7zcn - Revision history

OCA at 13:31, 1 February 2024

2024-02-01T13:31:00Z

←Older revision		Revision as of 13:31, 1 February 2024
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[7zcn]] 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=7ZCN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7ZCN FirstGlance]. <br>		<table><tr><td colspan='2'>[[7zcn]] 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=7ZCN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7ZCN 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=FRU:FRUCTOSE'>FRU</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NO2:NITRITE+ION'>NO2</scene>, <scene name='pdbligand=PRD_900003:sucrose'>PRD_900003</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]] 1.19Å</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=FRU:FRUCTOSE'>FRU</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NO2:NITRITE+ION'>NO2</scene>, <scene name='pdbligand=PRD_900003:sucrose'>PRD_900003</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=7zcn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7zcn OCA], [https://pdbe.org/7zcn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7zcn RCSB], [https://www.ebi.ac.uk/pdbsum/7zcn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7zcn 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=7zcn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7zcn OCA], [https://pdbe.org/7zcn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7zcn RCSB], [https://www.ebi.ac.uk/pdbsum/7zcn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7zcn 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 ==
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	</div>		</div>
	<div class="pdbe-citations 7zcn" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 7zcn" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Nitrite reductase 3D structures\|Nitrite reductase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 03:24, 8 September 2022

2022-09-08T03:24:49Z

←Older revision		Revision as of 03:24, 8 September 2022
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-	'''Unreleased structure'''

-	~~The entry~~ 7zcn is ~~ON HOLD until Paper~~ Publication	+	==Nitrite-bound MSOX movie series dataset 1 (0.8 MGy) of the copper nitrite reductase from Bradyrhizobium sp. ORS 375 (two-domain) - nitrite (start)==
		+	<StructureSection load='7zcn' size='340' side='right'caption='[[7zcn]], [[Resolution\|resolution]] 1.19Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[7zcn]] 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=7ZCN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7ZCN 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=FRU:FRUCTOSE'>FRU</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NO2:NITRITE+ION'>NO2</scene>, <scene name='pdbligand=PRD_900003:sucrose'>PRD_900003</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=7zcn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7zcn OCA], [https://pdbe.org/7zcn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7zcn RCSB], [https://www.ebi.ac.uk/pdbsum/7zcn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7zcn ProSAT]</span></td></tr>
		+	</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.

-	~~Authors~~:	+	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>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
		+	<div class="pdbe-citations 7zcn" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Bradyrhizobium sp. ORS 375]]
		+	[[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 05:01, 12 May 2022

2022-05-12T05:01:51Z

←Older revision		Revision as of 05:01, 12 May 2022
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	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors:		Authors:

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

2022-04-06T09:22:49Z

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

←Older revision

Revision as of 09:22, 6 April 2022

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

2022-04-06T09:22:48Z

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

New page

'''Unreleased structure'''

The entry 7zcn is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]