2hfk - Revision history

OCA at 09:57, 30 August 2023

OCA — Wed, 30 Aug 2023 09:57:44 GMT

←Older revision		Revision as of 09:57, 30 August 2023
Line 3:		Line 3:
	<StructureSection load='2hfk' size='340' side='right'caption='[[2hfk]], [[Resolution\|resolution]] 1.79Å' scene=''>		<StructureSection load='2hfk' size='340' side='right'caption='[[2hfk]], [[Resolution\|resolution]] 1.79Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2hfk]] 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=2HFK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2HFK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2hfk]] 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=2HFK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2HFK 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=E4H:(3R,4S,5S,7R,9E,11R,12R)-12-ETHYL-4-HYDROXY-3,5,7,11-TETRAMETHYLOXACYCLODODEC-9-ENE-2,8-DIONE'>E4H</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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]] 1.79Å</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]], [[2hfj\|2hfj]]</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=E4H:(3R,4S,5S,7R,9E,11R,12R)-12-ETHYL-4-HYDROXY-3,5,7,11-TETRAMETHYLOXACYCLODODEC-9-ENE-2,8-DIONE'>E4H</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=2hfk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hfk OCA], [https://pdbe.org/2hfk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2hfk RCSB], [https://www.ebi.ac.uk/pdbsum/2hfk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2hfk 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=2hfk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hfk OCA], [https://pdbe.org/2hfk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2hfk RCSB], [https://www.ebi.ac.uk/pdbsum/2hfk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2hfk 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]]
Line 32:		Line 33:
	__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 L~~]]	+	[[Category: Sherman DH]]
-	[[Category: ~~Alpha/beta hydrolase]]~~	+	[[Category: Smith JL]]
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Thioesterase~~]]	+

OCA at 07:39, 17 March 2021

OCA — Wed, 17 Mar 2021 07:39:02 GMT

←Older revision		Revision as of 07:39, 17 March 2021
Line 1:		Line 1:

	==Pikromycin thioesterase in complex with product 10-deoxymethynolide==		==Pikromycin thioesterase in complex with product 10-deoxymethynolide==
-	<StructureSection load='2hfk' size='340' side='right' caption='[[2hfk]], [[Resolution\|resolution]] 1.79Å' scene=''>	+	<StructureSection load='2hfk' size='340' side='right'caption='[[2hfk]], [[Resolution\|resolution]] 1.79Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2hfk]] 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=2HFK OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2HFK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2hfk]] 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=2HFK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2HFK 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=E4H:(3R,4S,5S,7R,9E,11R,12R)-12-ETHYL-4-HYDROXY-3,5,7,11-TETRAMETHYLOXACYCLODODEC-9-ENE-2,8-DIONE'>E4H</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=E4H:(3R,4S,5S,7R,9E,11R,12R)-12-ETHYL-4-HYDROXY-3,5,7,11-TETRAMETHYLOXACYCLODODEC-9-ENE-2,8-DIONE'>E4H</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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]], [[2hfj\|2hfj]]</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]], [[2hfj\|2hfj]]</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=2hfk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hfk OCA], [~~http~~://pdbe.org/2hfk PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2hfk RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2hfk PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2hfk 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=2hfk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hfk OCA], [https://pdbe.org/2hfk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2hfk RCSB], [https://www.ebi.ac.uk/pdbsum/2hfk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2hfk ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 13:		Line 13:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/hf/2hfk_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/hf/2hfk_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>
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 08:11, 18 October 2017

OCA — Wed, 18 Oct 2017 08:11:41 GMT

←Older revision		Revision as of 08:11, 18 October 2017
Line 1:		Line 1:
		+
	==Pikromycin thioesterase in complex with product 10-deoxymethynolide==		==Pikromycin thioesterase in complex with product 10-deoxymethynolide==
	<StructureSection load='2hfk' size='340' side='right' caption='[[2hfk]], [[Resolution\|resolution]] 1.79Å' scene=''>		<StructureSection load='2hfk' size='340' side='right' caption='[[2hfk]], [[Resolution\|resolution]] 1.79Å' scene=''>
Line 6:		Line 7:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1mna\|1mna]], [[2hfj\|2hfj]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1mna\|1mna]], [[2hfj\|2hfj]]</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=2hfk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hfk OCA], [http://pdbe.org/2hfk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2hfk RCSB], [http://www.ebi.ac.uk/pdbsum/2hfk 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=2hfk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hfk OCA], [http://pdbe.org/2hfk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2hfk RCSB], [http://www.ebi.ac.uk/pdbsum/2hfk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2hfk ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==

OCA at 22:08, 9 February 2016

OCA — Tue, 09 Feb 2016 22:08:33 GMT

←Older revision		Revision as of 22:08, 9 February 2016
Line 16:		Line 16:
	<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=2hfk ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 02:30, 11 September 2015

OCA — Fri, 11 Sep 2015 02:30:17 GMT

←Older revision		Revision as of 02:30, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='2hfk' size='340' side='right' caption='[[2hfk]], [[Resolution\|resolution]] 1.79Å' scene=''>		<StructureSection load='2hfk' size='340' side='right' caption='[[2hfk]], [[Resolution\|resolution]] 1.79Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2hfk]] 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=2HFK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2HFK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2hfk]] 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=2HFK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2HFK 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=E4H:(3R,4S,5S,7R,9E,11R,12R)-12-ETHYL-4-HYDROXY-3,5,7,11-TETRAMETHYLOXACYCLODODEC-9-ENE-2,8-DIONE'>E4H</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=E4H:(3R,4S,5S,7R,9E,11R,12R)-12-ETHYL-4-HYDROXY-3,5,7,11-TETRAMETHYLOXACYCLODODEC-9-ENE-2,8-DIONE'>E4H</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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]], [[2hfj\|2hfj]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1mna\|1mna]], [[2hfj\|2hfj]]</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=2hfk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hfk OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2hfk RCSB], [http://www.ebi.ac.uk/pdbsum/2hfk 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=2hfk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hfk OCA], [http://pdbe.org/2hfk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2hfk RCSB], [http://www.ebi.ac.uk/pdbsum/2hfk 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 2hfk" 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 09:04, 16 January 2015

OCA — Fri, 16 Jan 2015 09:04:05 GMT

←Older revision		Revision as of 09:04, 16 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2hfk]] 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=2HFK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2HFK FirstGlance]. <br>		<table><tr><td colspan='2'>[[2hfk]] 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=2HFK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2HFK 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=E4H:(3R,4S,5S,7R,9E,11R,12R)-12-ETHYL-4-HYDROXY-3,5,7,11-TETRAMETHYLOXACYCLODODEC-9-ENE-2,8-DIONE'>E4H</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=E4H:(3R,4S,5S,7R,9E,11R,12R)-12-ETHYL-4-HYDROXY-3,5,7,11-TETRAMETHYLOXACYCLODODEC-9-ENE-2,8-DIONE'>E4H</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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]], [[2hfj\|2hfj]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1mna\|1mna]], [[2hfj\|2hfj]]</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=2hfk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hfk OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2hfk RCSB], [http://www.ebi.ac.uk/pdbsum/2hfk 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=2hfk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hfk OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2hfk RCSB], [http://www.ebi.ac.uk/pdbsum/2hfk 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 L.]]	+	[[Category: Smith, J L]]
	[[Category: Alpha/beta hydrolase]]		[[Category: Alpha/beta hydrolase]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Thioesterase]]		[[Category: Thioesterase]]

OCA at 08:41, 30 September 2014

OCA — Tue, 30 Sep 2014 08:41:32 GMT

←Older revision		Revision as of 08:41, 30 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2hfk.~~png~~\|~~left~~\|200px]]	+	==Pikromycin thioesterase in complex with product 10-deoxymethynolide==
		+	<StructureSection load='2hfk' size='340' side='right' caption='[[2hfk]], [[Resolution\|resolution]] 1.79Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2hfk]] 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=2HFK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2HFK 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=E4H:(3R,4S,5S,7R,9E,11R,12R)-12-ETHYL-4-HYDROXY-3,5,7,11-TETRAMETHYLOXACYCLODODEC-9-ENE-2,8-DIONE'>E4H</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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]], [[2hfj\|2hfj]]</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=2hfk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hfk OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2hfk RCSB], [http://www.ebi.ac.uk/pdbsum/2hfk 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/hf/2hfk_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 class of biologically active microbial and plant-derived metabolites that possess a high degree of structural and functional diversity and include many human therapeutics, among them anti-infective and anti-cancer drugs, growth promoters and anti-parasitic agents. The macrolide antibiotics, characterized by a glycoside-linked macrolactone, constitute an important class of polyketides, including erythromycin and the natural ketolide anti-infective agent pikromycin. Here we describe new mechanistic details of macrolactone ring formation catalyzed by the pikromycin polyketide synthase thioesterase domain from Streptomyces venezuelae. A pentaketide phosphonate mimic of the final pikromycin linear chain-elongation intermediate was synthesized and shown to be an active site affinity label. The crystal structures of the affinity-labeled enzyme and of a 12-membered-ring macrolactone product complex suggest a mechanism for cyclization in which a hydrophilic barrier in the enzyme and structural restraints of the substrate induce a curled conformation to direct macrolactone ring formation.

-	~~{{STRUCTURE_2hfk\| PDB=2hfk \| SCENE= }}~~	+	Structural basis for macrolactonization by the pikromycin thioesterase.,Akey DL, Kittendorf JD, Giraldes JW, Fecik RA, Sherman DH, Smith JL Nat Chem Biol. 2006 Oct;2(10):537-42. Epub 2006 Sep 10. PMID:16969372<ref>PMID:16969372</ref>

-	~~===Pikromycin thioesterase in complex with product 10-deoxymethynolide===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_16969372}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[2hfk]] 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=2HFK OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:016969372<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Streptomyces venezuelae]]		[[Category: Streptomyces venezuelae]]
	[[Category: Akey, D L.]]		[[Category: Akey, D L.]]

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

OCA — Mon, 07 Jan 2013 13:40:09 GMT

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

←Older revision

Revision as of 13:40, 7 January 2013

OCA at 13:40, 7 January 2013

OCA — Mon, 07 Jan 2013 13:40:04 GMT

←Older revision		Revision as of 13:40, 7 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2hfk.png\|left\|200px]]		[[Image:2hfk.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2hfk", 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_2hfk\| PDB=2hfk \| SCENE= }}		{{STRUCTURE_2hfk\| PDB=2hfk \| SCENE= }}

	===Pikromycin thioesterase in complex with product 10-deoxymethynolide===		===Pikromycin thioesterase in complex with product 10-deoxymethynolide===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_16969372}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 16969372 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_16969372}}		{{ABSTRACT_PUBMED_16969372}}

	==About this Structure==		==About this Structure==
-	~~2HFK~~ 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=2HFK OCA].	+	[[2hfk]] 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=2HFK OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~16969372~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:016969372</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 L.]]		[[Category: Smith, J L.]]
	[[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 Tue Feb 17 13:07:22 2009''

OCA at 11:07, 17 February 2009

OCA — Tue, 17 Feb 2009 11:07:23 GMT

←Older revision		Revision as of 11:07, 17 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	2HFK 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=2HFK OCA].	+	2HFK 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=2HFK OCA].

	==Reference==		==Reference==
-	~~Structural basis for macrolactonization by the pikromycin thioesterase., Akey DL, Kittendorf JD, Giraldes JW, Fecik RA, Sherman DH, Smith JL, Nat Chem Biol. 2006 Oct;2(10):537-42. Epub 2006 Sep 10.~~ PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/16969372 16969372]~~	+	<ref group="xtra">PMID:16969372</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 ~~Mon Jul 28~~ 17:37:~~36 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 13:07:22 2009''