OCA at 09:06, 30 August 2023

2023-08-30T09:06:12Z

←Older revision		Revision as of 09:06, 30 August 2023
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-	'''Unreleased structure'''

-	~~The entry~~ 8bcx is ~~ON HOLD until Paper~~ Publication	+	==Crystal structure of NrfA-1 from Geobacter metallireducens==
		+	<StructureSection load='8bcx' size='340' side='right'caption='[[8bcx]], [[Resolution\|resolution]] 1.94Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[8bcx]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Geobacter_metallireducens_GS-15 Geobacter metallireducens GS-15]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8BCX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8BCX 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]] 1.941Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HEC:HEME+C'>HEC</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=8bcx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8bcx OCA], [https://pdbe.org/8bcx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8bcx RCSB], [https://www.ebi.ac.uk/pdbsum/8bcx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8bcx ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q39YY5_GEOMG Q39YY5_GEOMG]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Dissimilatory nitrate reduction to ammonia (DNRA) is a central pathway in the biogeochemical nitrogen cycle, allowing for the utilization of nitrate or nitrite as terminal electron acceptors. In contrast to the competing denitrification to N2, a major part of the essential nutrient nitrogen in DNRA is retained within the ecosystem and made available as ammonium to serve as a nitrogen source for other organisms. The second step of DNRA is mediated by the pentahaem cytochrome c nitrite reductase NrfA that catalyzes the six-electron reduction of nitrite to ammonium and is widely distributed among bacteria. A recent crystal structure of an NrfA ortholog from Geobacter lovleyi was the first characterized representative of a novel subclass of NrfA enzymes that lacked the canonical Ca2+ ion close to the active site haem 1. Here, we report the structural and functional characterization of NrfA from the closely related G. metallireducens. We established the recombinant production of catalytically active NrfA with its unique, lysine-coordinated active site haem heterologously in Escherichia coli and determined its three-dimensional structure by X-ray crystallography to 1.9 A resolution. The structure confirmed GmNrfA as a further calcium-independent NrfA protein, and it also shows an altered active site that contained an unprecedented aspartate residue, D80, close to the substrate-binding site. This residue formed part of a loop that also caused a changed arrangement of the conserved substrate/product channel relative to other NrfA proteins and rendered the protein insensitive to the inhibitor sulphate. To elucidate the relevance of D80, we produced and studied the variants D80A and D80N that showed significantly reduced catalytic activity.

-	~~Authors: Denkhaus~~, L., Siffert, F., Einsle, O.	+	An unusual active site architecture in cytochrome c nitrite reductase NrfA-1 from Geobacter metallireducens.,Denkhaus L, Siffert F, Einsle O FEMS Microbiol Lett. 2023 Jan 17;370:fnad068. doi: 10.1093/femsle/fnad068. PMID:37460131<ref>PMID:37460131</ref>

-	~~Description: Crystal structure~~ of ~~NrfA~~-~~1 from Geobacter metallireducens~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
-	[[Category: ~~Siffert, F~~]]	+	<div class="pdbe-citations 8bcx" style="background-color:#fffaf0;"></div>
-	[[Category: Denkhaus, L]]	+	== References ==
-	[[Category: Einsle, O]]	+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Geobacter metallireducens GS-15]]
		+	[[Category: Large Structures]]
		+	[[Category: Denkhaus L]]
		+	[[Category: Einsle O]]
		+	[[Category: Siffert F]]

OCA at 07:47, 24 November 2022

2022-11-24T07:47:49Z

←Older revision		Revision as of 07:47, 24 November 2022
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 8bcx is ON HOLD	+	The entry 8bcx is ON HOLD until Paper Publication

	Authors: Denkhaus, L., Siffert, F., Einsle, O.		Authors: Denkhaus, L., Siffert, F., Einsle, O.

OCA: Protected "8bcx" [edit=sysop:move=sysop]

2022-10-26T03:52:54Z

Protected "8bcx" [edit=sysop:move=sysop]

←Older revision

Revision as of 03:52, 26 October 2022

OCA: New page: '''Unreleased structure''' The entry 8bcx is ON HOLD Authors: Denkhaus, L., Siffert, F., Einsle, O. Description: Crystal structure of NrfA-1 from Geobacter metallireducens [[Category: ...

2022-10-26T03:52:53Z

New page: '''Unreleased structure''' The entry 8bcx is ON HOLD Authors: Denkhaus, L., Siffert, F., Einsle, O. Description: Crystal structure of NrfA-1 from Geobacter metallireducens [[Category: ...

New page

'''Unreleased structure'''

The entry 8bcx is ON HOLD

Authors: Denkhaus, L., Siffert, F., Einsle, O.

Description: Crystal structure of NrfA-1 from Geobacter metallireducens
[[Category: Unreleased Structures]]
[[Category: Siffert, F]]
[[Category: Denkhaus, L]]
[[Category: Einsle, O]]

8bcx - Revision history

OCA at 09:06, 30 August 2023

OCA at 07:47, 24 November 2022

OCA: Protected "8bcx" [edit=sysop:move=sysop]

OCA: New page: '''Unreleased structure''' The entry 8bcx is ON HOLD Authors: Denkhaus, L., Siffert, F., Einsle, O. Description: Crystal structure of NrfA-1 from Geobacter metallireducens [[Category: ...