5mek - Revision history

OCA at 18:40, 1 November 2023

OCA — Wed, 01 Nov 2023 18:40:58 GMT

←Older revision		Revision as of 18:40, 1 November 2023
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	<StructureSection load='5mek' size='340' side='right'caption='[[5mek]], [[Resolution\|resolution]] 1.74Å' scene=''>		<StructureSection load='5mek' size='340' side='right'caption='[[5mek]], [[Resolution\|resolution]] 1.74Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5mek]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MEK OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5MEK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5mek]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MEK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5MEK FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=A3P:ADENOSINE-3-5-DIPHOSPHATE'>A3P</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=POL:N-PROPANOL'>POL</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]] 1.74Å</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=5mek FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mek OCA], [~~http~~://pdbe.org/5mek PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5mek RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5mek PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5mek ProSAT]</span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=A3P:ADENOSINE-3-5-DIPHOSPHATE'>A3P</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=POL:N-PROPANOL'>POL</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=5mek FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mek OCA], [https://pdbe.org/5mek PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5mek RCSB], [https://www.ebi.ac.uk/pdbsum/5mek PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5mek ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/SOT18_ARATH SOT18_ARATH]] Sulfotransferase that utilizes 3'-phospho-5'-adenylyl sulfate (PAPS) as sulfonate donor to catalyze the sulfate conjugation of desulfo-glucosinolates (dsGSs), the final step in the biosynthesis of the glucosinolate core structure. Preferred substrate are the long-chain desulfo-glucosinolates, 7-methylthioheptyl and 8-methylthiooctyl, derived from methionine. Substrate preference is desulfo-benzyl glucosinolate > desulfo-4-methylthiobutyl glucosinolate > desulfo-6-methylthiohexyl glucosinolate > desulfo-3-methylthiopropyl glucosinolate > desulfo-indol-3-yl methyl glucosinolate > desulfo-singrin > desulfo-3-butenyl glucosinolate.<ref>PMID:15358770</ref> <ref>PMID:15866872</ref> <ref>PMID:16367753</ref> <ref>PMID:19077143</ref> <ref>PMID:21281472</ref>	+	[https://www.uniprot.org/uniprot/SOT18_ARATH SOT18_ARATH] Sulfotransferase that utilizes 3'-phospho-5'-adenylyl sulfate (PAPS) as sulfonate donor to catalyze the sulfate conjugation of desulfo-glucosinolates (dsGSs), the final step in the biosynthesis of the glucosinolate core structure. Preferred substrate are the long-chain desulfo-glucosinolates, 7-methylthioheptyl and 8-methylthiooctyl, derived from methionine. Substrate preference is desulfo-benzyl glucosinolate > desulfo-4-methylthiobutyl glucosinolate > desulfo-6-methylthiohexyl glucosinolate > desulfo-3-methylthiopropyl glucosinolate > desulfo-indol-3-yl methyl glucosinolate > desulfo-singrin > desulfo-3-butenyl glucosinolate.<ref>PMID:15358770</ref> <ref>PMID:15866872</ref> <ref>PMID:16367753</ref> <ref>PMID:19077143</ref> <ref>PMID:21281472</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 20:		Line 21:

	==See Also==		==See Also==
-	*[[Sulfotransferase\|Sulfotransferase]]	+	*[[Sulfotransferase 3D structures\|Sulfotransferase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Arabidopsis thaliana]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Baruch, P]]	+	[[Category: Baruch P]]
-	[[Category: Chizhov, I]]	+	[[Category: Chizhov I]]
-	[[Category: Fedorov, R]]	+	[[Category: Fedorov R]]
-	[[Category: Hirschmann, F]]	+	[[Category: Hirschmann F]]
-	[[Category: Krause, F]]	+	[[Category: Krause F]]
-	[[Category: Manstein~~, D J~~]]	+	[[Category: Manstein DJ]]
-	[[Category: Mueller~~, J W~~]]	+	[[Category: Mueller JW]]
-	[[Category: Papenbrock, J]]	+	[[Category: Papenbrock J]]
-	~~[[Category: Catalysis]]~~	+
-	~~[[Category: Glucosinolate-biosynthesis]]~~	+
-	~~[[Category: Sulphotransferase]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 07:16, 19 August 2020

OCA — Wed, 19 Aug 2020 07:16:37 GMT

←Older revision		Revision as of 07:16, 19 August 2020
Line 1:		Line 1:

	==Sulphotransferase-18 from Arabidopsis thaliana in complex with 3'-phosphoadenosine 5'-phosphate (PAP)==		==Sulphotransferase-18 from Arabidopsis thaliana in complex with 3'-phosphoadenosine 5'-phosphate (PAP)==
-	<StructureSection load='5mek' size='340' side='right' caption='[[5mek]], [[Resolution\|resolution]] 1.74Å' scene=''>	+	<StructureSection load='5mek' size='340' side='right'caption='[[5mek]], [[Resolution\|resolution]] 1.74Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5mek]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MEK OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5MEK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5mek]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MEK OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5MEK FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=A3P:ADENOSINE-3-5-DIPHOSPHATE'>A3P</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=POL:N-PROPANOL'>POL</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=A3P:ADENOSINE-3-5-DIPHOSPHATE'>A3P</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=POL:N-PROPANOL'>POL</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=5mek FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mek OCA], [http://pdbe.org/5mek PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5mek RCSB], [http://www.ebi.ac.uk/pdbsum/5mek PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5mek ProSAT]</span></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=5mek FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mek OCA], [http://pdbe.org/5mek PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5mek RCSB], [http://www.ebi.ac.uk/pdbsum/5mek PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5mek ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		Line 18:
	</div>		</div>
	<div class="pdbe-citations 5mek" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5mek" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Sulfotransferase\|Sulfotransferase]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Baruch, P]]		[[Category: Baruch, P]]
	[[Category: Chizhov, I]]		[[Category: Chizhov, I]]

OCA at 03:52, 6 September 2017

OCA — Wed, 06 Sep 2017 03:52:19 GMT

←Older revision		Revision as of 03:52, 6 September 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5mek is ~~ON HOLD~~	+	==Sulphotransferase-18 from Arabidopsis thaliana in complex with 3'-phosphoadenosine 5'-phosphate (PAP)==
		+	<StructureSection load='5mek' size='340' side='right' caption='[[5mek]], [[Resolution\|resolution]] 1.74Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5mek]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MEK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5MEK FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=A3P:ADENOSINE-3-5-DIPHOSPHATE'>A3P</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=POL:N-PROPANOL'>POL</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=5mek FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mek OCA], [http://pdbe.org/5mek PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5mek RCSB], [http://www.ebi.ac.uk/pdbsum/5mek PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5mek ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/SOT18_ARATH SOT18_ARATH]] Sulfotransferase that utilizes 3'-phospho-5'-adenylyl sulfate (PAPS) as sulfonate donor to catalyze the sulfate conjugation of desulfo-glucosinolates (dsGSs), the final step in the biosynthesis of the glucosinolate core structure. Preferred substrate are the long-chain desulfo-glucosinolates, 7-methylthioheptyl and 8-methylthiooctyl, derived from methionine. Substrate preference is desulfo-benzyl glucosinolate > desulfo-4-methylthiobutyl glucosinolate > desulfo-6-methylthiohexyl glucosinolate > desulfo-3-methylthiopropyl glucosinolate > desulfo-indol-3-yl methyl glucosinolate > desulfo-singrin > desulfo-3-butenyl glucosinolate.<ref>PMID:15358770</ref> <ref>PMID:15866872</ref> <ref>PMID:16367753</ref> <ref>PMID:19077143</ref> <ref>PMID:21281472</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Sulphotransferases are a diverse group of enzymes catalysing the transfer of a sulfuryl group from 3'-phosphoadenosine 5'-phosphosulphate (PAPS) to a broad range of secondary metabolites. They exist in all kingdoms of life. In Arabidopsis thaliana (L.) Heynh. twenty-two sulphotransferase (SOT) isoforms were identified. Three of those are involved in glucosinolate (Gl) biosynthesis, glycosylated sulphur-containing aldoximes containing chemically different side chains, whose break-down products are involved in stress response against herbivores, pathogens, and abiotic stress. To explain the differences in substrate specificity of desulpho (ds)-Gl SOTs and to understand the reaction mechanism of plant SOTs, we determined the first high-resolution crystal structure of the plant ds-Gl SOT AtSOT18 in complex with 3'-phosphoadenosine 5'-phosphate (PAP) alone and together with the Gl sinigrin. These new structural insights into the determination of substrate specificity were complemented by mutagenesis studies. The structure of AtSOT18 invigorates the similarity between plant and mammalian sulphotransferases, which illustrates the evolutionary conservation of this multifunctional enzyme family. We identified the essential residues for substrate binding and catalysis and demonstrated that the catalytic mechanism is conserved between human and plant enzymes. Our study indicates that the loop-gating mechanism is likely to be a source of the substrate specificity in plants.

-	~~Authors~~:	+	Structural and biochemical studies of sulphotransferase 18 from Arabidopsis thaliana explain its substrate specificity and reaction mechanism.,Hirschmann F, Krause F, Baruch P, Chizhov I, Mueller JW, Manstein DJ, Papenbrock J, Fedorov R Sci Rep. 2017 Jun 23;7(1):4160. doi: 10.1038/s41598-017-04539-2. PMID:28646214<ref>PMID:28646214</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5mek" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Baruch, P]]
		+	[[Category: Chizhov, I]]
		+	[[Category: Fedorov, R]]
		+	[[Category: Hirschmann, F]]
		+	[[Category: Krause, F]]
		+	[[Category: Manstein, D J]]
		+	[[Category: Mueller, J W]]
		+	[[Category: Papenbrock, J]]
		+	[[Category: Catalysis]]
		+	[[Category: Glucosinolate-biosynthesis]]
		+	[[Category: Sulphotransferase]]
		+	[[Category: Transferase]]

OCA: Protected "5mek" [edit=sysop:move=sysop]

OCA — Fri, 09 Dec 2016 16:44:13 GMT

Protected "5mek" [edit=sysop:move=sysop]

←Older revision

Revision as of 16:44, 9 December 2016

OCA: New page: '''Unreleased structure''' The entry 5mek is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Fri, 09 Dec 2016 16:44:12 GMT

New page: '''Unreleased structure''' The entry 5mek is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5mek is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]