3b7j - Revision history

OCA at 14:42, 1 November 2023

OCA — Wed, 01 Nov 2023 14:42:09 GMT

←Older revision		Revision as of 14:42, 1 November 2023
Line 3:		Line 3:
	<StructureSection load='3b7j' size='340' side='right'caption='[[3b7j]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='3b7j' size='340' side='right'caption='[[3b7j]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3b7j]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Atcc_43504 Atcc 43504~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3B7J OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3B7J FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3b7j]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Helicobacter_pylori Helicobacter pylori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3B7J OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3B7J FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=BEN:BENZAMIDINE'>BEN</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=JUG:5~~-~~HYDROXYNAPHTHALENE-1~~,4~~-DIONE'>JUG</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]] 2.4Å</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]], [[2glp\|2glp]], [[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=BEN:BENZAMIDINE'>BEN</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=JUG:5-HYDROXYNAPHTHALENE-1,4-DIONE'>JUG</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=210 ATCC 43504])~~</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=3b7j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3b7j OCA], [https://pdbe.org/3b7j PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3b7j RCSB], [https://www.ebi.ac.uk/pdbsum/3b7j PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3b7j 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=3b7j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3b7j OCA], [https://pdbe.org/3b7j PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3b7j RCSB], [https://www.ebi.ac.uk/pdbsum/3b7j PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3b7j 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/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]]
Line 37:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Atcc 43504~~]]	+	[[Category: Helicobacter pylori]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Jiang~~, H L~~]]	+	[[Category: Jiang HL]]
-	[[Category: Kong~~, Y H~~]]	+	[[Category: Kong YH]]
-	[[Category: Shen, X]]	+	[[Category: Shen X]]
-	[[Category: Wu, D]]	+	[[Category: Wu D]]
-	[[Category: Zhang, L]]	+	[[Category: Zhang L]]
-	~~[[Category: Cytoplasm]]~~	+
-	~~[[Category: Fabz complex]]~~	+
-	~~[[Category: Juglone]]~~	+
-	~~[[Category: Lipid a biosynthesis]]~~	+
-	~~[[Category: Lipid synthesis]]~~	+
-	~~[[Category: Lyase~~]]	+

OCA at 11:26, 5 January 2022

OCA — Wed, 05 Jan 2022 11:26:38 GMT

←Older revision		Revision as of 11:26, 5 January 2022
Line 1:		Line 1:

	==Crystal structure of (3R)-Hydroxyacyl-Acyl Carrier Protein Dehydratase(FabZ) from Helicobacter pylori complexed with juglone==		==Crystal structure of (3R)-Hydroxyacyl-Acyl Carrier Protein Dehydratase(FabZ) from Helicobacter pylori complexed with juglone==
-	<StructureSection load='3b7j' size='340' side='right' caption='[[3b7j]], [[Resolution\|resolution]] 2.40Å' scene=''>	+	<StructureSection load='3b7j' size='340' side='right'caption='[[3b7j]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3b7j]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Atcc_43504 Atcc 43504]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3B7J OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3B7J FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3b7j]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_43504 Atcc 43504]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3B7J OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3B7J FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BEN:BENZAMIDINE'>BEN</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=JUG:5-HYDROXYNAPHTHALENE-1,4-DIONE'>JUG</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BEN:BENZAMIDINE'>BEN</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=JUG:5-HYDROXYNAPHTHALENE-1,4-DIONE'>JUG</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2gll\|2gll]], [[2glp\|2glp]], [[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]], [[2glp\|2glp]], [[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=210 ATCC 43504])</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=210 ATCC 43504])</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=3b7j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3b7j OCA], [~~http~~://pdbe.org/3b7j PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3b7j RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3b7j PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3b7j 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=3b7j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3b7j OCA], [https://pdbe.org/3b7j PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3b7j RCSB], [https://www.ebi.ac.uk/pdbsum/3b7j PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3b7j 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]]
Line 32:		Line 32:

	==See Also==		==See Also==
-	*[[Beta-hydroxyacyl-acyl carrier protein dehydratase\|Beta-hydroxyacyl-acyl carrier protein dehydratase]]	+	*[[Beta-hydroxyacyl-acyl carrier protein dehydratase 3D structures\|Beta-hydroxyacyl-acyl carrier protein dehydratase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 38:		Line 38:
	</StructureSection>		</StructureSection>
	[[Category: Atcc 43504]]		[[Category: Atcc 43504]]
		+	[[Category: Large Structures]]
	[[Category: Jiang, H L]]		[[Category: Jiang, H L]]
	[[Category: Kong, Y H]]		[[Category: Kong, Y H]]

OCA at 07:38, 31 October 2018

OCA — Wed, 31 Oct 2018 07:38:24 GMT

←Older revision		Revision as of 07:38, 31 October 2018
Line 1:		Line 1:
		+
	==Crystal structure of (3R)-Hydroxyacyl-Acyl Carrier Protein Dehydratase(FabZ) from Helicobacter pylori complexed with juglone==		==Crystal structure of (3R)-Hydroxyacyl-Acyl Carrier Protein Dehydratase(FabZ) from Helicobacter pylori complexed with juglone==
	<StructureSection load='3b7j' size='340' side='right' caption='[[3b7j]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='3b7j' size='340' side='right' caption='[[3b7j]], [[Resolution\|resolution]] 2.40Å' scene=''>
Line 6:		Line 7:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2gll\|2gll]], [[2glp\|2glp]], [[2glm\|2glm]], [[2glv\|2glv]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2gll\|2gll]], [[2glp\|2glp]], [[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 ATCC 43504])</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 ATCC 43504])</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=3b7j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3b7j OCA], [http://pdbe.org/3b7j PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3b7j RCSB], [http://www.ebi.ac.uk/pdbsum/3b7j 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=3b7j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3b7j OCA], [http://pdbe.org/3b7j PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3b7j RCSB], [http://www.ebi.ac.uk/pdbsum/3b7j PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3b7j ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 14:		Line 15:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/b7/3b7j_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/b7/3b7j_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 42:		Line 43:
	[[Category: Wu, D]]		[[Category: Wu, D]]
	[[Category: Zhang, L]]		[[Category: Zhang, L]]
		+	[[Category: Cytoplasm]]
	[[Category: Fabz complex]]		[[Category: Fabz complex]]
	[[Category: Juglone]]		[[Category: Juglone]]

OCA at 10:53, 8 February 2016

OCA — Mon, 08 Feb 2016 10:53:15 GMT

←Older revision		Revision as of 10:53, 8 February 2016
Line 2:		Line 2:
	<StructureSection load='3b7j' size='340' side='right' caption='[[3b7j]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='3b7j' size='340' side='right' caption='[[3b7j]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3b7j]] 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=3B7J OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3B7J FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3b7j]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_43504 Atcc 43504]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3B7J OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3B7J FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BEN:BENZAMIDINE'>BEN</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=JUG:5-HYDROXYNAPHTHALENE-1,4-DIONE'>JUG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BEN:BENZAMIDINE'>BEN</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=JUG:5-HYDROXYNAPHTHALENE-1,4-DIONE'>JUG</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2gll\|2gll]], [[2glp\|2glp]], [[2glm\|2glm]], [[2glv\|2glv]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2gll\|2gll]], [[2glp\|2glp]], [[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=210 ATCC 43504])</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=3b7j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3b7j OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3b7j RCSB], [http://www.ebi.ac.uk/pdbsum/3b7j 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=3b7j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3b7j OCA], [http://pdbe.org/3b7j PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3b7j RCSB], [http://www.ebi.ac.uk/pdbsum/3b7j 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]]
Line 18:		Line 18:
	<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=3b7j ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 28:		Line 28:
	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 3b7j" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 35:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Helicobacter pylori~~]]	+	[[Category: Atcc 43504]]
	[[Category: Jiang, H L]]		[[Category: Jiang, H L]]
	[[Category: Kong, Y H]]		[[Category: Kong, Y H]]

OCA at 22:49, 24 December 2014

OCA — Wed, 24 Dec 2014 22:49:37 GMT

←Older revision		Revision as of 22:49, 24 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3b7j]] 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=3B7J OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3B7J FirstGlance]. <br>		<table><tr><td colspan='2'>[[3b7j]] 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=3B7J OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3B7J FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BEN:BENZAMIDINE'>BEN</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=JUG:5-HYDROXYNAPHTHALENE-1,4-DIONE'>JUG</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BEN:BENZAMIDINE'>BEN</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=JUG:5-HYDROXYNAPHTHALENE-1,4-DIONE'>JUG</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2gll\|2gll]], [[2glp\|2glp]], [[2glm\|2glm]], [[2glv\|2glv]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2gll\|2gll]], [[2glp\|2glp]], [[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=3b7j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3b7j OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3b7j RCSB], [http://www.ebi.ac.uk/pdbsum/3b7j 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=3b7j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3b7j OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3b7j RCSB], [http://www.ebi.ac.uk/pdbsum/3b7j 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 L.]]	+	[[Category: Jiang, H L]]
-	[[Category: Kong, Y H.]]	+	[[Category: Kong, Y H]]
-	[[Category: Shen, X.]]	+	[[Category: Shen, X]]
-	[[Category: Wu, D.]]	+	[[Category: Wu, D]]
-	[[Category: Zhang, L.]]	+	[[Category: Zhang, L]]
	[[Category: Fabz complex]]		[[Category: Fabz complex]]
	[[Category: Juglone]]		[[Category: Juglone]]

OCA at 20:54, 2 October 2014

OCA — Thu, 02 Oct 2014 20:54:02 GMT

←Older revision		Revision as of 20:54, 2 October 2014
Line 1:		Line 1:
-	[[~~Image:~~3b7j.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of (3R)-Hydroxyacyl-Acyl Carrier Protein Dehydratase(FabZ) from Helicobacter pylori complexed with juglone==
		+	<StructureSection load='3b7j' size='340' side='right' caption='[[3b7j]], [[Resolution\|resolution]] 2.40Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3b7j]] 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=3B7J OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3B7J FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BEN:BENZAMIDINE'>BEN</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=JUG:5-HYDROXYNAPHTHALENE-1,4-DIONE'>JUG</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2gll\|2gll]], [[2glp\|2glp]], [[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=3b7j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3b7j OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3b7j RCSB], [http://www.ebi.ac.uk/pdbsum/3b7j 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/b7/3b7j_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 ==
		+	AIM: To investigate the inhibition features of the natural product juglone (5- hydroxy-1,4-naphthoquinone) against the three key enzymes from Helicobacter pylori (cystathionine gamma-synthase [HpCGS], malonyl-CoA:acyl carrier protein transacylase [HpFabD], and beta-hydroxyacyl-ACP dehydratase [HpFabZ]). METHODS: An enzyme inhibition assay against HpCGS was carried out by using a continuous coupled spectrophotometric assay approach. The inhibition assay of HpFabD was performed based on the alpha-ketoglutarate dehydrogenase-coupled system, while the inhibition assay for HpFabZ was monitored by detecting the decrease in absorbance at 260 nm with crotonoyl-CoA conversion to beta -hydroxybutyryl-CoA. The juglone/FabZ complex crystal was obtained by soaking juglone into the HpFabZ crystal, and the X-ray crystal structure of the complex was analyzed by molecular replacement approach. RESULTS: Juglone was shown to potently inhibit HpCGS, HpFabD, and HpFabZ with the half maximal inhibitory concentration IC50 values of 7.0 +/-0.7, 20 +/-1, and 30 +/-4 micromol/L, respectively. An inhibition-type study indicated that juglone was a non-competitive inhibitor of HpCGS against O-succinyl- L-homoserine (Ki=alphaKi=24 micromol/L), an uncompetitive inhibitor of HpFabD against malonyl-CoA (alphaKi=7.4 micromol/L), and a competitive inhibitor of HpFabZ against crotonoyl-CoA (Ki=6.8 micromol/L). Moreover, the crystal structure of the HpFabZ/juglone complex further revealed the essential binding pattern of juglone against HpFabZ at the atomic level. CONCLUSION: HpCGS, HpFabD, and HpFabZ are potential targets of juglone.

-	~~{{STRUCTURE_3b7j\| PDB=3b7j \| SCENE= }}~~	+	Natural product juglone targets three key enzymes from Helicobacter pylori: inhibition assay with crystal structure characterization.,Kong YH, Zhang L, Yang ZY, Han C, Hu LH, Jiang HL, Shen X Acta Pharmacol Sin. 2008 Jul;29(7):870-6. PMID:18565285<ref>PMID:18565285</ref>

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

-	~~{{ABSTRACT_PUBMED_18565285}}~~	+	==See Also==
-		+	*[[Beta-hydroxyacyl-acyl carrier protein dehydratase\|Beta-hydroxyacyl-acyl carrier protein dehydratase]]
-	==~~About this Structure~~==	+	== References ==
-	[[~~3b7j~~]] 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=3B7J OCA].	+	<references/>
-		+	__TOC__
-	==~~Reference~~==	+	</StructureSection>
-	<~~ref group="xtra">PMID:018565285<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Helicobacter pylori]]		[[Category: Helicobacter pylori]]
	[[Category: Jiang, H L.]]		[[Category: Jiang, H L.]]

OCA: Protected "3b7j" [edit=sysop:move=sysop]

OCA — Mon, 07 Jan 2013 18:34:01 GMT

Protected "3b7j" [edit=sysop:move=sysop]

←Older revision

Revision as of 18:34, 7 January 2013

OCA at 18:33, 7 January 2013

OCA — Mon, 07 Jan 2013 18:33:57 GMT

←Older revision		Revision as of 18:33, 7 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:3b7j.png\|left\|200px]]		[[Image:3b7j.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3b7j", 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_3b7j\| PDB=3b7j \| SCENE= }}		{{STRUCTURE_3b7j\| PDB=3b7j \| SCENE= }}

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

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_18565285}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 18565285 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_18565285}}		{{ABSTRACT_PUBMED_18565285}}

	==About this Structure==		==About this Structure==
-	~~3B7J~~ 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=3B7J OCA].	+	[[3b7j]] 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=3B7J OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~18565285~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:018565285</ref><references group="xtra"/>
	[[Category: Helicobacter pylori]]		[[Category: Helicobacter pylori]]
	[[Category: Jiang, H L.]]		[[Category: Jiang, H L.]]
Line 30:		Line 18:
	[[Category: Wu, D.]]		[[Category: Wu, D.]]
	[[Category: Zhang, L.]]		[[Category: Zhang, L.]]
-	[[Category: Cytoplasm]]
	[[Category: Fabz complex]]		[[Category: Fabz complex]]
	[[Category: Juglone]]		[[Category: Juglone]]
Line 36:		Line 23:
	[[Category: Lipid synthesis]]		[[Category: Lipid synthesis]]
	[[Category: Lyase]]		[[Category: Lyase]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 21:29:13 2009''

OCA at 19:29, 16 February 2009

OCA — Mon, 16 Feb 2009 19:29:14 GMT

←Older revision		Revision as of 19:29, 16 February 2009
Line 1:		Line 1:
	{{Seed}}		{{Seed}}
-	[[Image:3b7j.~~jpg~~\|left\|200px]]	+	[[Image:3b7j.png\|left\|200px]]

	<!--		<!--
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	3B7J 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=3B7J OCA].	+	3B7J 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=3B7J OCA].

	==Reference==		==Reference==
-	Natural product juglone targets three key enzymes from Helicobacter pylori: inhibition assay with crystal structure characterization., Kong YH, Zhang L, Yang ZY, Han C, Hu LH, Jiang HL, Shen X, Acta Pharmacol Sin. 2008 Jul;29(7):870-6. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/18565285 18565285]~~	+	<ref group="xtra">PMID:18565285</ref><references group="xtra"/>
	[[Category: Helicobacter pylori]]		[[Category: Helicobacter pylori]]
-	[[Category: Single protein]]
	[[Category: Jiang, H L.]]		[[Category: Jiang, H L.]]
	[[Category: Kong, Y H.]]		[[Category: Kong, Y H.]]
Line 38:		Line 37:
	[[Category: Lyase]]		[[Category: Lyase]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Wed Sep 3 13~~:06:~~49 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 21:29:13 2009''

OCA at 10:06, 3 September 2008

OCA — Wed, 03 Sep 2008 10:06:50 GMT

←Older revision		Revision as of 10:06, 3 September 2008
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{Seed}}
		+	[[Image:3b7j.jpg\|left\|200px]]

-	The ~~entry 3b7j~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3b7j", 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_3b7j\| PDB=3b7j \| SCENE= }}

-	~~Authors: Zhang, L., Kong, Y., Wu, D., Shen, X., Jiang, H.~~	+	===Crystal structure of (3R)-Hydroxyacyl-Acyl Carrier Protein Dehydratase(FabZ) from Helicobacter pylori complexed with juglone===

-	Description: Crystal structure of (3R)-Hydroxyacyl-Acyl Carrier Protein Dehydratase(FabZ) from Helicobacter pylori complexed with juglone

		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_18565285}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 18565285 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_18565285}}

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Jun 11 09~~:24:29 2008''	+	==About this Structure==
		+	3B7J 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=3B7J OCA].
		+
		+	==Reference==
		+	Natural product juglone targets three key enzymes from Helicobacter pylori: inhibition assay with crystal structure characterization., Kong YH, Zhang L, Yang ZY, Han C, Hu LH, Jiang HL, Shen X, Acta Pharmacol Sin. 2008 Jul;29(7):870-6. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/18565285 18565285]
		+	[[Category: Helicobacter pylori]]
		+	[[Category: Single protein]]
		+	[[Category: Jiang, H L.]]
		+	[[Category: Kong, Y H.]]
		+	[[Category: Shen, X.]]
		+	[[Category: Wu, D.]]
		+	[[Category: Zhang, L.]]
		+	[[Category: Cytoplasm]]
		+	[[Category: Fabz complex]]
		+	[[Category: Juglone]]
		+	[[Category: Lipid a biosynthesis]]
		+	[[Category: Lipid synthesis]]
		+	[[Category: Lyase]]
		+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Sep 3 13:06:49 2008''