3ue9 - Revision history

OCA at 13:55, 14 March 2024

OCA — Thu, 14 Mar 2024 13:55:41 GMT

←Older revision		Revision as of 13:55, 14 March 2024
Line 3:		Line 3:
	<StructureSection load='3ue9' size='340' side='right'caption='[[3ue9]], [[Resolution\|resolution]] 1.95Å' scene=''>		<StructureSection load='3ue9' size='340' side='right'caption='[[3ue9]], [[Resolution\|resolution]] 1.95Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3ue9]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Burta Burta~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UE9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3UE9 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3ue9]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Burkholderia_thailandensis_E264 Burkholderia thailandensis E264]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UE9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3UE9 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>~~, ~~<scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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]] 1.95Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~purA, BTH_I2245 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=271848 BURTA])</td~~></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
-	<~~tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[https://en.wikipedia.org/wiki/Adenylosuccinate_synthase Adenylosuccinate synthase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.3.4.4 6.3.4.4]~~ </~~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=3ue9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ue9 OCA], [https://pdbe.org/3ue9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ue9 RCSB], [https://www.ebi.ac.uk/pdbsum/3ue9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ue9 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=3ue9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ue9 OCA], [https://pdbe.org/3ue9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ue9 RCSB], [https://www.ebi.ac.uk/pdbsum/3ue9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ue9 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/PURA_BURTA PURA_BURTA]] Plays an important role in the de novo pathway of purine nucleotide biosynthesis. Catalyzes the first committed step in the biosynthesis of AMP from IMP (By similarity).	+	[https://www.uniprot.org/uniprot/PURA_BURTA PURA_BURTA] Plays an important role in the de novo pathway of purine nucleotide biosynthesis. Catalyzes the first committed step in the biosynthesis of AMP from IMP (By similarity).
-	~~<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.	+
-		+
-	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>	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 3ue9" style="background-color:#fffaf0;"></div>~~	+

	==See Also==		==See Also==
	*[[Adenylosuccinate synthetase 3D structures\|Adenylosuccinate synthetase 3D structures]]		*[[Adenylosuccinate synthetase 3D structures\|Adenylosuccinate synthetase 3D structures]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Adenylosuccinate synthase]]~~	+	[[Category: Burkholderia thailandensis E264]]
-	~~[[Category: Burta~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Structural genomic]]
-	[[Category: Adss]]
-	[[Category: Bth_i2245]]
-	[[Category: Imp-aspartate ligase]]
-	[[Category: Ligase]]
-	[[Category: Ssgcid]]

OCA at 06:09, 13 July 2022

OCA — Wed, 13 Jul 2022 06:09:46 GMT

←Older revision		Revision as of 06:09, 13 July 2022
Line 1:		Line 1:

	==Crystal structure of Adenylosuccinate synthetase (AMPSase) (purA) from Burkholderia thailandensis==		==Crystal structure of Adenylosuccinate synthetase (AMPSase) (purA) from Burkholderia thailandensis==
-	<StructureSection load='3ue9' size='340' side='right' caption='[[3ue9]], [[Resolution\|resolution]] 1.95Å' scene=''>	+	<StructureSection load='3ue9' size='340' side='right'caption='[[3ue9]], [[Resolution\|resolution]] 1.95Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3ue9]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Burta Burta]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UE9 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3UE9 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3ue9]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Burta Burta]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UE9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3UE9 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">purA, BTH_I2245 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=271848 BURTA])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">purA, BTH_I2245 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=271848 BURTA])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Adenylosuccinate_synthase Adenylosuccinate synthase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.3.4.4 6.3.4.4] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Adenylosuccinate_synthase Adenylosuccinate synthase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.3.4.4 6.3.4.4] </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=3ue9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ue9 OCA], [~~http~~://pdbe.org/3ue9 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3ue9 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3ue9 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3ue9 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=3ue9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ue9 OCA], [https://pdbe.org/3ue9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ue9 RCSB], [https://www.ebi.ac.uk/pdbsum/3ue9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ue9 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/PURA_BURTA PURA_BURTA]] Plays an important role in the de novo pathway of purine nucleotide biosynthesis. Catalyzes the first committed step in the biosynthesis of AMP from IMP (By similarity).	+	[[https://www.uniprot.org/uniprot/PURA_BURTA PURA_BURTA]] Plays an important role in the de novo pathway of purine nucleotide biosynthesis. Catalyzes the first committed step in the biosynthesis of AMP from IMP (By similarity).
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 22:		Line 22:

	==See Also==		==See Also==
-	*[[Adenylosuccinate ~~Synthetase~~\|Adenylosuccinate ~~Synthetase~~]]	+	*[[Adenylosuccinate synthetase 3D structures\|Adenylosuccinate synthetase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 29:		Line 29:
	[[Category: Adenylosuccinate synthase]]		[[Category: Adenylosuccinate synthase]]
	[[Category: Burta]]		[[Category: Burta]]
		+	[[Category: Large Structures]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]
	[[Category: Adss]]		[[Category: Adss]]

OCA at 17:51, 5 August 2016

OCA — Fri, 05 Aug 2016 17:51:48 GMT

←Older revision		Revision as of 17:51, 5 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of Adenylosuccinate synthetase (AMPSase) (purA) from Burkholderia thailandensis==		==Crystal structure of Adenylosuccinate synthetase (AMPSase) (purA) from Burkholderia thailandensis==
	<StructureSection load='3ue9' size='340' side='right' caption='[[3ue9]], [[Resolution\|resolution]] 1.95Å' scene=''>		<StructureSection load='3ue9' size='340' side='right' caption='[[3ue9]], [[Resolution\|resolution]] 1.95Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3ue9]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Burkholderia_thailandensis_e264 Burkholderia thailandensis e264~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UE9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3UE9 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3ue9]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Burta Burta]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UE9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3UE9 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">purA, BTH_I2245 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=271848 ~~Burkholderia thailandensis E264~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">purA, BTH_I2245 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=271848 BURTA])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Adenylosuccinate_synthase Adenylosuccinate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.3.4.4 6.3.4.4] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Adenylosuccinate_synthase Adenylosuccinate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.3.4.4 6.3.4.4] </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=3ue9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ue9 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3ue9 RCSB], [http://www.ebi.ac.uk/pdbsum/3ue9 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=3ue9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ue9 OCA], [http://pdbe.org/3ue9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3ue9 RCSB], [http://www.ebi.ac.uk/pdbsum/3ue9 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3ue9 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		Line 19:
	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 3ue9" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 26:		Line 28:
	</StructureSection>		</StructureSection>
	[[Category: Adenylosuccinate synthase]]		[[Category: Adenylosuccinate synthase]]
-	[[Category: ~~Burkholderia thailandensis e264~~]]	+	[[Category: Burta]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]
	[[Category: Adss]]		[[Category: Adss]]

OCA at 20:46, 25 December 2014

OCA — Thu, 25 Dec 2014 20:46:08 GMT

←Older revision		Revision as of 20:46, 25 December 2014
Line 8:		Line 8:
	<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=3ue9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ue9 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3ue9 RCSB], [http://www.ebi.ac.uk/pdbsum/3ue9 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=3ue9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ue9 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3ue9 RCSB], [http://www.ebi.ac.uk/pdbsum/3ue9 PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/PURA_BURTA PURA_BURTA]] Plays an important role in the de novo pathway of purine nucleotide biosynthesis. Catalyzes the first committed step in the biosynthesis of AMP from IMP (By similarity).
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 07:20, 21 December 2014

OCA — Sun, 21 Dec 2014 07:20:48 GMT

←Older revision		Revision as of 07:20, 21 December 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_3ue9\| PDB=3ue9 \| SCENE= }}~~	+	==Crystal structure of Adenylosuccinate synthetase (AMPSase) (purA) from Burkholderia thailandensis==
-	===Crystal structure of Adenylosuccinate synthetase (AMPSase) (purA) from Burkholderia thailandensis===	+	<StructureSection load='3ue9' size='340' side='right' caption='[[3ue9]], [[Resolution\|resolution]] 1.95Å' scene=''>
-	~~{{ABSTRACT_PUBMED_23382856}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3ue9]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Burkholderia_thailandensis_e264 Burkholderia thailandensis e264]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UE9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3UE9 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">purA, BTH_I2245 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=271848 Burkholderia thailandensis E264])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Adenylosuccinate_synthase Adenylosuccinate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.3.4.4 6.3.4.4] </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=3ue9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ue9 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3ue9 RCSB], [http://www.ebi.ac.uk/pdbsum/3ue9 PDBsum]</span></td></tr>
		+	</table>
		+	<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.

-	~~==Function==~~	+	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>
-	~~[[http~~:~~//www~~.~~uniprot~~.~~org~~/~~uniprot/PURA_BURTA PURA_BURTA]] Plays an important role in the de novo pathway of purine nucleotide biosynthesis~~. ~~Catalyzes the first committed step in the biosynthesis of AMP from IMP (By similarity)~~.	+

-	~~==About this Structure==~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[3ue9]] is~~ a ~~4 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Burkholderia_thailandensis_e264 Burkholderia thailandensis e264]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3UE9 OCA].~~	+	</div>

	==See Also==		==See Also==
	*[[Adenylosuccinate Synthetase\|Adenylosuccinate Synthetase]]		*[[Adenylosuccinate Synthetase\|Adenylosuccinate Synthetase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	~~<ref group="xtra">PMID:023382856</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Adenylosuccinate synthase]]		[[Category: Adenylosuccinate synthase]]
	[[Category: Burkholderia thailandensis e264]]		[[Category: Burkholderia thailandensis e264]]
-	[[Category: ~~SSGCID, Seattle~~ Structural ~~Genomics Center for Infectious Disease.~~]]	+	[[Category: Structural genomic]]
	[[Category: Adss]]		[[Category: Adss]]
	[[Category: Bth_i2245]]		[[Category: Bth_i2245]]
	[[Category: Imp-aspartate ligase]]		[[Category: Imp-aspartate ligase]]
	[[Category: Ligase]]		[[Category: Ligase]]
-	[[Category: Seattle structural genomics center for infectious disease]]
	[[Category: Ssgcid]]		[[Category: Ssgcid]]
-	[[Category: Structural genomic]]

OCA at 08:26, 30 October 2013

OCA — Wed, 30 Oct 2013 08:26:25 GMT

←Older revision		Revision as of 08:26, 30 October 2013
Line 1:		Line 1:
-	[[Image:3ue9.png\|left\|200px]]
-
	{{STRUCTURE_3ue9\| PDB=3ue9 \| SCENE= }}		{{STRUCTURE_3ue9\| PDB=3ue9 \| SCENE= }}
-
	===Crystal structure of Adenylosuccinate synthetase (AMPSase) (purA) from Burkholderia thailandensis===		===Crystal structure of Adenylosuccinate synthetase (AMPSase) (purA) from Burkholderia thailandensis===
		+	{{ABSTRACT_PUBMED_23382856}}

		+	==Function==
		+	[[http://www.uniprot.org/uniprot/PURA_BURTA PURA_BURTA]] Plays an important role in the de novo pathway of purine nucleotide biosynthesis. Catalyzes the first committed step in the biosynthesis of AMP from IMP (By similarity).

	==About this Structure==		==About this Structure==
-	[[3ue9]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Burkholderia_thailandensis~~ Burkholderia thailandensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UE9 OCA].	+	[[3ue9]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Burkholderia_thailandensis_e264 Burkholderia thailandensis e264]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UE9 OCA].

	==See Also==		==See Also==
	*[[Adenylosuccinate Synthetase\|Adenylosuccinate Synthetase]]		*[[Adenylosuccinate Synthetase\|Adenylosuccinate Synthetase]]
		+
		+	==Reference==
		+	<ref group="xtra">PMID:023382856</ref><references group="xtra"/><references/>
	[[Category: Adenylosuccinate synthase]]		[[Category: Adenylosuccinate synthase]]
-	[[Category: Burkholderia thailandensis]]	+	[[Category: Burkholderia thailandensis e264]]
	[[Category: SSGCID, Seattle Structural Genomics Center for Infectious Disease.]]		[[Category: SSGCID, Seattle Structural Genomics Center for Infectious Disease.]]
	[[Category: Adss]]		[[Category: Adss]]

OCA at 21:25, 20 October 2012

OCA — Sat, 20 Oct 2012 21:25:54 GMT

←Older revision		Revision as of 21:25, 20 October 2012
Line 7:		Line 7:

	==About this Structure==		==About this Structure==
-	[[3ue9]] is a 4 chain structure ~~of [[Adenylosuccinate Synthetase]]~~ with sequence from [http://en.wikipedia.org/wiki/Burkholderia_thailandensis Burkholderia thailandensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UE9 OCA].	+	[[3ue9]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Burkholderia_thailandensis Burkholderia thailandensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UE9 OCA].

	==See Also==		==See Also==

OCA at 13:14, 27 July 2012

OCA — Fri, 27 Jul 2012 13:14:06 GMT

←Older revision		Revision as of 13:14, 27 July 2012
Line 1:		Line 1:
-	[[Image:3ue9.~~jpg~~\|left\|200px]]	+	[[Image:3ue9.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3ue9", 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_3ue9\| PDB=3ue9 \| SCENE= }}		{{STRUCTURE_3ue9\| PDB=3ue9 \| SCENE= }}

Line 13:		Line 7:

	==About this Structure==		==About this Structure==
-	[[3ue9]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Burkholderia_thailandensis Burkholderia thailandensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UE9 OCA].	+	[[3ue9]] is a 4 chain structure of [[Adenylosuccinate Synthetase]] with sequence from [http://en.wikipedia.org/wiki/Burkholderia_thailandensis Burkholderia thailandensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UE9 OCA].
		+
		+	==See Also==
		+	*[[Adenylosuccinate Synthetase\|Adenylosuccinate Synthetase]]
	[[Category: Adenylosuccinate synthase]]		[[Category: Adenylosuccinate synthase]]
	[[Category: Burkholderia thailandensis]]		[[Category: Burkholderia thailandensis]]

OCA at 12:34, 16 November 2011

OCA — Wed, 16 Nov 2011 12:34:57 GMT

←Older revision		Revision as of 12:34, 16 November 2011
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:3ue9.jpg\|left\|200px]]

-	The ~~entry 3ue9~~ is ~~ON HOLD~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3ue9", 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_3ue9\| PDB=3ue9 \| SCENE= }}

-	~~Authors: Seattle Structural Genomics Center for Infectious Disease~~ (~~SSGCID~~)	+	===Crystal structure of Adenylosuccinate synthetase (AMPSase) (purA) from Burkholderia thailandensis===

-	~~Description: Crystal~~ structure ~~of Adenylosuccinate synthetase (AMPSase) (purA)~~ from Burkholderia thailandensis	+
		+	==About this Structure==
		+	[[3ue9]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Burkholderia_thailandensis Burkholderia thailandensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UE9 OCA].
		+	[[Category: Adenylosuccinate synthase]]
		+	[[Category: Burkholderia thailandensis]]
		+	[[Category: SSGCID, Seattle Structural Genomics Center for Infectious Disease.]]
		+	[[Category: Adss]]
		+	[[Category: Bth_i2245]]
		+	[[Category: Imp-aspartate ligase]]
		+	[[Category: Ligase]]
		+	[[Category: Seattle structural genomics center for infectious disease]]
		+	[[Category: Ssgcid]]
		+	[[Category: Structural genomic]]

OCA: Protected "3ue9" [edit=sysop:move=sysop]

OCA — Wed, 09 Nov 2011 11:16:59 GMT

Protected "3ue9" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:16, 9 November 2011