6ug0 - Revision history

OCA at 07:50, 11 October 2023

OCA — Wed, 11 Oct 2023 07:50:30 GMT

←Older revision		Revision as of 07:50, 11 October 2023
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	<StructureSection load='6ug0' size='340' side='right'caption='[[6ug0]], [[Resolution\|resolution]] 1.83Å' scene=''>		<StructureSection load='6ug0' size='340' side='right'caption='[[6ug0]], [[Resolution\|resolution]] 1.83Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6ug0]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Atcc_478 Atcc 478~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6UG0 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6UG0 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6ug0]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Azotobacter_vinelandii Azotobacter vinelandii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6UG0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6UG0 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1CL:FE(8)-S(7)+CLUSTER,+OXIDIZED'>1CL</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=H2S:HYDROSULFURIC+ACID'>H2S</scene>, <scene name='pdbligand=HCA:3-HYDROXY-3-CARBOXY-ADIPIC+ACID'>HCA</scene>, <scene name='pdbligand=HDZ:NITROGEN+MOLECULE'>HDZ</scene>, <scene name='pdbligand=ICE:IRON-SULFUR-MOLYBDENUM+CLUSTER+WITH+INTERSTITIAL+CARBON'>ICE</scene>, <scene name='pdbligand=ICZ:iron-sulfur-molybdenum+cluster+with+interstitial+carbon'>ICZ</scene>, <scene name='pdbligand=MO:MOLYBDENUM+ATOM'>MO</scene>, <scene name='pdbligand=PGE:TRIETHYLENE+GLYCOL'>PGE</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]] 1.83Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6vxt\|6vxt]]</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1CL:FE(8)-S(7)+CLUSTER,+OXIDIZED'>1CL</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=H2S:HYDROSULFURIC+ACID'>H2S</scene>, <scene name='pdbligand=HCA:3-HYDROXY-3-CARBOXY-ADIPIC+ACID'>HCA</scene>, <scene name='pdbligand=HDZ:NITROGEN+MOLECULE'>HDZ</scene>, <scene name='pdbligand=ICE:IRON-SULFUR-MOLYBDENUM+CLUSTER+WITH+INTERSTITIAL+CARBON'>ICE</scene>, <scene name='pdbligand=ICZ:iron-sulfur-molybdenum+cluster+with+interstitial+carbon'>ICZ</scene>, <scene name='pdbligand=MO:MOLYBDENUM+ATOM'>MO</scene>, <scene name='pdbligand=PGE:TRIETHYLENE+GLYCOL'>PGE</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">nifD ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=354 ATCC 478]), nifK ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=354 ATCC 478])</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=6ug0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ug0 OCA], [https://pdbe.org/6ug0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6ug0 RCSB], [https://www.ebi.ac.uk/pdbsum/6ug0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6ug0 ProSAT]</span></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Nitrogenase Nitrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.18.6.1 1.18.6.1] </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=6ug0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ug0 OCA], [~~http~~://pdbe.org/6ug0 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6ug0 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6ug0 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6ug0 ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/NIFD_AZOVI NIFD_AZOVI~~]] This molybdenum-iron protein is part of the nitrogenase complex that catalyzes the key enzymatic reactions in nitrogen fixation. [[http://www.uniprot.org/uniprot/NIFK_AZOVI NIFK_AZOVI]~~] This molybdenum-iron protein is part of the nitrogenase complex that catalyzes the key enzymatic reactions in nitrogen fixation.	+	[https://www.uniprot.org/uniprot/NIFD_AZOVI NIFD_AZOVI] This molybdenum-iron protein is part of the nitrogenase complex that catalyzes the key enzymatic reactions in nitrogen fixation.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Atcc 478]]
-	[[Category: Large Structures]]
-	[[Category: Nitrogenase]]
-	[[Category: Hu, Y]]
-	[[Category: Kang, W]]
-	[[Category: Ribbe, M W]]
	[[Category: Azotobacter vinelandii]]		[[Category: Azotobacter vinelandii]]
-	[[Category: ~~Fe-protein~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Femo-cofactor~~]]	+	[[Category: Hu Y]]
-	[[Category: ~~Mofe-protein~~]]	+	[[Category: Kang W]]
-	[[Category: ~~Oxidized p-cluster]]~~	+	[[Category: Ribbe MW]]
-	~~[[Category: Oxidoreductase~~]]	+

OCA at 07:39, 30 September 2020

OCA — Wed, 30 Sep 2020 07:39:18 GMT

←Older revision		Revision as of 07:39, 30 September 2020
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	</div>		</div>
	<div class="pdbe-citations 6ug0" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6ug0" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Nitrogenase 3D structures\|Nitrogenase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 06:35, 19 August 2020

OCA — Wed, 19 Aug 2020 06:35:05 GMT

←Older revision		Revision as of 06:35, 19 August 2020
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	==N2-bound Nitrogenase MoFe-protein from Azotobacter vinelandii==		==N2-bound Nitrogenase MoFe-protein from Azotobacter vinelandii==
-	<StructureSection load='6ug0' size='340' side='right'caption='[[6ug0]]' scene=''>	+	<StructureSection load='6ug0' size='340' side='right'caption='[[6ug0]], [[Resolution\|resolution]] 1.83Å' 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=6UG0 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6UG0 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6ug0]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_478 Atcc 478]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6UG0 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6UG0 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=6ug0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ug0 OCA], [http://pdbe.org/6ug0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ug0 RCSB], [http://www.ebi.ac.uk/pdbsum/6ug0 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ug0 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=1CL:FE(8)-S(7)+CLUSTER,+OXIDIZED'>1CL</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=H2S:HYDROSULFURIC+ACID'>H2S</scene>, <scene name='pdbligand=HCA:3-HYDROXY-3-CARBOXY-ADIPIC+ACID'>HCA</scene>, <scene name='pdbligand=HDZ:NITROGEN+MOLECULE'>HDZ</scene>, <scene name='pdbligand=ICE:IRON-SULFUR-MOLYBDENUM+CLUSTER+WITH+INTERSTITIAL+CARBON'>ICE</scene>, <scene name='pdbligand=ICZ:iron-sulfur-molybdenum+cluster+with+interstitial+carbon'>ICZ</scene>, <scene name='pdbligand=MO:MOLYBDENUM+ATOM'>MO</scene>, <scene name='pdbligand=PGE:TRIETHYLENE+GLYCOL'>PGE</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6vxt\|6vxt]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">nifD ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=354 ATCC 478]), nifK ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=354 ATCC 478])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Nitrogenase Nitrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.18.6.1 1.18.6.1] </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=6ug0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ug0 OCA], [http://pdbe.org/6ug0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ug0 RCSB], [http://www.ebi.ac.uk/pdbsum/6ug0 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ug0 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/NIFD_AZOVI NIFD_AZOVI]] This molybdenum-iron protein is part of the nitrogenase complex that catalyzes the key enzymatic reactions in nitrogen fixation. [[http://www.uniprot.org/uniprot/NIFK_AZOVI NIFK_AZOVI]] This molybdenum-iron protein is part of the nitrogenase complex that catalyzes the key enzymatic reactions in nitrogen fixation.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The enzyme nitrogenase uses a suite of complex metallocofactors to reduce dinitrogen (N2) to ammonia. Mechanistic details of this reaction remain sparse. We report a 1.83-angstrom crystal structure of the nitrogenase molybdenum-iron (MoFe) protein captured under physiological N2 turnover conditions. This structure reveals asymmetric displacements of the cofactor belt sulfurs (S2B or S3A and S5A) with distinct dinitrogen species in the two alphabeta dimers of the protein. The sulfur-displaced sites are distinct in the ability of protein ligands to donate protons to the bound dinitrogen species, as well as the elongation of either the Mo-O5 (carboxyl) or Mo-O7 (hydroxyl) distance that switches the Mo-homocitrate ligation from bidentate to monodentate. These results highlight the dynamic nature of the cofactor during catalysis and provide evidence for participation of all belt-sulfur sites in this process.
		+
		+	Structural evidence for a dynamic metallocofactor during N2 reduction by Mo-nitrogenase.,Kang W, Lee CC, Jasniewski AJ, Ribbe MW, Hu Y Science. 2020 Jun 19;368(6497):1381-1385. doi: 10.1126/science.aaz6748. PMID:32554596<ref>PMID:32554596</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6ug0" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Atcc 478]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Hu Y]]	+	[[Category: Nitrogenase]]
-	[[Category: Kang W]]	+	[[Category: Hu, Y]]
-	[[Category: Ribbe MW]]	+	[[Category: Kang, W]]
		+	[[Category: Ribbe, M W]]
		+	[[Category: Azotobacter vinelandii]]
		+	[[Category: Fe-protein]]
		+	[[Category: Femo-cofactor]]
		+	[[Category: Mofe-protein]]
		+	[[Category: Oxidized p-cluster]]
		+	[[Category: Oxidoreductase]]

OCA at 06:24, 25 June 2020

OCA — Thu, 25 Jun 2020 06:24:34 GMT

←Older revision		Revision as of 06:24, 25 June 2020
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-	'''Unreleased structure'''

-	~~The entry~~ 6ug0 is ~~ON HOLD until Paper Publication~~	+	==N2-bound Nitrogenase MoFe-protein from Azotobacter vinelandii==
-		+	<StructureSection load='6ug0' size='340' side='right'caption='[[6ug0]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6UG0 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6UG0 FirstGlance]. <br>
-	~~Description~~:	+	</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=6ug0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ug0 OCA], [http://pdbe.org/6ug0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ug0 RCSB], [http://www.ebi.ac.uk/pdbsum/6ug0 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ug0 ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Hu Y]]
		+	[[Category: Kang W]]
		+	[[Category: Ribbe MW]]

OCA at 04:33, 16 October 2019

OCA — Wed, 16 Oct 2019 04:33:19 GMT

←Older revision		Revision as of 04:33, 16 October 2019
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6ug0 is ON HOLD	+	The entry 6ug0 is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "6ug0" [edit=sysop:move=sysop]

OCA — Wed, 02 Oct 2019 08:48:04 GMT

Protected "6ug0" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:48, 2 October 2019

OCA: New page: '''Unreleased structure''' The entry 6ug0 is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 02 Oct 2019 08:48:02 GMT

New page: '''Unreleased structure''' The entry 6ug0 is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6ug0 is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]