6qjz - Revision history

OCA at 12:02, 24 January 2024

2024-01-24T12:02:28Z

←Older revision		Revision as of 12:02, 24 January 2024
Line 3:		Line 3:
	<StructureSection load='6qjz' size='340' side='right'caption='[[6qjz]], [[Resolution\|resolution]] 2.70Å' scene=''>		<StructureSection load='6qjz' size='340' side='right'caption='[[6qjz]], [[Resolution\|resolution]] 2.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6qjz]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Latsa Latsa~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6QJZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6QJZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6qjz]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Lathyrus_sativus Lathyrus sativus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6QJZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6QJZ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AMP:ADENOSINE+MONOPHOSPHATE'>AMP</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]] 2.7Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AMP:ADENOSINE+MONOPHOSPHATE'>AMP</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=6qjz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qjz OCA], [https://pdbe.org/6qjz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6qjz RCSB], [https://www.ebi.ac.uk/pdbsum/6qjz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6qjz 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=6qjz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qjz OCA], [https://pdbe.org/6qjz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6qjz RCSB], [https://www.ebi.ac.uk/pdbsum/6qjz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6qjz ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0A3G8GC37_LATSA A0A3G8GC37_LATSA]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 24:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Latsa~~]]	+	[[Category: Lathyrus sativus]]
-	[[Category: Dym, O]]	+	[[Category: Dym O]]
-	~~[[Category: Adenylating anl superfamily]]~~	+
-	~~[[Category: Ligase~~]]	+

OCA at 10:16, 13 April 2022

2022-04-13T10:16:21Z

←Older revision		Revision as of 10:16, 13 April 2022
Line 1:		Line 1:

	==Identificationand Characterization of an Oxalylfrom Grass pea (Lathyrus sativusCoA-Synthetase L.)==		==Identificationand Characterization of an Oxalylfrom Grass pea (Lathyrus sativusCoA-Synthetase L.)==
-	<StructureSection load='6qjz' size='340' side='right'caption='[[6qjz]]' scene=''>	+	<StructureSection load='6qjz' size='340' side='right'caption='[[6qjz]], [[Resolution\|resolution]] 2.70Å' 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=6QJZ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6QJZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6qjz]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Latsa Latsa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6QJZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6QJZ 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=6qjz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qjz OCA], [~~http~~://pdbe.org/6qjz PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6qjz RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6qjz PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6qjz 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=AMP:ADENOSINE+MONOPHOSPHATE'>AMP</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=6qjz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qjz OCA], [https://pdbe.org/6qjz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6qjz RCSB], [https://www.ebi.ac.uk/pdbsum/6qjz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6qjz ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Oxalic acid is a small metabolite found in many plants. It serves as protection from herbivores, a chelator of metal ions, a regulator of calcium levels, and additional tasks. However, it is also a strong di-carboxylic acid that can compromise plant viability by reducing cellular pH. Several metabolic pathways have evolved to control oxalate levels in plants by enzymatic degradation. Among them is the pathway that utilizes oxalyl-CoA synthetase (OCS, EC 6.2.1.8) and ATP to convert oxalate to oxalyl-CoA. Oxalyl-CoA can then be degraded to CO2 or utilized as a precursor for the synthesis of other compounds. In grass pea (Lathyrus sativus L.), a grain legume grown in Asia and Africa for human and animal consumption, the neurotoxic compound beta-N-oxalyl-l-alpha,beta-diaminopropionic acid (beta-ODAP) is synthesized from oxalyl-CoA and l-alpha,beta-diaminopropionic acid (l-DAPA). Here, we report on the identification and characterization of oxalyl CoA-synthetase from grass pea (LsOCS). The gene encoding LsOCS was amplified from grass pea, and then expressed and purified from E. coli cells as an untagged, monomeric protein of 56 kDa. Its catalytic efficiency with oxalate, K (oxalate) M = 71.5 +/- 13.3 muM, V max = 8.2 +/- 0.8 mumole min(-1) mg(-1), was similar to that of OCS homologs from Arabidopsis thaliana (AtAAE3) and Medicago truncatula (MtAAE3). The enzyme was crystalized in complex with AMP and is the first OCS whose structure was determined in the thioester-forming conformation. Finally, we propose that substituting LsOCS with an oxalate oxidase or decarboxylase may reduce the levels of beta-ODAP in grass pea.
		+
		+	The identification and characterization of an oxalyl-CoA synthetase from grass pea (Lathyrus sativus L.).,Goldsmith M, Barad S, Peleg Y, Albeck S, Dym O, Brandis A, Mehlman T, Reich Z RSC Chem Biol. 2022 Feb 8;3(3):320-333. doi: 10.1039/d1cb00202c. eCollection 2022, Mar 9. PMID:35359497<ref>PMID:35359497</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6qjz" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Dym O]]	+	[[Category: Latsa]]
		+	[[Category: Dym, O]]
		+	[[Category: Adenylating anl superfamily]]
		+	[[Category: Ligase]]

OCA at 11:12, 26 August 2020

2020-08-26T11:12:12Z

←Older revision		Revision as of 11:12, 26 August 2020
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry 6qjz is ON HOLD until Paper Publication~~	+	==Identificationand Characterization of an Oxalylfrom Grass pea (Lathyrus sativusCoA-Synthetase L.)==
-		+	<StructureSection load='6qjz' size='340' side='right'caption='[[6qjz]]' scene=''>
-	~~Authors: Dym, O.~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6QJZ OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6QJZ FirstGlance]. <br>
-	~~Description:~~ Identificationand Characterization of an Oxalylfrom Grass pea (Lathyrus sativusCoA-Synthetase L.)	+	</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=6qjz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qjz OCA], [http://pdbe.org/6qjz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6qjz RCSB], [http://www.ebi.ac.uk/pdbsum/6qjz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6qjz ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
-	[[Category: Dym, O]]	+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Dym O]]

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

2019-02-13T07:57:48Z

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

←Older revision

Revision as of 07:57, 13 February 2019

OCA: New page: '''Unreleased structure''' The entry 6qjz is ON HOLD until Paper Publication Authors: Dym, O. Description: Identificationand Characterization of an Oxalylfrom Grass pea (Lathyrus sativ...

2019-02-13T07:57:46Z

New page: '''Unreleased structure''' The entry 6qjz is ON HOLD until Paper Publication Authors: Dym, O. Description: Identificationand Characterization of an Oxalylfrom Grass pea (Lathyrus sativ...

New page

'''Unreleased structure'''

The entry 6qjz is ON HOLD until Paper Publication

Authors: Dym, O.

Description: Identificationand Characterization of an Oxalylfrom Grass pea (Lathyrus sativusCoA-Synthetase L.)
[[Category: Unreleased Structures]]
[[Category: Dym, O]]