7oi1 - Revision history

OCA at 12:50, 1 February 2024

2024-02-01T12:50:53Z

←Older revision		Revision as of 12:50, 1 February 2024
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	<StructureSection load='7oi1' size='340' side='right'caption='[[7oi1]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='7oi1' size='340' side='right'caption='[[7oi1]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[7oi1]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7OI1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7OI1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7oi1]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Synechocystis_sp._PCC_6803_substr._Kazusa Synechocystis sp. PCC 6803 substr. Kazusa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7OI1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7OI1 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CAC:CACODYLATE+ION'>CAC</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</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]] 1.9Å</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Agmatinase Agmatinase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.3.11 3.5.3.11] </span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CAC:CACODYLATE+ION'>CAC</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</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=7oi1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7oi1 OCA], [https://pdbe.org/7oi1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7oi1 RCSB], [https://www.ebi.ac.uk/pdbsum/7oi1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7oi1 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=7oi1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7oi1 OCA], [https://pdbe.org/7oi1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7oi1 RCSB], [https://www.ebi.ac.uk/pdbsum/7oi1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7oi1 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/SPEB2_SYNY3 SPEB2_SYNY3]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Agmatinase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Fleming, J R~~]]	+	[[Category: Synechocystis sp. PCC 6803 substr. Kazusa]]
-	[[Category: ~~Mayans, O M~~]]	+	[[Category: Fleming JR]]
-	[[Category: ~~2-metal ion cluster]]~~	+	[[Category: Mayans OM]]
-	~~[[Category: Arginase/agmatinase family protein]]~~	+
-	~~[[Category: Metal binding protein]]~~	+
-	~~[[Category: Ni2+ enzyme]]~~	+
-	~~[[Category: Ureohydrolase family protein~~]]	+

OCA at 11:57, 23 March 2022

2022-03-23T11:57:24Z

←Older revision		Revision as of 11:57, 23 March 2022
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	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=7oi1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7oi1 OCA], [https://pdbe.org/7oi1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7oi1 RCSB], [https://www.ebi.ac.uk/pdbsum/7oi1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7oi1 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=7oi1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7oi1 OCA], [https://pdbe.org/7oi1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7oi1 RCSB], [https://www.ebi.ac.uk/pdbsum/7oi1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7oi1 ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Nitrogen availability is a growth-limiting factor in many habitats(1), and the global nitrogen cycle involves prokaryotes and eukaryotes competing for this precious resource. Only some bacteria and archaea can fix elementary nitrogen; all other organisms depend on the assimilation of mineral or organic nitrogen. The nitrogen-rich compound guanidine occurs widely in nature(2-4), but its utilization is impeded by pronounced resonance stabilization(5), and enzymes catalysing hydrolysis of free guanidine have not been identified. Here we describe the arginase family protein GdmH (Sll1077) from Synechocystis sp. PCC 6803 as a Ni(2+)-dependent guanidine hydrolase. GdmH is highly specific for free guanidine. Its activity depends on two accessory proteins that load Ni(2+) instead of the typical Mn(2+) ions into the active site. Crystal structures of GdmH show coordination of the dinuclear metal cluster in a geometry typical for arginase family enzymes and allow modelling of the bound substrate. A unique amino-terminal extension and a tryptophan residue narrow the substrate-binding pocket and identify homologous proteins in further cyanobacteria, several other bacterial taxa and heterokont algae as probable guanidine hydrolases. This broad distribution suggests notable ecological relevance of guanidine hydrolysis in aquatic habitats.
		+
		+	Discovery of a Ni(2+)-dependent guanidine hydrolase in bacteria.,Funck D, Sinn M, Fleming JR, Stanoppi M, Dietrich J, Lopez-Igual R, Mayans O, Hartig JS Nature. 2022 Mar;603(7901):515-521. doi: 10.1038/s41586-022-04490-x. Epub 2022, Mar 9. PMID:35264792<ref>PMID:35264792</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7oi1" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 07:10, 27 January 2022

2022-01-27T07:10:55Z

←Older revision		Revision as of 07:10, 27 January 2022
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	==Crystal structure of Synechocystis sp PCC6803 guanidinium hydrolase==		==Crystal structure of Synechocystis sp PCC6803 guanidinium hydrolase==
-	<StructureSection load='7oi1' size='340' side='right'caption='[[7oi1]]' scene=''>	+	<StructureSection load='7oi1' size='340' side='right'caption='[[7oi1]], [[Resolution\|resolution]] 1.90Å' 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=7OI1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7OI1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7oi1]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7OI1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7OI1 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=7oi1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7oi1 OCA], [https://pdbe.org/7oi1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7oi1 RCSB], [https://www.ebi.ac.uk/pdbsum/7oi1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7oi1 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=CAC:CACODYLATE+ION'>CAC</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Agmatinase Agmatinase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.3.11 3.5.3.11] </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=7oi1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7oi1 OCA], [https://pdbe.org/7oi1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7oi1 RCSB], [https://www.ebi.ac.uk/pdbsum/7oi1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7oi1 ProSAT]</span></td></tr>
	</table>		</table>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Agmatinase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Fleming JR]]	+	[[Category: Fleming, J R]]
-	[[Category: Mayans OM]]	+	[[Category: Mayans, O M]]
		+	[[Category: 2-metal ion cluster]]
		+	[[Category: Arginase/agmatinase family protein]]
		+	[[Category: Metal binding protein]]
		+	[[Category: Ni2+ enzyme]]
		+	[[Category: Ureohydrolase family protein]]

OCA at 16:48, 15 December 2021

2021-12-15T16:48:34Z

←Older revision		Revision as of 16:48, 15 December 2021
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 7oi1 ~~is ON HOLD until Paper Publication~~	+	==Crystal structure of Synechocystis sp PCC6803 guanidinium hydrolase==
-		+	<StructureSection load='7oi1' size='340' side='right'caption='[[7oi1]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7OI1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7OI1 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=7oi1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7oi1 OCA], [https://pdbe.org/7oi1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7oi1 RCSB], [https://www.ebi.ac.uk/pdbsum/7oi1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7oi1 ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Fleming JR]]
		+	[[Category: Mayans OM]]

OCA at 13:46, 17 June 2021

2021-06-17T13:46:53Z

←Older revision		Revision as of 13:46, 17 June 2021
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7oi1 is ON HOLD	+	The entry 7oi1 is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "7oi1" [edit=sysop:move=sysop]

2021-05-19T09:07:02Z

Protected "7oi1" [edit=sysop:move=sysop]

←Older revision

Revision as of 09:07, 19 May 2021

OCA: New page: '''Unreleased structure''' The entry 7oi1 is ON HOLD Authors: Description: Category: Unreleased Structures

2021-05-19T09:07:01Z

New page: '''Unreleased structure''' The entry 7oi1 is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 7oi1 is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]