2h7x - Revision history

OCA at 09:53, 30 August 2023

OCA — Wed, 30 Aug 2023 09:53:34 GMT

←Older revision		Revision as of 09:53, 30 August 2023
Line 3:		Line 3:
	<StructureSection load='2h7x' size='340' side='right'caption='[[2h7x]], [[Resolution\|resolution]] 1.85Å' scene=''>		<StructureSection load='2h7x' size='340' side='right'caption='[[2h7x]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2h7x]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~As_4.1526 As 4.1526~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2H7X OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2H7X FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2h7x]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptomyces_venezuelae Streptomyces venezuelae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2H7X OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2H7X FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PSX:[(2S,3R,4S)-2,4-DIHYDROXY-3-METHYLHEXYL]PHOSPHONIC+ACID'>PSX</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 1.85Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1mna\|1mna]], [[2h7y\|2h7y]]</div></td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PSX:[(2S,3R,4S)-2,4-DIHYDROXY-3-METHYLHEXYL]PHOSPHONIC+ACID'>PSX</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pikAIV ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=54571 AS 4.1526])~~</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=2h7x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2h7x OCA], [https://pdbe.org/2h7x PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2h7x RCSB], [https://www.ebi.ac.uk/pdbsum/2h7x PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2h7x 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=2h7x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2h7x OCA], [https://pdbe.org/2h7x PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2h7x RCSB], [https://www.ebi.ac.uk/pdbsum/2h7x PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2h7x ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/PIKA4_STRVZ PIKA4_STRVZ] Involved in the biosynthesis of 12- and 14-membered ring macrolactone antibiotics such as methymycin and neomethymycin, and pikromycin and narbomycin, respectively. Component of the pikromycin PKS which catalyzes the biosynthesis of both precursors 10-deoxymethynolide (12-membered ring macrolactone) and narbonolide (14-membered ring macrolactone). Chain elongation through PikAI, PikAII and PikAIII followed by thioesterase catalyzed termination results in the production of 10-deoxymethynolide, while continued elongation through PikAIV, followed by thioesterase (TE) catalyzed cyclization results in the biosynthesis of the narbonolide. The thioesterase can use a series of diketide-N-acetylcysteamine (SNAC) thioesters, but has a strong preference for the 2-methyl-3-ketopentanoyl-SNAC over the stereoisomers of 2-methyl-3-hydroxyacyl-SNAC (PubMed:12379101, PubMed:12733905).<ref>PMID:10421766</ref> <ref>PMID:10676969</ref> <ref>PMID:12379101</ref> <ref>PMID:12733905</ref> <ref>PMID:16969372</ref> <ref>PMID:17719493</ref> <ref>PMID:19027305</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: As 4 1526]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Akey, D L~~]]	+	[[Category: Streptomyces venezuelae]]
-	[[Category: ~~Fecik, R A~~]]	+	[[Category: Akey DL]]
-	[[Category: ~~Giraldes, J W~~]]	+	[[Category: Fecik RA]]
-	[[Category: ~~Kittendorf, J D~~]]	+	[[Category: Giraldes JW]]
-	[[Category: ~~Sherman, D H~~]]	+	[[Category: Kittendorf JD]]
-	[[Category: ~~Smith, J S~~]]	+	[[Category: Sherman DH]]
-	[[Category: ~~Alpha-beta hydrolase]]~~	+	[[Category: Smith JS]]
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Thioesterase~~]]	+

OCA at 07:33, 17 March 2021

OCA — Wed, 17 Mar 2021 07:33:49 GMT

←Older revision		Revision as of 07:33, 17 March 2021
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	==Pikromycin Thioesterase adduct with reduced triketide affinity label==		==Pikromycin Thioesterase adduct with reduced triketide affinity label==
-	<StructureSection load='2h7x' size='340' side='right' caption='[[2h7x]], [[Resolution\|resolution]] 1.85Å' scene=''>	+	<StructureSection load='2h7x' size='340' side='right'caption='[[2h7x]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2h7x]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/As_4.1526 As 4.1526]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2H7X OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2H7X FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2h7x]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/As_4.1526 As 4.1526]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2H7X OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2H7X FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PSX:[(2S,3R,4S)-2,4-DIHYDROXY-3-METHYLHEXYL]PHOSPHONIC+ACID'>PSX</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PSX:[(2S,3R,4S)-2,4-DIHYDROXY-3-METHYLHEXYL]PHOSPHONIC+ACID'>PSX</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1mna\|1mna]], [[2h7y\|2h7y]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1mna\|1mna]], [[2h7y\|2h7y]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pikAIV ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=54571 AS 4.1526])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pikAIV ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=54571 AS 4.1526])</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=2h7x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2h7x OCA], [~~http~~://pdbe.org/2h7x PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2h7x RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2h7x PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2h7x 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=2h7x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2h7x OCA], [https://pdbe.org/2h7x PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2h7x RCSB], [https://www.ebi.ac.uk/pdbsum/2h7x PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2h7x ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 33:		Line 33:
	</StructureSection>		</StructureSection>
	[[Category: As 4 1526]]		[[Category: As 4 1526]]
		+	[[Category: Large Structures]]
	[[Category: Akey, D L]]		[[Category: Akey, D L]]
	[[Category: Fecik, R A]]		[[Category: Fecik, R A]]

OCA at 06:07, 27 June 2018

OCA — Wed, 27 Jun 2018 06:07:41 GMT

←Older revision		Revision as of 06:07, 27 June 2018
Line 1:		Line 1:
		+
	==Pikromycin Thioesterase adduct with reduced triketide affinity label==		==Pikromycin Thioesterase adduct with reduced triketide affinity label==
	<StructureSection load='2h7x' size='340' side='right' caption='[[2h7x]], [[Resolution\|resolution]] 1.85Å' scene=''>		<StructureSection load='2h7x' size='340' side='right' caption='[[2h7x]], [[Resolution\|resolution]] 1.85Å' scene=''>
Line 6:		Line 7:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1mna\|1mna]], [[2h7y\|2h7y]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1mna\|1mna]], [[2h7y\|2h7y]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pikAIV ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=54571 AS 4.1526])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pikAIV ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=54571 AS 4.1526])</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=2h7x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2h7x OCA], [http://pdbe.org/2h7x PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2h7x RCSB], [http://www.ebi.ac.uk/pdbsum/2h7x PDBsum]</span></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=2h7x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2h7x OCA], [http://pdbe.org/2h7x PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2h7x RCSB], [http://www.ebi.ac.uk/pdbsum/2h7x PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2h7x ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 12:		Line 13:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/h7/2h7x_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/h7/2h7x_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2h7x ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 15:42, 11 September 2015

OCA — Fri, 11 Sep 2015 15:42:47 GMT

←Older revision		Revision as of 15:42, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='2h7x' size='340' side='right' caption='[[2h7x]], [[Resolution\|resolution]] 1.85Å' scene=''>		<StructureSection load='2h7x' size='340' side='right' caption='[[2h7x]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2h7x]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Streptomyces_venezuelae Streptomyces venezuelae~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2H7X OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2H7X FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2h7x]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/As_4.1526 As 4.1526]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2H7X OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2H7X FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PSX:[(2S,3R,4S)-2,4-DIHYDROXY-3-METHYLHEXYL]PHOSPHONIC+ACID'>PSX</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PSX:[(2S,3R,4S)-2,4-DIHYDROXY-3-METHYLHEXYL]PHOSPHONIC+ACID'>PSX</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1mna\|1mna]], [[2h7y\|2h7y]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1mna\|1mna]], [[2h7y\|2h7y]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pikAIV ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=54571 ~~Streptomyces venezuelae~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pikAIV ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=54571 AS 4.1526])</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=2h7x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2h7x OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2h7x RCSB], [http://www.ebi.ac.uk/pdbsum/2h7x PDBsum]</span></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=2h7x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2h7x OCA], [http://pdbe.org/2h7x PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2h7x RCSB], [http://www.ebi.ac.uk/pdbsum/2h7x PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 26:		Line 26:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 2h7x" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Streptomyces venezuelae~~]]	+	[[Category: As 4 1526]]
	[[Category: Akey, D L]]		[[Category: Akey, D L]]
	[[Category: Fecik, R A]]		[[Category: Fecik, R A]]

OCA at 08:47, 16 January 2015

OCA — Fri, 16 Jan 2015 08:47:00 GMT

←Older revision		Revision as of 08:47, 16 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2h7x]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptomyces_venezuelae Streptomyces venezuelae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2H7X OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2H7X FirstGlance]. <br>		<table><tr><td colspan='2'>[[2h7x]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptomyces_venezuelae Streptomyces venezuelae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2H7X OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2H7X FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PSX:[(2S,3R,4S)-2,4-DIHYDROXY-3-METHYLHEXYL]PHOSPHONIC+ACID'>PSX</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PSX:[(2S,3R,4S)-2,4-DIHYDROXY-3-METHYLHEXYL]PHOSPHONIC+ACID'>PSX</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1mna\|1mna]], [[2h7y\|2h7y]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1mna\|1mna]], [[2h7y\|2h7y]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pikAIV ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=54571 Streptomyces venezuelae])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pikAIV ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=54571 Streptomyces venezuelae])</td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2h7x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2h7x OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2h7x RCSB], [http://www.ebi.ac.uk/pdbsum/2h7x PDBsum]</span></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=2h7x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2h7x OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2h7x RCSB], [http://www.ebi.ac.uk/pdbsum/2h7x PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 31:		Line 31:
	</StructureSection>		</StructureSection>
	[[Category: Streptomyces venezuelae]]		[[Category: Streptomyces venezuelae]]
-	[[Category: Akey, D L.]]	+	[[Category: Akey, D L]]
-	[[Category: Fecik, R A.]]	+	[[Category: Fecik, R A]]
-	[[Category: Giraldes, J W.]]	+	[[Category: Giraldes, J W]]
-	[[Category: Kittendorf, J D.]]	+	[[Category: Kittendorf, J D]]
-	[[Category: Sherman, D H.]]	+	[[Category: Sherman, D H]]
-	[[Category: Smith, J S.]]	+	[[Category: Smith, J S]]
	[[Category: Alpha-beta hydrolase]]		[[Category: Alpha-beta hydrolase]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Thioesterase]]		[[Category: Thioesterase]]

OCA at 10:20, 30 September 2014

OCA — Tue, 30 Sep 2014 10:20:01 GMT

←Older revision		Revision as of 10:20, 30 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2h7x.~~png~~\|~~left~~\|200px]]	+	==Pikromycin Thioesterase adduct with reduced triketide affinity label==
		+	<StructureSection load='2h7x' size='340' side='right' caption='[[2h7x]], [[Resolution\|resolution]] 1.85Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2h7x]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptomyces_venezuelae Streptomyces venezuelae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2H7X OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2H7X FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PSX:[(2S,3R,4S)-2,4-DIHYDROXY-3-METHYLHEXYL]PHOSPHONIC+ACID'>PSX</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1mna\|1mna]], [[2h7y\|2h7y]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pikAIV ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=54571 Streptomyces venezuelae])</td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2h7x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2h7x OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2h7x RCSB], [http://www.ebi.ac.uk/pdbsum/2h7x PDBsum]</span></td></tr>
		+	<table>
		+	== Evolutionary Conservation ==
		+	[[Image:Consurf_key_small.gif\|200px\|right]]
		+	Check<jmol>
		+	<jmolCheckbox>
		+	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/h7/2h7x_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Polyketides are a diverse class of natural products having important clinical properties, including antibiotic, immunosuppressive and anticancer activities. They are biosynthesized by polyketide synthases (PKSs), which are modular, multienzyme complexes that sequentially condense simple carboxylic acid derivatives. The final reaction in many PKSs involves thioesterase-catalyzed cyclization of linear chain elongation intermediates. As the substrate in PKSs is presented by a tethered acyl carrier protein, introduction of substrate by diffusion is problematic, and no substrate-bound type I PKS domain structure has been reported so far. We describe the chemical synthesis of polyketide-based affinity labels that covalently modify the active site serine of excised pikromycin thioesterase from Streptomyces venezuelae. Crystal structures reported here of the affinity label-pikromycin thioesterase adducts provide important mechanistic insights. These results suggest that affinity labels can be valuable tools for understanding the mechanisms of individual steps within multifunctional PKSs and for directing rational engineering of PKS domains for combinatorial biosynthesis.

-	~~{{STRUCTURE_2h7x\| PDB=2h7x \| SCENE= }}~~	+	Structural and mechanistic insights into polyketide macrolactonization from polyketide-based affinity labels.,Giraldes JW, Akey DL, Kittendorf JD, Sherman DH, Smith JL, Fecik RA Nat Chem Biol. 2006 Oct;2(10):531-6. Epub 2006 Sep 10. PMID:16969373<ref>PMID:16969373</ref>

-	~~===Pikromycin Thioesterase adduct with reduced triketide affinity label===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_16969373}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[2h7x]] is~~ a ~~2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Streptomyces_venezuelae Streptomyces venezuelae]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2H7X OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:016969373<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Streptomyces venezuelae]]		[[Category: Streptomyces venezuelae]]
	[[Category: Akey, D L.]]		[[Category: Akey, D L.]]

OCA: Protected "2h7x" [edit=sysop:move=sysop]

OCA — Mon, 07 Jan 2013 14:47:18 GMT

Protected "2h7x" [edit=sysop:move=sysop]

←Older revision

Revision as of 14:47, 7 January 2013

OCA at 14:47, 7 January 2013

OCA — Mon, 07 Jan 2013 14:47:14 GMT

←Older revision		Revision as of 14:47, 7 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2h7x.png\|left\|200px]]		[[Image:2h7x.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2h7x", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_2h7x\| PDB=2h7x \| SCENE= }}		{{STRUCTURE_2h7x\| PDB=2h7x \| SCENE= }}

	===Pikromycin Thioesterase adduct with reduced triketide affinity label===		===Pikromycin Thioesterase adduct with reduced triketide affinity label===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_16969373}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 16969373 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_16969373}}		{{ABSTRACT_PUBMED_16969373}}

	==About this Structure==		==About this Structure==
-	~~2H7X~~ is a 2 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Streptomyces_venezuelae Streptomyces venezuelae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2H7X OCA].	+	[[2h7x]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptomyces_venezuelae Streptomyces venezuelae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2H7X OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~16969373~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:016969373</ref><references group="xtra"/>
	[[Category: Streptomyces venezuelae]]		[[Category: Streptomyces venezuelae]]
	[[Category: Akey, D L.]]		[[Category: Akey, D L.]]
Line 32:		Line 20:
	[[Category: Smith, J S.]]		[[Category: Smith, J S.]]
	[[Category: Alpha-beta hydrolase]]		[[Category: Alpha-beta hydrolase]]
		+	[[Category: Hydrolase]]
	[[Category: Thioesterase]]		[[Category: Thioesterase]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 02:35:36 2009''

OCA at 00:35, 18 February 2009

OCA — Wed, 18 Feb 2009 00:35:39 GMT

←Older revision		Revision as of 00:35, 18 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	2H7X is a ~~[[Single protein]]~~ structure of ~~sequence~~ from [http://en.wikipedia.org/wiki/Streptomyces_venezuelae Streptomyces venezuelae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2H7X OCA].	+	2H7X is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Streptomyces_venezuelae Streptomyces venezuelae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2H7X OCA].

	==Reference==		==Reference==
-	Structural and mechanistic insights into polyketide macrolactonization from polyketide-based affinity labels., Giraldes JW, Akey DL, Kittendorf JD, Sherman DH, Smith JL, Fecik RA, Nat Chem Biol. 2006 Oct;2(10):531-6. Epub 2006 Sep 10. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/16969373 16969373]~~	+	<ref group="xtra">PMID:16969373</ref><references group="xtra"/>
-	~~[[Category: Single protein]]~~	+
	[[Category: Streptomyces venezuelae]]		[[Category: Streptomyces venezuelae]]
	[[Category: Akey, D L.]]		[[Category: Akey, D L.]]
Line 35:		Line 34:
	[[Category: Thioesterase]]		[[Category: Thioesterase]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Tue Jul 29 09~~:12:~~41 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 02:35:36 2009''

OCA at 06:12, 29 July 2008

OCA — Tue, 29 Jul 2008 06:12:49 GMT

←Older revision		Revision as of 06:12, 29 July 2008
Line 1:		Line 1:
-	[[Image:2h7x.~~gif~~\|left\|200px]]	+	{{Seed}}
		+	[[Image:2h7x.png\|left\|200px]]

	<!--		<!--
Line 9:		Line 10:
	{{STRUCTURE_2h7x\| PDB=2h7x \| SCENE= }}		{{STRUCTURE_2h7x\| PDB=2h7x \| SCENE= }}

-	~~'''~~Pikromycin Thioesterase adduct with reduced triketide affinity label~~'''~~	+	===Pikromycin Thioesterase adduct with reduced triketide affinity label===


-	~~==Overview==~~	+	<!--
-	~~Polyketides are a diverse class of natural products having important clinical properties~~, ~~including antibiotic~~, ~~immunosuppressive and anticancer activities. They are biosynthesized by polyketide synthases~~ (~~PKSs), which are modular, multienzyme complexes that sequentially condense simple carboxylic acid derivatives~~. ~~The final reaction in many PKSs involves thioesterase-catalyzed cyclization of linear chain elongation intermediates~~. ~~As the substrate in PKSs is presented by a tethered acyl carrier protein~~, ~~introduction of substrate by diffusion~~ is ~~problematic, and no substrate-bound type I PKS domain structure has been reported so far. We describe~~ the ~~chemical synthesis of polyketide-based affinity labels that covalently modify the active site serine of excised pikromycin thioesterase from Streptomyces venezuelae~~. ~~Crystal structures reported here of the affinity label~~-pikromycin thioesterase adducts provide important mechanistic insights. These results suggest that affinity labels can be valuable tools for understanding the mechanisms of individual steps within multifunctional PKSs and for directing rational engineering of PKS domains for combinatorial biosynthesis.	+	The line below this paragraph, {{ABSTRACT_PUBMED_16969373}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 16969373 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_16969373}}

	==About this Structure==		==About this Structure==
Line 30:		Line 34:
	[[Category: Alpha-beta hydrolase]]		[[Category: Alpha-beta hydrolase]]
	[[Category: Thioesterase]]		[[Category: Thioesterase]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sun May 4 05~~:58:39 2008''	+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 29 09:12:41 2008''