3eom - Revision history

OCA at 09:48, 21 February 2024

2024-02-21T09:48:49Z

←Older revision		Revision as of 09:48, 21 February 2024
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	<StructureSection load='3eom' size='340' side='right'caption='[[3eom]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='3eom' size='340' side='right'caption='[[3eom]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3eom]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Burp1 Burp1~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EOM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3EOM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3eom]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Burkholderia_pseudomallei_1710b Burkholderia pseudomallei 1710b]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EOM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3EOM FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~><div style='overflow: auto; max-height: 3em;'>[[3eol\|3eol]], [[3eon\|3eon]], [[3eoo\|3eoo]]</div></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]] 2.398Å</td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~">~~<b>~~[[~~Gene~~\|~~Gene:~~]]~~</b></td><td class="sblockDat">BURPS1710B_2458, BURPS1710b_3237, MSRB ([https://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=320372 BURP1])</td></tr>~~	+
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Glutaryl-CoA_dehydrogenase_(ETF) Glutaryl-CoA dehydrogenase (ETF)], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.8.6 1.3.8.6] </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=3eom FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3eom OCA], [https://pdbe.org/3eom PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3eom RCSB], [https://www.ebi.ac.uk/pdbsum/3eom PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3eom 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=3eom FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3eom OCA], [https://pdbe.org/3eom PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3eom RCSB], [https://www.ebi.ac.uk/pdbsum/3eom PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3eom ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q3JP94_BURP1 Q3JP94_BURP1]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</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=3eom 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=3eom ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Glutaric acidemia type 1 is an inherited metabolic disorder which can cause macrocephaly, muscular rigidity, spastic paralysis and other progressive movement disorders in humans. The defects in glutaryl-CoA dehydrogenase (GCDH) associated with this disease are thought to increase holoenzyme instability and reduce cofactor binding. Here, the first structural analysis of a GCDH enzyme in the absence of the cofactor flavin adenine dinucleotide (FAD) is reported. The apo structure of GCDH from Burkholderia pseudomallei reveals a loss of secondary structure and increased disorder in the FAD-binding pocket relative to the ternary complex of the highly homologous human GCDH. After conducting a fragment-based screen, four small molecules were identified which bind to GCDH from B. pseudomallei. Complex structures were determined for these fragments, which cause backbone and side-chain perturbations to key active-site residues. Structural insights from this investigation highlight differences from apo GCDH and the utility of small-molecular fragments as chemical probes for capturing alternative conformational states of preformed protein crystals.
-
-	Probing conformational states of glutaryl-CoA dehydrogenase by fragment screening.,Begley DW, Davies DR, Hartley RC, Hewitt SN, Rychel AL, Myler PJ, Van Voorhis WC, Staker BL, Stewart LJ Acta Crystallogr Sect F Struct Biol Cryst Commun. 2011 Sep 1;67(Pt, 9):1060-9. Epub 2011 Aug 13. PMID:21904051<ref>PMID:21904051</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 3eom" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Acyl-CoA dehydrogenase 3D structures\|Acyl-CoA dehydrogenase 3D structures]]		*[[Acyl-CoA dehydrogenase 3D structures\|Acyl-CoA dehydrogenase 3D structures]]
	*[[Glutaryl-CoA dehydrogenase\|Glutaryl-CoA dehydrogenase]]		*[[Glutaryl-CoA dehydrogenase\|Glutaryl-CoA dehydrogenase]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Burp1~~]]	+	[[Category: Burkholderia pseudomallei 1710b]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Structural genomic]]
-	[[Category: Burkholderia]]
-	[[Category: Dehydrogenase]]
-	[[Category: Glutaryl-coa]]
-	[[Category: Oxidoreductase]]
-	[[Category: Pseudomallei]]
-	[[Category: Ssgcid]]

OCA at 09:11, 23 February 2022

2022-02-23T09:11:52Z

←Older revision		Revision as of 09:11, 23 February 2022
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	==2.4 A crystal structure of native glutaryl-coa dehydrogenase from Burkholderia pseudomallei==		==2.4 A crystal structure of native glutaryl-coa dehydrogenase from Burkholderia pseudomallei==
-	<StructureSection load='3eom' size='340' side='right' caption='[[3eom]], [[Resolution\|resolution]] 2.40Å' scene=''>	+	<StructureSection load='3eom' size='340' side='right'caption='[[3eom]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3eom]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Burp1 Burp1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EOM OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3EOM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3eom]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Burp1 Burp1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EOM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3EOM FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3eol\|3eol]], [[3eon\|3eon]], [[3eoo\|3eoo]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3eol\|3eol]], [[3eon\|3eon]], [[3eoo\|3eoo]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BURPS1710B_2458, BURPS1710b_3237, MSRB ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=320372 BURP1])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BURPS1710B_2458, BURPS1710b_3237, MSRB ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=320372 BURP1])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Glutaryl-CoA_dehydrogenase_(ETF) Glutaryl-CoA dehydrogenase (ETF)], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.8.6 1.3.8.6] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Glutaryl-CoA_dehydrogenase_(ETF) Glutaryl-CoA dehydrogenase (ETF)], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.8.6 1.3.8.6] </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=3eom FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3eom OCA], [~~http~~://pdbe.org/3eom PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3eom RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3eom PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3eom 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=3eom FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3eom OCA], [https://pdbe.org/3eom PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3eom RCSB], [https://www.ebi.ac.uk/pdbsum/3eom PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3eom ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/eo/3eom_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/eo/3eom_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>
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	</div>		</div>
	<div class="pdbe-citations 3eom" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 3eom" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Acyl-CoA dehydrogenase 3D structures\|Acyl-CoA dehydrogenase 3D structures]]
		+	*[[Glutaryl-CoA dehydrogenase\|Glutaryl-CoA dehydrogenase]]
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Burp1]]		[[Category: Burp1]]
		+	[[Category: Large Structures]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]
	[[Category: Burkholderia]]		[[Category: Burkholderia]]

OCA at 09:16, 25 October 2017

2017-10-25T09:16:44Z

←Older revision		Revision as of 09:16, 25 October 2017
Line 1:		Line 1:
		+
	==2.4 A crystal structure of native glutaryl-coa dehydrogenase from Burkholderia pseudomallei==		==2.4 A crystal structure of native glutaryl-coa dehydrogenase from Burkholderia pseudomallei==
	<StructureSection load='3eom' size='340' side='right' caption='[[3eom]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='3eom' size='340' side='right' caption='[[3eom]], [[Resolution\|resolution]] 2.40Å' scene=''>
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	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BURPS1710B_2458, BURPS1710b_3237, MSRB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=320372 BURP1])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BURPS1710B_2458, BURPS1710b_3237, MSRB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=320372 BURP1])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glutaryl-CoA_dehydrogenase_(ETF) Glutaryl-CoA dehydrogenase (ETF)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.8.6 1.3.8.6] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glutaryl-CoA_dehydrogenase_(ETF) Glutaryl-CoA dehydrogenase (ETF)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.8.6 1.3.8.6] </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=3eom FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3eom OCA], [http://pdbe.org/3eom PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3eom RCSB], [http://www.ebi.ac.uk/pdbsum/3eom 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=3eom FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3eom OCA], [http://pdbe.org/3eom PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3eom RCSB], [http://www.ebi.ac.uk/pdbsum/3eom PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3eom ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	</div>		</div>
	<div class="pdbe-citations 3eom" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 3eom" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Glutaryl-CoA dehydrogenase\|Glutaryl-CoA dehydrogenase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 06:59, 7 February 2016

2016-02-07T06:59:01Z

←Older revision		Revision as of 06:59, 7 February 2016
Line 2:		Line 2:
	<StructureSection load='3eom' size='340' side='right' caption='[[3eom]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='3eom' size='340' side='right' caption='[[3eom]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3eom]] 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=3EOM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3EOM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3eom]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Burp1 Burp1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EOM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3EOM FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3eol\|3eol]], [[3eon\|3eon]], [[3eoo\|3eoo]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3eol\|3eol]], [[3eon\|3eon]], [[3eoo\|3eoo]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BURPS1710B_2458, BURPS1710b_3237, MSRB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=~~28450 Burkholderia pseudomallei~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BURPS1710B_2458, BURPS1710b_3237, MSRB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=320372 BURP1])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glutaryl-~~CoA_dehydrogenase~~ Glutaryl-CoA dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.99.7 1.3.99.7] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glutaryl-CoA_dehydrogenase_(ETF) Glutaryl-CoA dehydrogenase (ETF)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.8.6 1.3.8.6] </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=3eom FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3eom OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3eom RCSB], [http://www.ebi.ac.uk/pdbsum/3eom 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=3eom FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3eom OCA], [http://pdbe.org/3eom PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3eom RCSB], [http://www.ebi.ac.uk/pdbsum/3eom PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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=3eom ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	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 3eom" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Burkholderia pseudomallei]]~~	+	[[Category: Burp1]]
-	~~[[Category: Glutaryl-CoA dehydrogenase~~]]	+
	[[Category: Structural genomic]]		[[Category: Structural genomic]]
	[[Category: Burkholderia]]		[[Category: Burkholderia]]

OCA at 21:40, 3 January 2015

2015-01-03T21:40:24Z

←Older revision		Revision as of 21:40, 3 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3eom]] 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=3EOM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3EOM FirstGlance]. <br>		<table><tr><td colspan='2'>[[3eom]] 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=3EOM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3EOM FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3eol\|3eol]], [[3eon\|3eon]], [[3eoo\|3eoo]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3eol\|3eol]], [[3eon\|3eon]], [[3eoo\|3eoo]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BURPS1710B_2458, BURPS1710b_3237, MSRB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=28450 Burkholderia pseudomallei])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BURPS1710B_2458, BURPS1710b_3237, MSRB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=28450 Burkholderia pseudomallei])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glutaryl-CoA_dehydrogenase Glutaryl-CoA dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.99.7 1.3.99.7] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glutaryl-CoA_dehydrogenase Glutaryl-CoA dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.99.7 1.3.99.7] </span></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=3eom FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3eom OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3eom RCSB], [http://www.ebi.ac.uk/pdbsum/3eom 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=3eom FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3eom OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3eom RCSB], [http://www.ebi.ac.uk/pdbsum/3eom 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 24:		Line 24:
	Probing conformational states of glutaryl-CoA dehydrogenase by fragment screening.,Begley DW, Davies DR, Hartley RC, Hewitt SN, Rychel AL, Myler PJ, Van Voorhis WC, Staker BL, Stewart LJ Acta Crystallogr Sect F Struct Biol Cryst Commun. 2011 Sep 1;67(Pt, 9):1060-9. Epub 2011 Aug 13. PMID:21904051<ref>PMID:21904051</ref>		Probing conformational states of glutaryl-CoA dehydrogenase by fragment screening.,Begley DW, Davies DR, Hartley RC, Hewitt SN, Rychel AL, Myler PJ, Van Voorhis WC, Staker BL, Stewart LJ Acta Crystallogr Sect F Struct Biol Cryst Commun. 2011 Sep 1;67(Pt, 9):1060-9. Epub 2011 Aug 13. PMID:21904051<ref>PMID:21904051</ref>

-	From ~~MEDLINEÂ®~~/~~PubMedÂ®~~, 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>
		+
		+	==See Also==
		+	*[[Glutaryl-CoA dehydrogenase\|Glutaryl-CoA dehydrogenase]]
	== References ==		== References ==
	<references/>		<references/>
Line 32:		Line 35:
	[[Category: Burkholderia pseudomallei]]		[[Category: Burkholderia pseudomallei]]
	[[Category: Glutaryl-CoA dehydrogenase]]		[[Category: Glutaryl-CoA dehydrogenase]]
-	[[Category: ~~SSGCID, Seattle~~ Structural ~~Genomics Center for Infectious Disease.~~]]	+	[[Category: Structural genomic]]
	[[Category: Burkholderia]]		[[Category: Burkholderia]]
	[[Category: Dehydrogenase]]		[[Category: Dehydrogenase]]
Line 38:		Line 41:
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]
	[[Category: Pseudomallei]]		[[Category: Pseudomallei]]
-	[[Category: Seattle structural genomics center for infectious disease]]
	[[Category: Ssgcid]]		[[Category: Ssgcid]]

OCA at 09:53, 21 May 2014

2014-05-21T09:53:08Z

←Older revision		Revision as of 09:53, 21 May 2014
Line 1:		Line 1:
-	[[~~Image:~~3eom.~~png~~\|~~left~~\|200px]]	+	==2.4 A crystal structure of native glutaryl-coa dehydrogenase from Burkholderia pseudomallei==
		+	<StructureSection load='3eom' size='340' side='right' caption='[[3eom]], [[Resolution\|resolution]] 2.40Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3eom]] 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=3EOM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3EOM FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3eol\|3eol]], [[3eon\|3eon]], [[3eoo\|3eoo]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BURPS1710B_2458, BURPS1710b_3237, MSRB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=28450 Burkholderia pseudomallei])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glutaryl-CoA_dehydrogenase Glutaryl-CoA dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.99.7 1.3.99.7] </span></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=3eom FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3eom OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3eom RCSB], [http://www.ebi.ac.uk/pdbsum/3eom 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/eo/3eom_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 ==
		+	Glutaric acidemia type 1 is an inherited metabolic disorder which can cause macrocephaly, muscular rigidity, spastic paralysis and other progressive movement disorders in humans. The defects in glutaryl-CoA dehydrogenase (GCDH) associated with this disease are thought to increase holoenzyme instability and reduce cofactor binding. Here, the first structural analysis of a GCDH enzyme in the absence of the cofactor flavin adenine dinucleotide (FAD) is reported. The apo structure of GCDH from Burkholderia pseudomallei reveals a loss of secondary structure and increased disorder in the FAD-binding pocket relative to the ternary complex of the highly homologous human GCDH. After conducting a fragment-based screen, four small molecules were identified which bind to GCDH from B. pseudomallei. Complex structures were determined for these fragments, which cause backbone and side-chain perturbations to key active-site residues. Structural insights from this investigation highlight differences from apo GCDH and the utility of small-molecular fragments as chemical probes for capturing alternative conformational states of preformed protein crystals.

-	<!--	+	Probing conformational states of glutaryl-CoA dehydrogenase by fragment screening.,Begley DW, Davies DR, Hartley RC, Hewitt SN, Rychel AL, Myler PJ, Van Voorhis WC, Staker BL, Stewart LJ Acta Crystallogr Sect F Struct Biol Cryst Commun. 2011 Sep 1;67(Pt, 9):1060-9. Epub 2011 Aug 13. PMID:21904051<ref>PMID:21904051</ref>
-	~~The line below this paragraph~~, ~~containing "STRUCTURE_3eom"~~, ~~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_3eom\| PDB=3eom \| SCENE= }}~~	+

-	~~===2.4 A crystal structure~~ of ~~native glutaryl-coa dehydrogenase from Burkholderia pseudomallei===~~	+	From MEDLINEÂ®/PubMedÂ®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-		+	== References ==
-	~~<!--~~	+	<references/>
-	~~The line below this paragraph, {{ABSTRACT_PUBMED_21904051}}, adds~~ the ~~Publication Abstract to the page~~	+	__TOC__
-	~~(as it appears on PubMed at http://www~~.~~pubmed~~.~~gov), where 21904051 is the PubMed ID number~~.	+	</StructureSection>
-	-->	+
-	~~{{ABSTRACT_PUBMED_21904051}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[3eom]] 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=3EOM OCA].~~	+
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:021904051<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Burkholderia pseudomallei]]		[[Category: Burkholderia pseudomallei]]
	[[Category: Glutaryl-CoA dehydrogenase]]		[[Category: Glutaryl-CoA dehydrogenase]]

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

2011-09-21T05:17:47Z

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

←Older revision

Revision as of 05:17, 21 September 2011

OCA at 05:17, 21 September 2011

2011-09-21T05:17:46Z

←Older revision		Revision as of 05:17, 21 September 2011
Line 1:		Line 1:
-	{{Seed}}
	[[Image:3eom.png\|left\|200px]]		[[Image:3eom.png\|left\|200px]]

Line 12:		Line 11:
	===2.4 A crystal structure of native glutaryl-coa dehydrogenase from Burkholderia pseudomallei===		===2.4 A crystal structure of native glutaryl-coa dehydrogenase from Burkholderia pseudomallei===

		+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_21904051}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 21904051 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_21904051}}

	==About this Structure==		==About this Structure==
-	~~3EOM~~ 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=3EOM OCA].	+	[[3eom]] 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=3EOM OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:021904051</ref><references group="xtra"/>
	[[Category: Burkholderia pseudomallei]]		[[Category: Burkholderia pseudomallei]]
	[[Category: Glutaryl-CoA dehydrogenase]]		[[Category: Glutaryl-CoA dehydrogenase]]
Line 25:		Line 33:
	[[Category: Seattle structural genomics center for infectious disease]]		[[Category: Seattle structural genomics center for infectious disease]]
	[[Category: Ssgcid]]		[[Category: Ssgcid]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 12:07:14 2009''

OCA at 10:07, 16 February 2009

2009-02-16T10:07:14Z

←Older revision		Revision as of 10:07, 16 February 2009
Line 1:		Line 1:
	{{Seed}}		{{Seed}}
-	[[Image:3eom.~~jpg~~\|left\|200px]]	+	[[Image:3eom.png\|left\|200px]]

	<!--		<!--
Line 14:		Line 14:

	==About this Structure==		==About this Structure==
-	3EOM is a ~~[[Single protein]]~~ structure of ~~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=3EOM OCA].	+	3EOM 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=3EOM OCA].
	[[Category: Burkholderia pseudomallei]]		[[Category: Burkholderia pseudomallei]]
	[[Category: Glutaryl-CoA dehydrogenase]]		[[Category: Glutaryl-CoA dehydrogenase]]
-	[[Category: Single protein]]
	[[Category: SSGCID, Seattle Structural Genomics Center for Infectious Disease.]]		[[Category: SSGCID, Seattle Structural Genomics Center for Infectious Disease.]]
	[[Category: Burkholderia]]		[[Category: Burkholderia]]
Line 27:		Line 26:
	[[Category: Ssgcid]]		[[Category: Ssgcid]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Wed Oct 22 10~~:59:~~23 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 12:07:14 2009''

OCA at 08:59, 22 October 2008

2008-10-22T08:59:23Z

←Older revision		Revision as of 08:59, 22 October 2008
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{Seed}}
		+	[[Image:3eom.jpg\|left\|200px]]

-	The ~~entry 3eom~~ is ~~ON HOLD~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3eom", 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_3eom\| PDB=3eom \| SCENE= }}

-	~~Authors: Seattle Structural Genomics Center for Infectious Disease (SSGCID)~~	+	===2.4 A crystal structure of native glutaryl-coa dehydrogenase from Burkholderia pseudomallei===

-	Description: 2.4 A crystal structure of native glutaryl-coa dehydrogenase from Burkholderia pseudomallei

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Oct ~~8 09~~:20:57 2008''	+	==About this Structure==
		+	3EOM is a [[Single protein]] structure of 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=3EOM OCA].
		+	[[Category: Burkholderia pseudomallei]]
		+	[[Category: Glutaryl-CoA dehydrogenase]]
		+	[[Category: Single protein]]
		+	[[Category: SSGCID, Seattle Structural Genomics Center for Infectious Disease.]]
		+	[[Category: Burkholderia]]
		+	[[Category: Dehydrogenase]]
		+	[[Category: Glutaryl-coa]]
		+	[[Category: Oxidoreductase]]
		+	[[Category: Pseudomallei]]
		+	[[Category: Seattle structural genomics center for infectious disease]]
		+	[[Category: Ssgcid]]
		+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Oct 22 10:59:23 2008''