OCA at 10:57, 22 November 2023

OCA — Wed, 22 Nov 2023 10:57:31 GMT

←Older revision		Revision as of 10:57, 22 November 2023
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	==Crystal structure of cystathionine gamma-lyase from Lactobacillus plantarum complexed with L-serine==		==Crystal structure of cystathionine gamma-lyase from Lactobacillus plantarum complexed with L-serine==
-	<StructureSection load='6ldo' size='340' side='right'caption='[[6ldo]]' scene=''>	+	<StructureSection load='6ldo' size='340' side='right'caption='[[6ldo]], [[Resolution\|resolution]] 2.75Å' 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=6LDO OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6LDO FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6ldo]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Lactiplantibacillus_plantarum Lactiplantibacillus plantarum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6LDO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6LDO 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=6ldo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ldo OCA], [~~http~~://pdbe.org/6ldo PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6ldo RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6ldo PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6ldo ProSAT]</span></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]] 2.75Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=KOU:(E)-N-({3-HYDROXY-2-METHYL-5-[(PHOSPHONOOXY)METHYL]PYRIDIN-4-YL}METHYLIDENE)-L-SERINE'>KOU</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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=6ldo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ldo OCA], [https://pdbe.org/6ldo PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6ldo RCSB], [https://www.ebi.ac.uk/pdbsum/6ldo PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6ldo ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/F9UT53_LACPL F9UT53_LACPL]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The reverse transsulfuration pathway, which is composed of cystathionine beta-synthase (CBS) and cystathionine gamma-lyase (CGL), plays a role to synthesize L-cysteine using L-serine and the sulfur atom in L-methionine. A plant-derived lactic acid bacterium Lactobacillus plantarum SN35N has been previously found to harbor the gene cluster encoding the CBS- and CGL-like enzymes. In addition, it has been demonstrated that the L. plantarum CBS can synthesize cystathionine from O-acetyl-L-serine and L-homocysteine. The aim of this study is to characterize the enzymatic functions of the L. plantarum CGL. We have found that the enzyme has the high gamma-lyase activity toward cystathionine to generate L-cysteine, together with the beta-lyase activity toward L-cystine to generate L-cysteine persulfide. By the crystallographic analysis of the inactive CGL K194A mutant complexed with cystathionine, we have found the residues which recognize the distal amino and carboxyl groups of cystathionine or L-cystine. The PLP-bound substrates at the active site may take either the binding pose for the gamma- or beta-elimination reaction, with the former being the major reaction in the case of cystathionine.
		+
		+	Catalytic specificity of the Lactobacillus plantarum cystathionine gamma-lyase presumed by the crystallographic analysis.,Matoba Y, Noda M, Yoshida T, Oda K, Ezumi Y, Yasutake C, Izuhara-Kihara H, Danshiitsoodol N, Kumagai T, Sugiyama M Sci Rep. 2020 Sep 10;10(1):14886. doi: 10.1038/s41598-020-71756-7. PMID:32913258<ref>PMID:32913258</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6ldo" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Cystathionine beta-lyase\|Cystathionine beta-lyase]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Lactiplantibacillus plantarum]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Matoba Y]]		[[Category: Matoba Y]]
	[[Category: Oda K]]		[[Category: Oda K]]

OCA at 06:16, 7 October 2020

OCA — Wed, 07 Oct 2020 06:16:06 GMT

←Older revision		Revision as of 06:16, 7 October 2020
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-	'''Unreleased structure'''

-	~~The entry~~ 6ldo ~~is ON HOLD until Paper Publication~~	+	==Crystal structure of cystathionine gamma-lyase from Lactobacillus plantarum complexed with L-serine==
-		+	<StructureSection load='6ldo' size='340' side='right'caption='[[6ldo]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6LDO OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6LDO 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=6ldo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ldo OCA], [http://pdbe.org/6ldo PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ldo RCSB], [http://www.ebi.ac.uk/pdbsum/6ldo PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ldo ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Matoba Y]]
		+	[[Category: Oda K]]

OCA at 13:24, 11 December 2019

OCA — Wed, 11 Dec 2019 13:24:22 GMT

←Older revision		Revision as of 13:24, 11 December 2019
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	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors:		Authors:

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

OCA — Wed, 27 Nov 2019 05:09:28 GMT

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

←Older revision

Revision as of 05:09, 27 November 2019

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

OCA — Wed, 27 Nov 2019 05:09:26 GMT

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

New page

'''Unreleased structure'''

The entry 6ldo is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]

6ldo - Revision history

OCA at 10:57, 22 November 2023

OCA at 06:16, 7 October 2020

OCA at 13:24, 11 December 2019

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

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