7ceq - Revision history

OCA at 16:07, 29 November 2023

OCA — Wed, 29 Nov 2023 16:07:04 GMT

←Older revision		Revision as of 16:07, 29 November 2023
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	<StructureSection load='7ceq' size='340' side='right'caption='[[7ceq]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='7ceq' size='340' side='right'caption='[[7ceq]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[7ceq]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Bacsu Bacsu~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7CEQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7CEQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7ceq]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis_subsp._subtilis_str._168 Bacillus subtilis subsp. subtilis str. 168]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7CEQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7CEQ FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<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]] 2Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=LLP:(2S)-2-AMINO-6-[[3-HYDROXY-2-METHYL-5-(PHOSPHONOOXYMETHYL)PYRIDIN-4-YL]METHYLIDENEAMINO]HEXANOIC+ACID'>LLP</scene><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=LLP:(2S)-2-AMINO-6-[[3-HYDROXY-2-METHYL-5-(PHOSPHONOOXYMETHYL)PYRIDIN-4-YL]METHYLIDENEAMINO]HEXANOIC+ACID'>LLP</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></td></tr>
-	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b></td><td class="sblockDat">sufS, csd, yurW, BSU32690~~ (~~[https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=224308 BACSU]~~)~~</td></tr>~~	+
-	~~<tr id='activity~~'>~~<td class="sblockLbl"><b>Activity:~~</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Cysteine_desulfurase Cysteine desulfurase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.8.1.7 2.8.1.7] </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=7ceq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ceq OCA], [https://pdbe.org/7ceq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ceq RCSB], [https://www.ebi.ac.uk/pdbsum/7ceq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ceq 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=7ceq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ceq OCA], [https://pdbe.org/7ceq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ceq RCSB], [https://www.ebi.ac.uk/pdbsum/7ceq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ceq ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/SUFS_BACSU SUFS_BACSU]] Enzyme able to deliver sulfur to partners involved in Fe-S cluster assembly. Catalyzes the removal of elemental sulfur atoms from L-cysteine to produce L-alanine. Activity is stimulated 40-to 100-fold by SufU, which acts as a second substrate for this enzyme following release of Ala, and generating SufU.S. A mixture of SufS, SufU, Fra and L-cysteine is able to reconstitute Fe-S clusters on apo-aconitase (citB), reconstituting aconitase activity.<ref>PMID:20097860</ref> <ref>PMID:20822158</ref> <ref>PMID:21744456</ref>	+	[https://www.uniprot.org/uniprot/SUFS_BACSU SUFS_BACSU] Enzyme able to deliver sulfur to partners involved in Fe-S cluster assembly. Catalyzes the removal of elemental sulfur atoms from L-cysteine to produce L-alanine. Activity is stimulated 40-to 100-fold by SufU, which acts as a second substrate for this enzyme following release of Ala, and generating SufU.S. A mixture of SufS, SufU, Fra and L-cysteine is able to reconstitute Fe-S clusters on apo-aconitase (citB), reconstituting aconitase activity.<ref>PMID:20097860</ref> <ref>PMID:20822158</ref> <ref>PMID:21744456</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 19:
	</div>		</div>
	<div class="pdbe-citations 7ceq" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 7ceq" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Cysteine desulfurase 3D structures\|Cysteine desulfurase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacsu]]~~	+	[[Category: Bacillus subtilis subsp. subtilis str. 168]]
-	~~[[Category: Cysteine desulfurase~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Fujishiro, T]]	+	[[Category: Fujishiro T]]
-	[[Category: Nakamura, R]]	+	[[Category: Nakamura R]]
-	[[Category: Takahashi, Y]]	+	[[Category: Takahashi Y]]
-	~~[[Category: Biosynthetic protein]]~~	+
-	~~[[Category: Cycloserine]]~~	+
-	~~[[Category: Cysteine metabolism]]~~	+
-	~~[[Category: Fe-s cluster biosynthesis]]~~	+
-	~~[[Category: Inhibitor]]~~	+
-	~~[[Category: Plp-dependent enzyme~~]]	+

OCA at 11:47, 27 April 2022

OCA — Wed, 27 Apr 2022 11:47:03 GMT

←Older revision		Revision as of 11:47, 27 April 2022
Line 1:		Line 1:

	==Crystal structure of cysteine desulfurase SufS H121A from Bacillus subtilis==		==Crystal structure of cysteine desulfurase SufS H121A from Bacillus subtilis==
-	<StructureSection load='7ceq' size='340' side='right'caption='[[7ceq]]' scene=''>	+	<StructureSection load='7ceq' size='340' side='right'caption='[[7ceq]], [[Resolution\|resolution]] 2.00Å' 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=7CEQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7CEQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7ceq]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacsu Bacsu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7CEQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7CEQ 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=7ceq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ceq OCA], [https://pdbe.org/7ceq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ceq RCSB], [https://www.ebi.ac.uk/pdbsum/7ceq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ceq 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=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></td></tr>
		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=LLP:(2S)-2-AMINO-6-[[3-HYDROXY-2-METHYL-5-(PHOSPHONOOXYMETHYL)PYRIDIN-4-YL]METHYLIDENEAMINO]HEXANOIC+ACID'>LLP</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">sufS, csd, yurW, BSU32690 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=224308 BACSU])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Cysteine_desulfurase Cysteine desulfurase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.8.1.7 2.8.1.7] </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=7ceq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ceq OCA], [https://pdbe.org/7ceq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ceq RCSB], [https://www.ebi.ac.uk/pdbsum/7ceq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ceq ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[https://www.uniprot.org/uniprot/SUFS_BACSU SUFS_BACSU]] Enzyme able to deliver sulfur to partners involved in Fe-S cluster assembly. Catalyzes the removal of elemental sulfur atoms from L-cysteine to produce L-alanine. Activity is stimulated 40-to 100-fold by SufU, which acts as a second substrate for this enzyme following release of Ala, and generating SufU.S. A mixture of SufS, SufU, Fra and L-cysteine is able to reconstitute Fe-S clusters on apo-aconitase (citB), reconstituting aconitase activity.<ref>PMID:20097860</ref> <ref>PMID:20822158</ref> <ref>PMID:21744456</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The cysteine desulfurase SufS is a pyridoxal-5'-phosphate-dependent enzyme and is essential for the SUF system, which participates in iron-sulfur cluster biosynthesis. Inhibition of SufS in the SUF system by D-cycloserine (DCS) in Plasmodium falciparum apicoplast has recently been reported, indicating that SufS could be a target for malaria therapeutics. However, the mechanistic details underlying the inhibition of SufS by DCS have not yet been clarified. Moreover, inhibition of SufS by the other enantiomer, L-cycloserine (LCS), has not been investigated. Herein, we investigated the structure-based inhibition mechanisms of SufS by DCS and LCS using Bacillus subtilis SufS, whose catalytic mechanism has been well characterized in comparison to that of the P. falciparum SufS. Surprisingly, DCS- and LCS-mediated inhibitions of SufS occur via distinct mechanisms resulting in pyridoxamine-5'-phosphate (PMP) in DCS-mediated inhibition and PMP-3-hydroxyisoxazole adduct (PMP-isoxazole) in LCS-mediated inhibition. Biochemical and structural evaluation of SufS variants identified conserved His and Arg residues at the active site as the key determinants of the distinct inhibition mechanisms. The importance of structural elements involved in DCS and LCS-mediated inhibitions of SufS provides valuable insights for the structure-based design of new drugs targeting SufS. DATABASE: Structural data are available in PDB database under the accession numbers 6KFY, 7CEO, 7CEP, 7CEQ, 7CER, 7CES, 7CET, 7CEU, 7E6A, 7E6B, 7E6C, 7E6D, 7E6E, and 7E6F.
		+
		+	Cycloserine enantiomers inhibit PLP-dependent cysteine desulfurase SufS via distinct mechanisms.,Nakamura R, Ogawa S, Takahashi Y, Fujishiro T FEBS J. 2022 Apr 8. doi: 10.1111/febs.16455. PMID:35395703<ref>PMID:35395703</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7ceq" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bacsu]]
		+	[[Category: Cysteine desulfurase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Fujishiro T]]	+	[[Category: Fujishiro, T]]
-	[[Category: Nakamura R]]	+	[[Category: Nakamura, R]]
-	[[Category: Takahashi Y]]	+	[[Category: Takahashi, Y]]
		+	[[Category: Biosynthetic protein]]
		+	[[Category: Cycloserine]]
		+	[[Category: Cysteine metabolism]]
		+	[[Category: Fe-s cluster biosynthesis]]
		+	[[Category: Inhibitor]]
		+	[[Category: Plp-dependent enzyme]]

OCA at 03:32, 2 July 2021

OCA — Fri, 02 Jul 2021 03:32:23 GMT

←Older revision		Revision as of 03:32, 2 July 2021
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 7ceq is ~~ON HOLD until Paper Publication~~	+	==Crystal structure of cysteine desulfurase SufS H121A from Bacillus subtilis==
-		+	<StructureSection load='7ceq' size='340' side='right'caption='[[7ceq]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7CEQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7CEQ 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=7ceq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ceq OCA], [https://pdbe.org/7ceq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ceq RCSB], [https://www.ebi.ac.uk/pdbsum/7ceq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ceq ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Fujishiro T]]
		+	[[Category: Nakamura R]]
		+	[[Category: Takahashi Y]]

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

OCA — Wed, 08 Jul 2020 11:28:29 GMT

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

←Older revision

Revision as of 11:28, 8 July 2020

OCA: New page: '''Unreleased structure''' The entry 7ceq is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

OCA — Wed, 08 Jul 2020 11:28:27 GMT

New page: '''Unreleased structure''' The entry 7ceq is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 7ceq is ON HOLD until Paper Publication

Authors:

Description:
[[Category: Unreleased Structures]]