6xyl - Revision history

OCA at 13:15, 24 January 2024

OCA — Wed, 24 Jan 2024 13:15:31 GMT

←Older revision		Revision as of 13:15, 24 January 2024
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	<StructureSection load='6xyl' size='340' side='right'caption='[[6xyl]], [[Resolution\|resolution]] 3.15Å' scene=''>		<StructureSection load='6xyl' size='340' side='right'caption='[[6xyl]], [[Resolution\|resolution]] 3.15Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6xyl]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Toxgm Toxgm~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6XYL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6XYL FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6xyl]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Toxoplasma_gondii_ME49 Toxoplasma gondii ME49]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6XYL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6XYL FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=P1T:2~~-~~[({3-HYDROXY-2-METHYL-5-[(PHOSPHONOOXY)METHYL]PYRIDIN-4-YL}METHYL)AMINO]ACRYLIC+ACID'>P1T</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]] 3.151Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>~~[[~~Related_structure~~\|~~Related:~~]]~~</b></td><td class="sblockDat"><div style='overflow: auto~~; ~~max-height: 3em;'>[[4lod\|4lod]], [[1jbq\|1jbq]]</div>~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=P1T:2-[({3-HYDROXY-2-METHYL-5-[(PHOSPHONOOXY)METHYL]PYRIDIN-4-YL}METHYL)AMINO]ACRYLIC+ACID'>P1T</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>TGME49_259180 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id~~=508771 TOXGM])</td></tr>~~	+
-	~~<tr id='activity'><td class~~="~~sblockLbl~~"><~~b>Activity:</b></td><td class~~=~~"sblockDat"><span class~~=~~'plainlinks'>[https~~:~~//en.wikipedia.org/wiki/Cystathionine_beta~~-~~synthase Cystathionine beta~~-~~synthase~~]~~, with EC number [https://www.brenda~~-~~enzymes.info/php/result_flat.php4?ecno=~~4~~.2.1.22 4.2.1.22~~] </~~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=6xyl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6xyl OCA], [https://pdbe.org/6xyl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6xyl RCSB], [https://www.ebi.ac.uk/pdbsum/6xyl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6xyl 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=6xyl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6xyl OCA], [https://pdbe.org/6xyl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6xyl RCSB], [https://www.ebi.ac.uk/pdbsum/6xyl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6xyl ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0A125YSJ9_TOXGM A0A125YSJ9_TOXGM]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</div>		</div>
	<div class="pdbe-citations 6xyl" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6xyl" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Cystathionine ÃÂ²-synthase 3D structures\|Cystathionine ÃÂ²-synthase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Cystathionine beta-synthase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Toxgm~~]]	+	[[Category: Toxoplasma gondii ME49]]
-	[[Category: Astegno, A]]	+	[[Category: Astegno A]]
-	[[Category: Conter, C]]	+	[[Category: Conter C]]
-	[[Category: Fernandez-Rodriguez, C]]	+	[[Category: Fernandez-Rodriguez C]]
-	[[Category: Gonzalez-Recio, I]]	+	[[Category: Gonzalez-Recio I]]
-	[[Category: Martinez-Chantar, M]]	+	[[Category: Martinez-Chantar M]]
-	[[Category: Martinez-Cruz~~, L A~~]]	+	[[Category: Martinez-Cruz LA]]
-	[[Category: Oyenarte, I]]	+	[[Category: Oyenarte I]]
-	[[Category: Quintana, I]]	+	[[Category: Quintana I]]
-	~~[[Category: Cb]]~~	+
-	~~[[Category: Cytosolic protein]]~~	+
-	~~[[Category: Homocysteine]]~~	+
-	~~[[Category: Hydrogen sulfide]]~~	+
-	~~[[Category: Serine]]~~	+
-	~~[[Category: Transulfuration~~]]	+

OCA at 08:55, 29 September 2021

OCA — Wed, 29 Sep 2021 08:55:54 GMT

←Older revision		Revision as of 08:55, 29 September 2021
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	==Crystal structure of delta466-491 cystathionine beta-synthase from Toxoplasma gondii with L-serine==		==Crystal structure of delta466-491 cystathionine beta-synthase from Toxoplasma gondii with L-serine==
-	<StructureSection load='6xyl' size='340' side='right'caption='[[6xyl]]' scene=''>	+	<StructureSection load='6xyl' size='340' side='right'caption='[[6xyl]], [[Resolution\|resolution]] 3.15Å' 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=6XYL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6XYL FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6xyl]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Toxgm Toxgm]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6XYL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6XYL 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=6xyl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6xyl OCA], [https://pdbe.org/6xyl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6xyl RCSB], [https://www.ebi.ac.uk/pdbsum/6xyl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6xyl 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=P1T:2-[({3-HYDROXY-2-METHYL-5-[(PHOSPHONOOXY)METHYL]PYRIDIN-4-YL}METHYL)AMINO]ACRYLIC+ACID'>P1T</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[4lod\|4lod]], [[1jbq\|1jbq]]</div></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TGME49_259180 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=508771 TOXGM])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Cystathionine_beta-synthase Cystathionine beta-synthase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.1.22 4.2.1.22] </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=6xyl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6xyl OCA], [https://pdbe.org/6xyl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6xyl RCSB], [https://www.ebi.ac.uk/pdbsum/6xyl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6xyl ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Cysteine plays a major role in the redox homeostasis and antioxidative defense mechanisms of many parasites of the phylum Apicomplexa. Of relevance to human health is Toxoplasma gondii, the causative agent of toxoplasmosis. A major route of cysteine biosynthesis in this parasite is the reverse transsulfuration pathway involving two key enzymes cystathionine beta-synthase (CBS) and cystathionine gamma-lyase (CGL). CBS from T. gondii (TgCBS) catalyzes the pyridoxal-5-phosphate-dependent condensation of homocysteine with either serine or O-acetylserine to produce cystathionine. The enzyme can perform alternative reactions that use homocysteine and cysteine as substrates leading to the endogenous biosynthesis of hydrogen sulfide, another key element in maintaining the intracellular redox equilibrium. In contrast with human CBS, TgCBS lacks the N-terminal heme binding domain and is not responsive to S-adenosylmethionine. Herein, we describe the structure of a TgCBS construct that lacks amino acid residues 466-491 and shows the same activity of the native protein. TgCBS Delta466-491 was determined alone and in complex with reaction intermediates. A complementary molecular dynamics analysis revealed a unique domain organization, similar to the pathogenic mutant D444N of human CBS. Our data provides one missing piece in the structural diversity of CBSs by revealing the so far unknown three-dimensional arrangement of the CBS-type of Apicomplexa. This domain distribution is also detected in yeast and bacteria like Pseudomonas aeruginosa. These results pave the way for understanding the mechanisms by which TgCBS regulates the intracellular redox of the parasite, and have far-reaching consequences for the functional understanding of CBSs with similar domain distribution.
		+
		+	Structural insight into the unique conformation of cystathionine beta-synthase from Toxoplasma gondii.,Fernandez-Rodriguez C, Oyenarte I, Conter C, Gonzalez-Recio I, Nunez-Franco R, Gil-Pitarch C, Quintana I, Jimenez-Oses G, Dominici P, Martinez-Chantar ML, Astegno A, Martinez-Cruz LA Comput Struct Biotechnol J. 2021 Jun 6;19:3542-3555. doi:, 10.1016/j.csbj.2021.05.052. eCollection 2021. PMID:34194677<ref>PMID:34194677</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6xyl" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Cystathionine beta-synthase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Astegno A]]	+	[[Category: Toxgm]]
-	[[Category: Conter C]]	+	[[Category: Astegno, A]]
-	[[Category: Fernandez-Rodriguez C]]	+	[[Category: Conter, C]]
-	[[Category: Gonzalez-Recio I]]	+	[[Category: Fernandez-Rodriguez, C]]
-	[[Category: Martinez-Chantar M]]	+	[[Category: Gonzalez-Recio, I]]
-	[[Category: Martinez-Cruz LA]]	+	[[Category: Martinez-Chantar, M]]
-	[[Category: Oyenarte I]]	+	[[Category: Martinez-Cruz, L A]]
-	[[Category: Quintana I]]	+	[[Category: Oyenarte, I]]
		+	[[Category: Quintana, I]]
		+	[[Category: Cb]]
		+	[[Category: Cytosolic protein]]
		+	[[Category: Homocysteine]]
		+	[[Category: Hydrogen sulfide]]
		+	[[Category: Serine]]
		+	[[Category: Transulfuration]]

OCA at 10:55, 10 February 2021

OCA — Wed, 10 Feb 2021 10:55:54 GMT

←Older revision		Revision as of 10:55, 10 February 2021
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-	'''Unreleased structure'''

-	~~The entry~~ 6xyl is ~~ON HOLD until Paper Publication~~	+	==Crystal structure of delta466-491 cystathionine beta-synthase from Toxoplasma gondii with L-serine==
-		+	<StructureSection load='6xyl' size='340' side='right'caption='[[6xyl]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6XYL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6XYL 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=6xyl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6xyl OCA], [https://pdbe.org/6xyl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6xyl RCSB], [https://www.ebi.ac.uk/pdbsum/6xyl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6xyl ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Astegno A]]
		+	[[Category: Conter C]]
		+	[[Category: Fernandez-Rodriguez C]]
		+	[[Category: Gonzalez-Recio I]]
		+	[[Category: Martinez-Chantar M]]
		+	[[Category: Martinez-Cruz LA]]
		+	[[Category: Oyenarte I]]
		+	[[Category: Quintana I]]

OCA at 04:54, 2 September 2020

OCA — Wed, 02 Sep 2020 04:54:45 GMT

←Older revision		Revision as of 04:54, 2 September 2020
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	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors:		Authors:

OCA at 03:53, 5 August 2020

OCA — Wed, 05 Aug 2020 03:53:25 GMT

←Older revision		Revision as of 03:53, 5 August 2020
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors:		Authors:

OCA at 07:06, 22 July 2020

OCA — Wed, 22 Jul 2020 07:06:42 GMT

←Older revision		Revision as of 07:06, 22 July 2020
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors:		Authors:

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

OCA — Wed, 05 Feb 2020 06:31:02 GMT

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

←Older revision

Revision as of 06:31, 5 February 2020

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

OCA — Wed, 05 Feb 2020 06:31:01 GMT

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

New page

'''Unreleased structure'''

The entry 6xyl is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]