6jv1 - Revision history

OCA at 10:20, 22 November 2023

OCA — Wed, 22 Nov 2023 10:20:19 GMT

←Older revision		Revision as of 10:20, 22 November 2023
Line 3:		Line 3:
	<StructureSection load='6jv1' size='340' side='right'caption='[[6jv1]], [[Resolution\|resolution]] 1.20Å' scene=''>		<StructureSection load='6jv1' size='340' side='right'caption='[[6jv1]], [[Resolution\|resolution]] 1.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6jv1]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Syny3 Syny3~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6JV1 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6JV1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6jv1]] is a 1 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=6JV1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6JV1 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=ARG:ARGININE'>ARG</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]] 1.2Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~sll1336 ([http~~:/~~/www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1111708 SYNY3])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ARG:ARGININE'>ARG</scene></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6jv1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6jv1 OCA], [~~http~~://pdbe.org/6jv1 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6jv1 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6jv1 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6jv1 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=6jv1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6jv1 OCA], [https://pdbe.org/6jv1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6jv1 RCSB], [https://www.ebi.ac.uk/pdbsum/6jv1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6jv1 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/P74535_SYNY3 P74535_SYNY3]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 22:		Line 24:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Syny3~~]]	+	[[Category: Synechocystis sp. PCC 6803 substr. Kazusa]]
-	[[Category: Li, L]]	+	[[Category: Li L]]
-	[[Category: Wu, X]]	+	[[Category: Wu X]]
-	[[Category: Zhang, Y]]	+	[[Category: Zhang Y]]
-	[[Category: Zhuang, N]]	+	[[Category: Zhuang N]]
-	~~[[Category: Alpha/beta propeller fold]]~~	+
-	~~[[Category: Amidino-transferase domain]]~~	+
-	~~[[Category: Arginine dihydrolase]]~~	+
-	~~[[Category: Hydrolase~~]]	+

OCA at 16:35, 22 January 2020

OCA — Wed, 22 Jan 2020 16:35:24 GMT

←Older revision		Revision as of 16:35, 22 January 2020
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6jv1 is ~~ON HOLD until Paper~~ Publication	+	==Crystal Structure of N-terminal domain of ArgZ, C264S mutant, bound to Substrate, an arginine dihydrolase from the Ornithine-Ammonia Cycle in Cyanobacteria==
		+	<StructureSection load='6jv1' size='340' side='right'caption='[[6jv1]], [[Resolution\|resolution]] 1.20Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6jv1]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Syny3 Syny3]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6JV1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6JV1 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ARG:ARGININE'>ARG</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">sll1336 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1111708 SYNY3])</td></tr>
		+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6jv1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6jv1 OCA], [http://pdbe.org/6jv1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6jv1 RCSB], [http://www.ebi.ac.uk/pdbsum/6jv1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6jv1 ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	A recently discovered ornithine-ammonia cycle (OAC) serves as a conduit in the nitrogen storage-and-remobilization machinery in cyanobacteria. The OAC involves an arginine-catabolic reaction catalyzed by the arginine dihydrolase ArgZ whose catalytic mechanism is unknown. Here, we determined the crystal structures at 1.2-3.0 A of unliganded ArgZ from the cyanobacterium Synechocystis sp. PCC6803 and of ArgZ complexed with its substrate arginine, a covalently linked reaction intermediate, or the reaction product ornithine. The structures reveal that a key residue, Asn(71), in the ArgZ active center, functions as the determinant distinguishing ArgZ from other members of the guanidino group-modifying enzyme superfamily. The structures, along with biochemical evidence from enzymatic assays coupled with electrospray ionization MS (ESI-MS) techniques, further suggest that ArgZ-catalyzed conversion of arginine to ornithine, ammonia, and carbon dioxide by ArgZ consists of two successive cycles of amine hydrolysis. Finally, we show that arginine dihydrolases are broadly distributed among bacteria and metazoan, suggesting that the OAC may be frequently used for redistribution of nitrogen from arginine catabolism or nitrogen fixation.

-	~~Authors~~:	+	Crystal structures and biochemical analyses of the bacterial arginine dihydrolase ArgZ suggests a "bond-rotation" catalytic mechanism.,Zhuang N, Zhang H, Li L, Wu X, Yang C, Zhang Y J Biol Chem. 2019 Dec 30. pii: RA119.011752. doi: 10.1074/jbc.RA119.011752. PMID:31914412<ref>PMID:31914412</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
		+	<div class="pdbe-citations 6jv1" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Syny3]]
		+	[[Category: Li, L]]
		+	[[Category: Wu, X]]
		+	[[Category: Zhang, Y]]
		+	[[Category: Zhuang, N]]
		+	[[Category: Alpha/beta propeller fold]]
		+	[[Category: Amidino-transferase domain]]
		+	[[Category: Arginine dihydrolase]]
		+	[[Category: Hydrolase]]

OCA at 05:32, 18 December 2019

OCA — Wed, 18 Dec 2019 05:32:36 GMT

←Older revision		Revision as of 05:32, 18 December 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6jv1 is ON HOLD	+	The entry 6jv1 is ON HOLD until Paper Publication

	Authors:		Authors:

OCA at 13:21, 11 December 2019

OCA — Wed, 11 Dec 2019 13:21:02 GMT

←Older revision		Revision as of 13:21, 11 December 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6jv1 is ON HOLD ~~until Paper Publication~~	+	The entry 6jv1 is ON HOLD

	Authors:		Authors:

OCA at 06:55, 1 May 2019

OCA — Wed, 01 May 2019 06:55:38 GMT

←Older revision		Revision as of 06:55, 1 May 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6jv1 is ON HOLD	+	The entry 6jv1 is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "6jv1" [edit=sysop:move=sysop]

OCA — Wed, 24 Apr 2019 04:46:37 GMT

Protected "6jv1" [edit=sysop:move=sysop]

←Older revision

Revision as of 04:46, 24 April 2019

OCA: New page: '''Unreleased structure''' The entry 6jv1 is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 24 Apr 2019 04:46:36 GMT

New page: '''Unreleased structure''' The entry 6jv1 is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6jv1 is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]