3ftp - Revision history

OCA at 06:51, 6 September 2023

2023-09-06T06:51:37Z

←Older revision		Revision as of 06:51, 6 September 2023
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	<StructureSection load='3ftp' size='340' side='right'caption='[[3ftp]], [[Resolution\|resolution]] 2.05Å' scene=''>		<StructureSection load='3ftp' size='340' side='right'caption='[[3ftp]], [[Resolution\|resolution]] 2.05Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3ftp]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"bacillus_pseudomallei"_whitmore_1913 "bacillus~~ pseudomallei~~" whitmore 1913~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FTP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3FTP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3ftp]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Burkholderia_pseudomallei Burkholderia pseudomallei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FTP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3FTP FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>fabG, BPSL2440 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~28450~~ "~~Bacillus pseudomallei~~" ~~Whitmore 1913])</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]] 2.05Å</td></tr>
-	~~<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/3-oxoacyl~~-[~~acyl-carrier-protein]_reductase 3-oxoacyl-~~[~~acyl-carrier-protein~~] ~~reductase~~]~~, with EC number [https://www~~.~~brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.100 1.1.1.100] </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=3ftp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ftp OCA], [https://pdbe.org/3ftp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ftp RCSB], [https://www.ebi.ac.uk/pdbsum/3ftp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ftp 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=3ftp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ftp OCA], [https://pdbe.org/3ftp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ftp RCSB], [https://www.ebi.ac.uk/pdbsum/3ftp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ftp ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q3JQ67_BURP1 Q3JQ67_BURP1] Catalyzes the NADPH-dependent reduction of beta-ketoacyl-ACP substrates to beta-hydroxyacyl-ACP products, the first reductive step in the elongation cycle of fatty acid biosynthesis.[RuleBase:RU366074]
	== 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: Bacillus pseudomallei whitmore 1913]]
-	[[Category: Large Structures]]
-	[[Category: Structural genomic]]
	[[Category: Burkholderia pseudomallei]]		[[Category: Burkholderia pseudomallei]]
-	[[Category: ~~Oxidoreductase]]~~	+	[[Category: Large Structures]]
-	~~[[Category: Ssgcid~~]]	+

OCA at 08:10, 2 March 2022

2022-03-02T08:10:38Z

←Older revision		Revision as of 08:10, 2 March 2022
Line 1:		Line 1:

	==Crystal structure of 3-Ketoacyl-(acyl-carrier-protein) reductase from Burkholderia pseudomallei at 2.05 A resolution==		==Crystal structure of 3-Ketoacyl-(acyl-carrier-protein) reductase from Burkholderia pseudomallei at 2.05 A resolution==
-	<StructureSection load='3ftp' size='340' side='right' caption='[[3ftp]], [[Resolution\|resolution]] 2.05Å' scene=''>	+	<StructureSection load='3ftp' size='340' side='right'caption='[[3ftp]], [[Resolution\|resolution]] 2.05Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3ftp]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"bacillus_pseudomallei"_whitmore_1913 "bacillus pseudomallei" whitmore 1913]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FTP OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3FTP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3ftp]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/"bacillus_pseudomallei"_whitmore_1913 "bacillus pseudomallei" whitmore 1913]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FTP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3FTP FirstGlance]. <br>
-	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">fabG, BPSL2440 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=28450 "Bacillus pseudomallei" Whitmore 1913])</td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">fabG, BPSL2440 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=28450 "Bacillus pseudomallei" Whitmore 1913])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/3-oxoacyl-[acyl-carrier-protein]_reductase 3-oxoacyl-[acyl-carrier-protein] reductase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.100 1.1.1.100] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/3-oxoacyl-[acyl-carrier-protein]_reductase 3-oxoacyl-[acyl-carrier-protein] reductase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.100 1.1.1.100] </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=3ftp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ftp OCA], [~~http~~://pdbe.org/3ftp PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3ftp RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3ftp PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3ftp 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=3ftp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ftp OCA], [https://pdbe.org/3ftp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ftp RCSB], [https://www.ebi.ac.uk/pdbsum/3ftp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ftp ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	</StructureSection>		</StructureSection>
	[[Category: Bacillus pseudomallei whitmore 1913]]		[[Category: Bacillus pseudomallei whitmore 1913]]
		+	[[Category: Large Structures]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]
	[[Category: Burkholderia pseudomallei]]		[[Category: Burkholderia pseudomallei]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]
	[[Category: Ssgcid]]		[[Category: Ssgcid]]

OCA at 07:37, 5 December 2018

2018-12-05T07:37:54Z

←Older revision		Revision as of 07:37, 5 December 2018
Line 1:		Line 1:
		+
	==Crystal structure of 3-Ketoacyl-(acyl-carrier-protein) reductase from Burkholderia pseudomallei at 2.05 A resolution==		==Crystal structure of 3-Ketoacyl-(acyl-carrier-protein) reductase from Burkholderia pseudomallei at 2.05 A resolution==
	<StructureSection load='3ftp' size='340' side='right' caption='[[3ftp]], [[Resolution\|resolution]] 2.05Å' scene=''>		<StructureSection load='3ftp' size='340' side='right' caption='[[3ftp]], [[Resolution\|resolution]] 2.05Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">fabG, BPSL2440 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=28450 "Bacillus pseudomallei" Whitmore 1913])</td></tr>		</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">fabG, BPSL2440 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=28450 "Bacillus pseudomallei" Whitmore 1913])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/3-oxoacyl-[acyl-carrier-protein]_reductase 3-oxoacyl-[acyl-carrier-protein] reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.100 1.1.1.100] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/3-oxoacyl-[acyl-carrier-protein]_reductase 3-oxoacyl-[acyl-carrier-protein] reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.100 1.1.1.100] </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=3ftp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ftp OCA], [http://pdbe.org/3ftp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3ftp RCSB], [http://www.ebi.ac.uk/pdbsum/3ftp 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=3ftp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ftp OCA], [http://pdbe.org/3ftp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3ftp RCSB], [http://www.ebi.ac.uk/pdbsum/3ftp PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3ftp ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 11:		Line 12:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ft/3ftp_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ft/3ftp_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>

OCA at 14:58, 9 February 2016

2016-02-09T14:58:53Z

←Older revision		Revision as of 14:58, 9 February 2016
Line 2:		Line 2:
	<StructureSection load='3ftp' size='340' side='right' caption='[[3ftp]], [[Resolution\|resolution]] 2.05Å' scene=''>		<StructureSection load='3ftp' size='340' side='right' caption='[[3ftp]], [[Resolution\|resolution]] 2.05Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3ftp]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Burkholderia_pseudomallei Burkholderia~~ pseudomallei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FTP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3FTP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3ftp]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_pseudomallei"_whitmore_1913 "bacillus pseudomallei" whitmore 1913]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FTP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3FTP FirstGlance]. <br>
-	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">fabG, BPSL2440 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=28450 ~~Burkholderia~~ pseudomallei])</td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">fabG, BPSL2440 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=28450 "Bacillus pseudomallei" Whitmore 1913])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/3-oxoacyl-[acyl-carrier-protein]_reductase 3-oxoacyl-[acyl-carrier-protein] reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.100 1.1.1.100] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/3-oxoacyl-[acyl-carrier-protein]_reductase 3-oxoacyl-[acyl-carrier-protein] reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.100 1.1.1.100] </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=3ftp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ftp OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3ftp RCSB], [http://www.ebi.ac.uk/pdbsum/3ftp 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=3ftp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ftp OCA], [http://pdbe.org/3ftp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3ftp RCSB], [http://www.ebi.ac.uk/pdbsum/3ftp PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 15:		Line 15:
	<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=3ftp ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 25:		Line 25:
	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 3ftp" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Burkholderia~~ pseudomallei]]	+	[[Category: Bacillus pseudomallei whitmore 1913]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]
		+	[[Category: Burkholderia pseudomallei]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]
	[[Category: Ssgcid]]		[[Category: Ssgcid]]

OCA at 13:42, 18 December 2014

2014-12-18T13:42:54Z

←Older revision		Revision as of 13:42, 18 December 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_3ftp\| PDB=3ftp \| SCENE= }}~~	+	==Crystal structure of 3-Ketoacyl-(acyl-carrier-protein) reductase from Burkholderia pseudomallei at 2.05 A resolution==
-	===Crystal structure of 3-Ketoacyl-(acyl-carrier-protein) reductase from Burkholderia pseudomallei at 2.05 A resolution===	+	<StructureSection load='3ftp' size='340' side='right' caption='[[3ftp]], [[Resolution\|resolution]] 2.05Å' scene=''>
-	~~{{ABSTRACT_PUBMED_23382856}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3ftp]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Burkholderia_pseudomallei Burkholderia pseudomallei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FTP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3FTP FirstGlance]. <br>
		+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">fabG, BPSL2440 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=28450 Burkholderia pseudomallei])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/3-oxoacyl-[acyl-carrier-protein]_reductase 3-oxoacyl-[acyl-carrier-protein] reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.100 1.1.1.100] </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=3ftp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ftp OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3ftp RCSB], [http://www.ebi.ac.uk/pdbsum/3ftp 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/ft/3ftp_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 ==
		+	BACKGROUND: The genus Burkholderia includes pathogenic gram-negative bacteria that cause melioidosis, glanders, and pulmonary infections of patients with cancer and cystic fibrosis. Drug resistance has made development of new antimicrobials critical. Many approaches to discovering new antimicrobials, such as structure-based drug design and whole cell phenotypic screens followed by lead refinement, require high-resolution structures of proteins essential to the parasite. METHODOLOGY/PRINCIPAL FINDINGS: We experimentally identified 406 putative essential genes in B. thailandensis, a low-virulence species phylogenetically similar to B. pseudomallei, the causative agent of melioidosis, using saturation-level transposon mutagenesis and next-generation sequencing (Tn-seq). We selected 315 protein products of these genes based on structure-determination criteria, such as excluding very large and/or integral membrane proteins, and entered them into the Seattle Structural Genomics Center for Infection Disease (SSGCID) structure determination pipeline. To maximize structural coverage of these targets, we applied an "ortholog rescue" strategy for those producing insoluble or difficult to crystallize proteins, resulting in the addition of 387 orthologs (or paralogs) from seven other Burkholderia species into the SSGCID pipeline. This structural genomics approach yielded structures from 31 putative essential targets from B. thailandensis, and 25 orthologs from other Burkholderia species, yielding an overall structural coverage for 49 of the 406 essential gene families, with a total of 88 depositions into the Protein Data Bank. Of these, 25 proteins have properties of a potential antimicrobial drug target i.e., no close human homolog, part of an essential metabolic pathway, and a deep binding pocket. We describe the structures of several potential drug targets in detail. CONCLUSIONS/SIGNIFICANCE: This collection of structures, solubility and experimental essentiality data provides a resource for development of drugs against infections and diseases caused by Burkholderia. All expression clones and proteins created in this study are freely available by request.

-	~~==About this Structure==~~	+	Combining functional and structural genomics to sample the essential Burkholderia structome.,Baugh L, Gallagher LA, Patrapuvich R, Clifton MC, Gardberg AS, Edwards TE, Armour B, Begley DW, Dieterich SH, Dranow DM, Abendroth J, Fairman JW, Fox D 3rd, Staker BL, Phan I, Gillespie A, Choi R, Nakazawa-Hewitt S, Nguyen MT, Napuli A, Barrett L, Buchko GW, Stacy R, Myler PJ, Stewart LJ, Manoil C, Van Voorhis WC PLoS One. 2013;8(1):e53851. doi: 10.1371/journal.pone.0053851. Epub 2013 Jan 31. PMID:23382856<ref>PMID:23382856</ref>
-	~~[[3ftp]] is a 4 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Burkholderia_pseudomallei Burkholderia pseudomallei]~~. ~~Full crystallographic information is available from [http~~:/~~/oca~~.~~weizmann~~.ac.il/~~oca-bin/ocashort?id=3FTP OCA].~~	+

-	~~==Reference==~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	<~~ref group="xtra"~~>~~PMID:023382856~~</~~ref~~>~~<references group~~=~~"xtra"/>~~<references/>	+	</div>
-	~~[[Category: Burkholderia pseudomallei]]~~	+	== References ==
-	~~[[Category: SSGCID, Seattle Structural Genomics Center for Infectious Disease.]]~~	+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Burkholderia pseudomallei]]		[[Category: Burkholderia pseudomallei]]
		+	[[Category: Structural genomic]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]
-	[[Category: Seattle structural genomics center for infectious disease]]
	[[Category: Ssgcid]]		[[Category: Ssgcid]]
-	[[Category: Structural genomic]]

OCA at 08:38, 30 October 2013

2013-10-30T08:38:49Z

←Older revision		Revision as of 08:38, 30 October 2013
Line 1:		Line 1:
-	[[Image:3ftp.png\|left\|200px]]
-
	{{STRUCTURE_3ftp\| PDB=3ftp \| SCENE= }}		{{STRUCTURE_3ftp\| PDB=3ftp \| SCENE= }}
-
	===Crystal structure of 3-Ketoacyl-(acyl-carrier-protein) reductase from Burkholderia pseudomallei at 2.05 A resolution===		===Crystal structure of 3-Ketoacyl-(acyl-carrier-protein) reductase from Burkholderia pseudomallei at 2.05 A resolution===
-		+	{{ABSTRACT_PUBMED_23382856}}

	==About this Structure==		==About this Structure==
	[[3ftp]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Burkholderia_pseudomallei Burkholderia pseudomallei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FTP OCA].		[[3ftp]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Burkholderia_pseudomallei Burkholderia pseudomallei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FTP OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:023382856</ref><references group="xtra"/><references/>
	[[Category: Burkholderia pseudomallei]]		[[Category: Burkholderia pseudomallei]]
	[[Category: SSGCID, Seattle Structural Genomics Center for Infectious Disease.]]		[[Category: SSGCID, Seattle Structural Genomics Center for Infectious Disease.]]

OCA: Protected "3ftp" [edit=sysop:move=sysop]

2013-02-20T14:45:19Z

Protected "3ftp" [edit=sysop:move=sysop]

←Older revision

Revision as of 14:45, 20 February 2013

OCA at 14:45, 20 February 2013

2013-02-20T14:45:17Z

←Older revision		Revision as of 14:45, 20 February 2013
Line 1:		Line 1:
-	~~{{Seed}}~~	+	[[Image:3ftp.png\|left\|200px]]
-	[[Image:3ftp.~~jpg~~\|left\|200px]]	+

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3ftp", 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_3ftp\| PDB=3ftp \| SCENE= }}		{{STRUCTURE_3ftp\| PDB=3ftp \| SCENE= }}

Line 14:		Line 7:

	==About this Structure==		==About this Structure==
-	~~3FTP~~ is a 4 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Burkholderia_pseudomallei Burkholderia pseudomallei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FTP OCA].	+	[[3ftp]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Burkholderia_pseudomallei Burkholderia pseudomallei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FTP OCA].
	[[Category: Burkholderia pseudomallei]]		[[Category: Burkholderia pseudomallei]]
	[[Category: SSGCID, Seattle Structural Genomics Center for Infectious Disease.]]		[[Category: SSGCID, Seattle Structural Genomics Center for Infectious Disease.]]
Line 22:		Line 15:
	[[Category: Ssgcid]]		[[Category: Ssgcid]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jan 28 09:59:53 2009''

OCA at 07:59, 28 January 2009

2009-01-28T07:59:55Z

←Older revision		Revision as of 07:59, 28 January 2009
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{Seed}}
		+	[[Image:3ftp.jpg\|left\|200px]]

-	The ~~entry 3ftp~~ is ~~ON HOLD~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3ftp", 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_3ftp\| PDB=3ftp \| SCENE= }}

-	~~Authors: Seattle Structural Genomics Center for Infectious Disease~~ (~~SSGCID~~)	+	===Crystal structure of 3-Ketoacyl-(acyl-carrier-protein) reductase from Burkholderia pseudomallei at 2.05 A resolution===

-	Description: Crystal structure of 3-Ketoacyl-(acyl-carrier-protein) reductase from Burkholderia pseudomallei at 2.05 A resolution

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jan ~~21 10~~:40:10 2009''	+	==About this Structure==
		+	3FTP is a 4 chains structure of sequences from [http://en.wikipedia.org/wiki/Burkholderia_pseudomallei Burkholderia pseudomallei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FTP OCA].
		+	[[Category: Burkholderia pseudomallei]]
		+	[[Category: SSGCID, Seattle Structural Genomics Center for Infectious Disease.]]
		+	[[Category: Burkholderia pseudomallei]]
		+	[[Category: Oxidoreductase]]
		+	[[Category: Seattle structural genomics center for infectious disease]]
		+	[[Category: Ssgcid]]
		+	[[Category: Structural genomic]]
		+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jan 28 09:59:53 2009''

OCA: New page: '''Unreleased structure''' The entry 3ftp is ON HOLD Authors: Seattle Structural Genomics Center for Infectious Disease (SSGCID) Description: Crystal structure of 3-Ketoacyl-(acyl-carr...

2009-01-21T08:40:10Z

New page: '''Unreleased structure''' The entry 3ftp is ON HOLD Authors: Seattle Structural Genomics Center for Infectious Disease (SSGCID) Description: Crystal structure of 3-Ketoacyl-(acyl-carr...

New page

'''Unreleased structure'''

The entry 3ftp is ON HOLD

Authors: Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Description: Crystal structure of 3-Ketoacyl-(acyl-carrier-protein) reductase from Burkholderia pseudomallei at 2.05 A resolution

''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jan 21 10:40:10 2009''