	[[Category: ~~Zhang, L~~]]		[[Category: Large Structures]]
	[[Category: ~~Kroneck, P.M.H~~]]		[[Category: Bill E]]
			[[Category: Einsle O]]
			[[Category: Kroneck PMH]]
			[[Category: Zhang L]]

OCA: Protected "7apy" [edit=sysop:move=sysop]

2020-10-28T18:57:20Z

Protected "7apy" [edit=sysop:move=sysop]

← Older revision	Revision as of 18:57, 28 October 2020
(No difference)

OCA: New page: '''Unreleased structure''' The entry 7apy is ON HOLD until Paper Publication Authors: Zhang, L., Bill, E., Kroneck, P.M.H., Einsle, O. Description: Pseudomonas stutzeri nitrous oxide r...

2020-10-28T18:57:19Z

New page: '''Unreleased structure''' The entry 7apy is ON HOLD until Paper Publication Authors: Zhang, L., Bill, E., Kroneck, P.M.H., Einsle, O. Description: Pseudomonas stutzeri nitrous oxide r...

New page

'''Unreleased structure'''

The entry 7apy is ON HOLD until Paper Publication

Authors: Zhang, L., Bill, E., Kroneck, P.M.H., Einsle, O.

Description: Pseudomonas stutzeri nitrous oxide reductase mutant, D576A
[[Category: Unreleased Structures]]
[[Category: Einsle, O]]
[[Category: Bill, E]]
[[Category: Zhang, L]]
[[Category: Kroneck, P.M.H]]