7qy4 - Revision history

OCA at 13:23, 1 February 2024

OCA — Thu, 01 Feb 2024 13:23:54 GMT

←Older revision		Revision as of 13:23, 1 February 2024
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[7qy4]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bradyrhizobium_sp._ORS_375 Bradyrhizobium sp. ORS 375]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7QY4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7QY4 FirstGlance]. <br>		<table><tr><td colspan='2'>[[7qy4]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bradyrhizobium_sp._ORS_375 Bradyrhizobium sp. ORS 375]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7QY4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7QY4 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=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 1.35Å</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=GOL:GLYCEROL'>GOL</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=7qy4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7qy4 OCA], [https://pdbe.org/7qy4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7qy4 RCSB], [https://www.ebi.ac.uk/pdbsum/7qy4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7qy4 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=7qy4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7qy4 OCA], [https://pdbe.org/7qy4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7qy4 RCSB], [https://www.ebi.ac.uk/pdbsum/7qy4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7qy4 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/H0SLX7_BRAS3 H0SLX7_BRAS3]]	+	[https://www.uniprot.org/uniprot/H0SLX7_BRAS3 H0SLX7_BRAS3]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 03:12, 8 September 2022

OCA — Thu, 08 Sep 2022 03:12:28 GMT

←Older revision		Revision as of 03:12, 8 September 2022
Line 1:		Line 1:

	==As isolated MSOX movie series dataset 5 (2 MGy) of the copper nitrite reductase from Bradyrhizobium sp. ORS 375 (two-domain)==		==As isolated MSOX movie series dataset 5 (2 MGy) of the copper nitrite reductase from Bradyrhizobium sp. ORS 375 (two-domain)==
-	<StructureSection load='7qy4' size='340' side='right'caption='[[7qy4]]' scene=''>	+	<StructureSection load='7qy4' size='340' side='right'caption='[[7qy4]], [[Resolution\|resolution]] 1.35Å' 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=7QY4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7QY4 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7qy4]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bradyrhizobium_sp._ORS_375 Bradyrhizobium sp. ORS 375]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7QY4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7QY4 FirstGlance]. <br>
-	</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=7qy4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7qy4 OCA], [https://pdbe.org/7qy4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7qy4 RCSB], [https://www.ebi.ac.uk/pdbsum/7qy4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7qy4 ProSAT]</span></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=GOL:GLYCEROL'>GOL</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=7qy4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7qy4 OCA], [https://pdbe.org/7qy4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7qy4 RCSB], [https://www.ebi.ac.uk/pdbsum/7qy4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7qy4 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[https://www.uniprot.org/uniprot/H0SLX7_BRAS3 H0SLX7_BRAS3]]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Many enzymes utilize redox-coupled centers for performing catalysis where these centers are used to control and regulate the transfer of electrons required for catalysis, whose untimely delivery can lead to a state incapable of binding the substrate, i.e., a dead-end enzyme. Copper nitrite reductases (CuNiRs), which catalyze the reduction of nitrite to nitric oxide (NO), have proven to be a good model system for studying these complex processes including proton-coupled electron transfer (ET) and their orchestration for substrate binding/utilization. Recently, a two-domain CuNiR from a Rhizobia species (Br(2D)NiR) has been discovered with a substantially lower enzymatic activity where the catalytic type-2 Cu (T2Cu) site is occupied by two water molecules requiring their displacement for the substrate nitrite to bind. Single crystal spectroscopy combined with MSOX (multiple structures from one crystal) for both the as-isolated and nitrite-soaked crystals clearly demonstrate that inter-Cu ET within the coupled T1Cu-T2Cu redox system is heavily gated. Laser-flash photolysis and optical spectroscopy showed rapid ET from photoexcited NADH to the T1Cu center but little or no inter-Cu ET in the absence of nitrite. Furthermore, incomplete reoxidation of the T1Cu site ( approximately 20% electrons transferred) was observed in the presence of nitrite, consistent with a slow formation of NO species in the serial structures of the MSOX movie obtained from the nitrite-soaked crystal, which is likely to be responsible for the lower activity of this CuNiR. Our approach is of direct relevance for studying redox reactions in a wide range of biological systems including metalloproteins that make up at least 30% of all proteins.
		+
		+	Single crystal spectroscopy and multiple structures from one crystal (MSOX) define catalysis in copper nitrite reductases.,Rose SL, Baba S, Okumura H, Antonyuk SV, Sasaki D, Hedison TM, Shanmugam M, Heyes DJ, Scrutton NS, Kumasaka T, Tosha T, Eady RR, Yamamoto M, Hasnain SS Proc Natl Acad Sci U S A. 2022 Jul 26;119(30):e2205664119. doi:, 10.1073/pnas.2205664119. Epub 2022 Jul 21. PMID:35862453<ref>PMID:35862453</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7qy4" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bradyrhizobium sp. ORS 375]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Antonyuk SV]]		[[Category: Antonyuk SV]]

OCA at 04:51, 3 August 2022

OCA — Wed, 03 Aug 2022 04:51:57 GMT

←Older revision		Revision as of 04:51, 3 August 2022
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-	'''Unreleased structure'''

-	~~The entry~~ 7qy4 is ~~ON HOLD until Paper Publication~~	+	==As isolated MSOX movie series dataset 5 (2 MGy) of the copper nitrite reductase from Bradyrhizobium sp. ORS 375 (two-domain)==
-		+	<StructureSection load='7qy4' size='340' side='right'caption='[[7qy4]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7QY4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7QY4 FirstGlance]. <br>
-	~~Description~~:	+	</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=7qy4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7qy4 OCA], [https://pdbe.org/7qy4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7qy4 RCSB], [https://www.ebi.ac.uk/pdbsum/7qy4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7qy4 ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Antonyuk SV]]
		+	[[Category: Baba S]]
		+	[[Category: Eady RR]]
		+	[[Category: Hasnain SS]]
		+	[[Category: Kumasaka T]]
		+	[[Category: Okumura H]]
		+	[[Category: Rose SL]]
		+	[[Category: Sasaki D]]
		+	[[Category: Tosha T]]
		+	[[Category: Yamamoto M]]

OCA at 04:59, 2 March 2022

OCA — Wed, 02 Mar 2022 04:59:11 GMT

←Older revision		Revision as of 04:59, 2 March 2022
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7qy4 is ON HOLD	+	The entry 7qy4 is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "7qy4" [edit=sysop:move=sysop]

OCA — Wed, 02 Feb 2022 05:33:05 GMT

Protected "7qy4" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:33, 2 February 2022

OCA: New page: '''Unreleased structure''' The entry 7qy4 is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 02 Feb 2022 05:33:04 GMT

New page: '''Unreleased structure''' The entry 7qy4 is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 7qy4 is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]