2glp - Revision history

OCA at 08:49, 25 October 2023

2023-10-25T08:49:31Z

←Older revision		Revision as of 08:49, 25 October 2023
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	<StructureSection load='2glp' size='340' side='right'caption='[[2glp]], [[Resolution\|resolution]] 2.42Å' scene=''>		<StructureSection load='2glp' size='340' side='right'caption='[[2glp]], [[Resolution\|resolution]] 2.42Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2glp]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Helicobacter_pylori_(strain_ss1)~~ Helicobacter pylori ~~(strain ss1)~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GLP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2GLP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2glp]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Helicobacter_pylori_SS1 Helicobacter pylori SS1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GLP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2GLP FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BDE:N-[(1E)-(3,5-DIBROMO-2,4-DIHYDROXYPHENYL)METHYLENE]NICOTINOHYDRAZIDE'>BDE</scene>, <scene name='pdbligand=BEN:BENZAMIDINE'>BEN</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</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]] 2.42Å</td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2gll\|2gll]], [[2glm\|2glm]], [[2glv\|2glv]]</div></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BDE:N-[(1E)-(3,5-DIBROMO-2,4-DIHYDROXYPHENYL)METHYLENE]NICOTINOHYDRAZIDE'>BDE</scene>, <scene name='pdbligand=BEN:BENZAMIDINE'>BEN</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">FabZ ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=102617 Helicobacter pylori (strain SS1)])</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=2glp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2glp OCA], [https://pdbe.org/2glp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2glp RCSB], [https://www.ebi.ac.uk/pdbsum/2glp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2glp 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=2glp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2glp OCA], [https://pdbe.org/2glp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2glp RCSB], [https://www.ebi.ac.uk/pdbsum/2glp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2glp ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/~~Q5G940_HELPX Q5G940_HELPX]~~] Involved in unsaturated fatty acids biosynthesis. Catalyzes the dehydration of short chain beta-hydroxyacyl-ACPs and long chain saturated and unsaturated beta-hydroxyacyl-ACPs.[HAMAP-Rule:MF_00406] Involved in unsaturated fatty acids biosynthesis. Catalyzes the dehydration of short chain beta-hydroxyacyl-ACPs and long chain saturated and unsaturated beta-hydroxyacyl-ACPs (By similarity).[SAAS:SAAS00205551]	+	[https://www.uniprot.org/uniprot/FABZ_HELPY FABZ_HELPY] Involved in unsaturated fatty acids biosynthesis. Catalyzes the dehydration of short chain beta-hydroxyacyl-ACPs and long chain saturated and unsaturated beta-hydroxyacyl-ACPs.[HAMAP-Rule:MF_00406]
	== 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: Helicobacter pylori SS1]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Jiang, H]]	+	[[Category: Jiang H]]
-	[[Category: Liu, W]]	+	[[Category: Liu W]]
-	[[Category: Shen, X]]	+	[[Category: Shen X]]
-	[[Category: Zhang, L]]	+	[[Category: Zhang L]]
-	~~[[Category: Fabz complex]]~~	+
-	~~[[Category: Lyase~~]]	+

OCA at 19:08, 10 March 2021

2021-03-10T19:08:41Z

←Older revision		Revision as of 19:08, 10 March 2021
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	==Crystal structure of (3R)-Hydroxyacyl-Acyl Carrier Protein Dehydratase(FabZ) from Helicobacter pylori complexed with compound 1==		==Crystal structure of (3R)-Hydroxyacyl-Acyl Carrier Protein Dehydratase(FabZ) from Helicobacter pylori complexed with compound 1==
-	<StructureSection load='2glp' size='340' side='right' caption='[[2glp]], [[Resolution\|resolution]] 2.42Å' scene=''>	+	<StructureSection load='2glp' size='340' side='right'caption='[[2glp]], [[Resolution\|resolution]] 2.42Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2glp]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Helicobacter_pylori_(strain_ss1) Helicobacter pylori (strain ss1)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GLP OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2GLP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2glp]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Helicobacter_pylori_(strain_ss1) Helicobacter pylori (strain ss1)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GLP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2GLP FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BDE:N-[(1E)-(3,5-DIBROMO-2,4-DIHYDROXYPHENYL)METHYLENE]NICOTINOHYDRAZIDE'>BDE</scene>, <scene name='pdbligand=BEN:BENZAMIDINE'>BEN</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BDE:N-[(1E)-(3,5-DIBROMO-2,4-DIHYDROXYPHENYL)METHYLENE]NICOTINOHYDRAZIDE'>BDE</scene>, <scene name='pdbligand=BEN:BENZAMIDINE'>BEN</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2gll\|2gll]], [[2glm\|2glm]], [[2glv\|2glv]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2gll\|2gll]], [[2glm\|2glm]], [[2glv\|2glv]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">FabZ ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=102617 Helicobacter pylori (strain SS1)])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">FabZ ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=102617 Helicobacter pylori (strain SS1)])</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=2glp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2glp OCA], [~~http~~://pdbe.org/2glp PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2glp RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2glp PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2glp 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=2glp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2glp OCA], [https://pdbe.org/2glp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2glp RCSB], [https://www.ebi.ac.uk/pdbsum/2glp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2glp ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/Q5G940_HELPX Q5G940_HELPX]] Involved in unsaturated fatty acids biosynthesis. Catalyzes the dehydration of short chain beta-hydroxyacyl-ACPs and long chain saturated and unsaturated beta-hydroxyacyl-ACPs.[HAMAP-Rule:MF_00406] Involved in unsaturated fatty acids biosynthesis. Catalyzes the dehydration of short chain beta-hydroxyacyl-ACPs and long chain saturated and unsaturated beta-hydroxyacyl-ACPs (By similarity).[SAAS:SAAS00205551]	+	[[https://www.uniprot.org/uniprot/Q5G940_HELPX Q5G940_HELPX]] Involved in unsaturated fatty acids biosynthesis. Catalyzes the dehydration of short chain beta-hydroxyacyl-ACPs and long chain saturated and unsaturated beta-hydroxyacyl-ACPs.[HAMAP-Rule:MF_00406] Involved in unsaturated fatty acids biosynthesis. Catalyzes the dehydration of short chain beta-hydroxyacyl-ACPs and long chain saturated and unsaturated beta-hydroxyacyl-ACPs (By similarity).[SAAS:SAAS00205551]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/gl/2glp_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/gl/2glp_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
Line 30:		Line 30:
	</div>		</div>
	<div class="pdbe-citations 2glp" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 2glp" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Beta-hydroxyacyl-acyl carrier protein dehydratase 3D structures\|Beta-hydroxyacyl-acyl carrier protein dehydratase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Jiang, H]]		[[Category: Jiang, H]]
	[[Category: Liu, W]]		[[Category: Liu, W]]

OCA at 07:56, 18 October 2017

2017-10-18T07:56:04Z

←Older revision		Revision as of 07:56, 18 October 2017
Line 1:		Line 1:
		+
	==Crystal structure of (3R)-Hydroxyacyl-Acyl Carrier Protein Dehydratase(FabZ) from Helicobacter pylori complexed with compound 1==		==Crystal structure of (3R)-Hydroxyacyl-Acyl Carrier Protein Dehydratase(FabZ) from Helicobacter pylori complexed with compound 1==
	<StructureSection load='2glp' size='340' side='right' caption='[[2glp]], [[Resolution\|resolution]] 2.42Å' scene=''>		<StructureSection load='2glp' size='340' side='right' caption='[[2glp]], [[Resolution\|resolution]] 2.42Å' scene=''>
Line 6:		Line 7:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2gll\|2gll]], [[2glm\|2glm]], [[2glv\|2glv]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2gll\|2gll]], [[2glm\|2glm]], [[2glv\|2glv]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">FabZ ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=102617 Helicobacter pylori (strain SS1)])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">FabZ ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=102617 Helicobacter pylori (strain SS1)])</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=2glp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2glp OCA], [http://pdbe.org/2glp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2glp RCSB], [http://www.ebi.ac.uk/pdbsum/2glp 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=2glp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2glp OCA], [http://pdbe.org/2glp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2glp RCSB], [http://www.ebi.ac.uk/pdbsum/2glp PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2glp ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		Line 19:
	<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=2glp 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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	</div>		</div>
	<div class="pdbe-citations 2glp" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 2glp" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Beta-hydroxyacyl-acyl carrier protein dehydratase\|Beta-hydroxyacyl-acyl carrier protein dehydratase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 01:08, 12 September 2015

2015-09-12T01:08:36Z

←Older revision		Revision as of 01:08, 12 September 2015
Line 2:		Line 2:
	<StructureSection load='2glp' size='340' side='right' caption='[[2glp]], [[Resolution\|resolution]] 2.42Å' scene=''>		<StructureSection load='2glp' size='340' side='right' caption='[[2glp]], [[Resolution\|resolution]] 2.42Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2glp]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Helicobacter_pylori~~ Helicobacter pylori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GLP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2GLP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2glp]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Helicobacter_pylori_(strain_ss1) Helicobacter pylori (strain ss1)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GLP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2GLP FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BDE:N-[(1E)-(3,5-DIBROMO-2,4-DIHYDROXYPHENYL)METHYLENE]NICOTINOHYDRAZIDE'>BDE</scene>, <scene name='pdbligand=BEN:BENZAMIDINE'>BEN</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BDE:N-[(1E)-(3,5-DIBROMO-2,4-DIHYDROXYPHENYL)METHYLENE]NICOTINOHYDRAZIDE'>BDE</scene>, <scene name='pdbligand=BEN:BENZAMIDINE'>BEN</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2gll\|2gll]], [[2glm\|2glm]], [[2glv\|2glv]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2gll\|2gll]], [[2glm\|2glm]], [[2glv\|2glv]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">FabZ ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=~~210~~ Helicobacter pylori])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">FabZ ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=102617 Helicobacter pylori (strain SS1)])</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=2glp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2glp OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2glp RCSB], [http://www.ebi.ac.uk/pdbsum/2glp 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=2glp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2glp OCA], [http://pdbe.org/2glp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2glp RCSB], [http://www.ebi.ac.uk/pdbsum/2glp PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[http://www.uniprot.org/uniprot/~~Q5G940_HELPY Q5G940_HELPY~~]] Involved in unsaturated fatty acids biosynthesis. Catalyzes the dehydration of short chain beta-hydroxyacyl-ACPs and long chain saturated and unsaturated beta-hydroxyacyl-ACPs ~~(By similarity)~~.[HAMAP-Rule:MF_00406][SAAS:~~SAAS010084_004_019936~~]	+	[[http://www.uniprot.org/uniprot/Q5G940_HELPX Q5G940_HELPX]] Involved in unsaturated fatty acids biosynthesis. Catalyzes the dehydration of short chain beta-hydroxyacyl-ACPs and long chain saturated and unsaturated beta-hydroxyacyl-ACPs.[HAMAP-Rule:MF_00406] Involved in unsaturated fatty acids biosynthesis. Catalyzes the dehydration of short chain beta-hydroxyacyl-ACPs and long chain saturated and unsaturated beta-hydroxyacyl-ACPs (By similarity).[SAAS:SAAS00205551]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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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 2glp" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 35:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Helicobacter pylori]]
	[[Category: Jiang, H]]		[[Category: Jiang, H]]
	[[Category: Liu, W]]		[[Category: Liu, W]]

OCA at 21:49, 25 December 2014

2014-12-25T21:49:21Z

←Older revision		Revision as of 21:49, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2glp]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Helicobacter_pylori Helicobacter pylori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GLP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2GLP FirstGlance]. <br>		<table><tr><td colspan='2'>[[2glp]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Helicobacter_pylori Helicobacter pylori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GLP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2GLP FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BDE:N-[(1E)-(3,5-DIBROMO-2,4-DIHYDROXYPHENYL)METHYLENE]NICOTINOHYDRAZIDE'>BDE</scene>, <scene name='pdbligand=BEN:BENZAMIDINE'>BEN</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BDE:N-[(1E)-(3,5-DIBROMO-2,4-DIHYDROXYPHENYL)METHYLENE]NICOTINOHYDRAZIDE'>BDE</scene>, <scene name='pdbligand=BEN:BENZAMIDINE'>BEN</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2gll\|2gll]], [[2glm\|2glm]], [[2glv\|2glv]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2gll\|2gll]], [[2glm\|2glm]], [[2glv\|2glv]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">FabZ ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=210 Helicobacter pylori])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">FabZ ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=210 Helicobacter pylori])</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=2glp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2glp OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2glp RCSB], [http://www.ebi.ac.uk/pdbsum/2glp 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=2glp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2glp OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2glp RCSB], [http://www.ebi.ac.uk/pdbsum/2glp PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/Q5G940_HELPY Q5G940_HELPY]] Involved in unsaturated fatty acids biosynthesis. Catalyzes the dehydration of short chain beta-hydroxyacyl-ACPs and long chain saturated and unsaturated beta-hydroxyacyl-ACPs (By similarity).[HAMAP-Rule:MF_00406][SAAS:SAAS010084_004_019936]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 34:		Line 36:
	</StructureSection>		</StructureSection>
	[[Category: Helicobacter pylori]]		[[Category: Helicobacter pylori]]
-	[[Category: Jiang, H.]]	+	[[Category: Jiang, H]]
-	[[Category: Liu, W.]]	+	[[Category: Liu, W]]
-	[[Category: Shen, X.]]	+	[[Category: Shen, X]]
-	[[Category: Zhang, L.]]	+	[[Category: Zhang, L]]
	[[Category: Fabz complex]]		[[Category: Fabz complex]]
	[[Category: Lyase]]		[[Category: Lyase]]

OCA at 09:06, 30 September 2014

2014-09-30T09:06:54Z

←Older revision		Revision as of 09:06, 30 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2glp.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of (3R)-Hydroxyacyl-Acyl Carrier Protein Dehydratase(FabZ) from Helicobacter pylori complexed with compound 1==
		+	<StructureSection load='2glp' size='340' side='right' caption='[[2glp]], [[Resolution\|resolution]] 2.42Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2glp]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Helicobacter_pylori Helicobacter pylori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GLP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2GLP FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BDE:N-[(1E)-(3,5-DIBROMO-2,4-DIHYDROXYPHENYL)METHYLENE]NICOTINOHYDRAZIDE'>BDE</scene>, <scene name='pdbligand=BEN:BENZAMIDINE'>BEN</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2gll\|2gll]], [[2glm\|2glm]], [[2glv\|2glv]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">FabZ ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=210 Helicobacter pylori])</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=2glp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2glp OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2glp RCSB], [http://www.ebi.ac.uk/pdbsum/2glp 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/gl/2glp_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 ==
		+	beta-Hydroxyacyl-acyl carrier protein dehydratase (FabZ) is an important enzyme for the elongation cycles of both saturated and unsaturated fatty acids biosyntheses in the type II fatty acid biosynthesis system (FAS II) pathway. FabZ has been an essential target for the discovery of compounds effective against pathogenic microbes. In this work, to characterize the catalytic and inhibitory mechanisms of FabZ, the crystal structures of the FabZ of Helicobacter pylori (HpFabZ) and its complexes with two newly discovered inhibitors have been solved. Different from the structures of other bacterial FabZs, HpFabZ contains an extra short two-turn alpha-helix (alpha4) between alpha3 and beta3, which plays an important role in shaping the substrate-binding tunnel. Residue Tyr-100 at the entrance of the tunnel adopts either an open or closed conformation in the crystal structure. The crystal structural characterization, the binding affinity determination, and the enzymatic activity assay of the HpFabZ mutant (Y100A) confirm the importance of Tyr-100 in catalytic activity and substrate binding. Residue Phe-83 at the exit tunnel was also refined in two alternative conformations, leading the tunnel to form an L-shape and U-shape. All these data thus contributed much to understanding the catalytic mechanism of HpFabZ. In addition, the co-crystal structures of HpFabZ with its inhibitors have suggested that the enzymatic activity of HpFabZ could be inhibited either by occupying the entrance of the tunnel or plugging the tunnel to prevent the substrate from accessing the active site. Our study has provided some insights into the catalytic and inhibitory mechanisms of FabZ, thus facilitating antibacterial agent development.

-	~~{{STRUCTURE_2glp\| PDB=2glp \| SCENE= }}~~	+	Structural basis for catalytic and inhibitory mechanisms of beta-hydroxyacyl-acyl carrier protein dehydratase (FabZ).,Zhang L, Liu W, Hu T, Du L, Luo C, Chen K, Shen X, Jiang H J Biol Chem. 2008 Feb 29;283(9):5370-9. Epub 2007 Dec 19. PMID:18093984<ref>PMID:18093984</ref>

-	~~===Crystal structure~~ of ~~(3R)-Hydroxyacyl-Acyl Carrier Protein Dehydratase(FabZ) from Helicobacter pylori complexed with compound 1===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

-	~~{{ABSTRACT_PUBMED_18093984}}~~	+	==See Also==
-		+	*[[Beta-hydroxyacyl-acyl carrier protein dehydratase\|Beta-hydroxyacyl-acyl carrier protein dehydratase]]
-	==~~About this Structure~~==	+	== References ==
-	[[~~2glp~~]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Helicobacter_pylori Helicobacter pylori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GLP OCA].	+	<references/>
-		+	__TOC__
-	==~~Reference~~==	+	</StructureSection>
-	<~~ref group="xtra">PMID:018093984<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Helicobacter pylori]]		[[Category: Helicobacter pylori]]
	[[Category: Jiang, H.]]		[[Category: Jiang, H.]]

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

2013-01-07T14:02:37Z

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

←Older revision

Revision as of 14:02, 7 January 2013

OCA at 14:02, 7 January 2013

2013-01-07T14:02:31Z

←Older revision		Revision as of 14:02, 7 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2glp.png\|left\|200px]]		[[Image:2glp.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2glp", 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_2glp\| PDB=2glp \| SCENE= }}		{{STRUCTURE_2glp\| PDB=2glp \| SCENE= }}

	===Crystal structure of (3R)-Hydroxyacyl-Acyl Carrier Protein Dehydratase(FabZ) from Helicobacter pylori complexed with compound 1===		===Crystal structure of (3R)-Hydroxyacyl-Acyl Carrier Protein Dehydratase(FabZ) from Helicobacter pylori complexed with compound 1===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_18093984}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 18093984 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_18093984}}		{{ABSTRACT_PUBMED_18093984}}

	==About this Structure==		==About this Structure==
-	~~2GLP~~ is a 6 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Helicobacter_pylori Helicobacter pylori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GLP OCA].	+	[[2glp]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Helicobacter_pylori Helicobacter pylori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GLP OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~18093984~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:018093984</ref><references group="xtra"/>
	[[Category: Helicobacter pylori]]		[[Category: Helicobacter pylori]]
	[[Category: Jiang, H.]]		[[Category: Jiang, H.]]
Line 31:		Line 19:
	[[Category: Fabz complex]]		[[Category: Fabz complex]]
	[[Category: Lyase]]		[[Category: Lyase]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 08:54:45 2009''

OCA at 06:54, 18 February 2009

2009-02-18T06:54:47Z

←Older revision		Revision as of 06:54, 18 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	2GLP is a ~~[[Single protein]]~~ structure of ~~sequence~~ from [http://en.wikipedia.org/wiki/Helicobacter_pylori Helicobacter pylori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GLP OCA].	+	2GLP is a 6 chains structure of sequences from [http://en.wikipedia.org/wiki/Helicobacter_pylori Helicobacter pylori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GLP OCA].

	==Reference==		==Reference==
-	Structural basis for catalytic and inhibitory mechanisms of beta -hydroxyacyl-acyl carrier protein dehydratase (FabZ)., Zhang L, Liu W, Hu T, Du L, Luo C, Chen K, Shen X, Jiang H, J Biol Chem. 2007 Dec 19;. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/18093984 18093984]~~	+	<ref group="xtra">PMID:18093984</ref><references group="xtra"/>
	[[Category: Helicobacter pylori]]		[[Category: Helicobacter pylori]]
-	[[Category: Single protein]]
	[[Category: Jiang, H.]]		[[Category: Jiang, H.]]
	[[Category: Liu, W.]]		[[Category: Liu, W.]]
Line 33:		Line 32:
	[[Category: Lyase]]		[[Category: Lyase]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Jul 2 20~~:52:~~42 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 08:54:45 2009''

OCA at 17:52, 2 July 2008

2008-07-02T17:52:43Z

←Older revision		Revision as of 17:52, 2 July 2008
Line 1:		Line 1:
-	[[Image:2glp.~~jpg~~\|left\|200px]]	+	{{Seed}}
		+	[[Image:2glp.png\|left\|200px]]

	<!--		<!--
Line 9:		Line 10:
	{{STRUCTURE_2glp\| PDB=2glp \| SCENE= }}		{{STRUCTURE_2glp\| PDB=2glp \| SCENE= }}

-	~~'''~~Crystal structure of (3R)-Hydroxyacyl-Acyl Carrier Protein Dehydratase(FabZ) from Helicobacter pylori complexed with compound 1~~'''~~	+	===Crystal structure of (3R)-Hydroxyacyl-Acyl Carrier Protein Dehydratase(FabZ) from Helicobacter pylori complexed with compound 1===


-	~~==Overview==~~	+	<!--
-	ss-~~hydroxyacyl~~-ACP dehydratase (FabZ) is an important enzyme for the elongation cycles of fatty acids biosyntheses in the type-II fatty acid biosynthesis system (FAS II) pathway. FabZ has been an essential target for the discovery of compounds effective against pathogenic microbes. In this ~~work~~, ~~to characterize the catalytic and inhibitory mechanisms of FabZ~~, the ~~crystal structures of~~ the ~~FabZ of Helicobacter pylori~~ (~~HpFabZ) and its complexes with two newly discovered inhibitors have been solved~~. ~~Different from the structures of other bacterial FabZs, HpFabZ contains an extra short two-turn a-helix (a4~~), ~~which plays an important role in shaping~~ the ~~substrate-binding tunnel~~. Residue Tyr100 at the entrance of the tunnel adopts either an open or closed conformation in the crystal structure. The crystal structural characterization, the binding affinity determination and the enzymatic activity assay of the HpFabZ mutant (Y100A) confirm the importance of Tyr100 in catalytic activity and substrate binding. Residue Phe83 at the exit tunnel was also refined in two alternative conformations, leading the tunnel to form L-~~shape and U~~-shape. All these data thus contributed a lot to understanding the catalytic mechanism of HpFabZ. In addition, the co-crystal structures of HpFabZ with its inhibitors have suggested that the enzymatic activity of HpFabZ could be inhibited either by occupying the entrance of the tunnel or plugging the tunnel to prevent the substrate from accessing the active site. Our study is expected to have provided some insights into the catalytic and inhibitory mechanisms of FabZ thus facilitating the antibacterial agent development.	+	The line below this paragraph, {{ABSTRACT_PUBMED_18093984}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 18093984 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_18093984}}

	==About this Structure==		==About this Structure==
Line 28:		Line 32:
	[[Category: Fabz complex]]		[[Category: Fabz complex]]
	[[Category: Lyase]]		[[Category: Lyase]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sun May~~ ~~4 05~~:14:55 2008''	+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul 2 20:52:42 2008''