3dp2 - Revision history

OCA at 15:13, 1 November 2023

2023-11-01T15:13:10Z

←Older revision		Revision as of 15:13, 1 November 2023
Line 3:		Line 3:
	<StructureSection load='3dp2' size='340' side='right'caption='[[3dp2]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='3dp2' size='340' side='right'caption='[[3dp2]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3dp2]] 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=3DP2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3DP2 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3dp2]] 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=3DP2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3DP2 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=4BE:4-BROMO-N-[(1E)-(3,5-DIBROMO-2,4-DIHYDROXYPHENYL)METHYLIDENE]BENZOHYDRAZIDE'>4BE</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]] 2.4Å</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]], [[3doy\|3doy]], [[3doz\|3doz]], [[3dp0\|3dp0]], [[3dp1\|3dp1]], [[3dp3\|3dp3]]</div></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=4BE:4-BROMO-N-[(1E)-(3,5-DIBROMO-2,4-DIHYDROXYPHENYL)METHYLIDENE]BENZOHYDRAZIDE'>4BE</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=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=3dp2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dp2 OCA], [https://pdbe.org/3dp2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3dp2 RCSB], [https://www.ebi.ac.uk/pdbsum/3dp2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3dp2 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=3dp2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dp2 OCA], [https://pdbe.org/3dp2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3dp2 RCSB], [https://www.ebi.ac.uk/pdbsum/3dp2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3dp2 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]]
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Atcc 43504~~]]	+	[[Category: Helicobacter pylori]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: He, L]]	+	[[Category: He L]]
-	[[Category: Jiang, H]]	+	[[Category: Jiang H]]
-	[[Category: Liu, H]]	+	[[Category: Liu H]]
-	[[Category: Liu, X]]	+	[[Category: Liu X]]
-	[[Category: Shen, X]]	+	[[Category: Shen X]]
-	[[Category: Zhang, L]]	+	[[Category: Zhang L]]
-	~~[[Category: Fabz complex]]~~	+
-	~~[[Category: Lyase~~]]	+

OCA at 08:04, 9 February 2022

2022-02-09T08:04:32Z

←Older revision		Revision as of 08:04, 9 February 2022
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	==Crystal structure of (3R)-Hydroxyacyl-Acyl Carrier Protein Dehydratase (FabZ) from Helicobacter pylori in complex with compound 3j==		==Crystal structure of (3R)-Hydroxyacyl-Acyl Carrier Protein Dehydratase (FabZ) from Helicobacter pylori in complex with compound 3j==
-	<StructureSection load='3dp2' size='340' side='right' caption='[[3dp2]], [[Resolution\|resolution]] 2.40Å' scene=''>	+	<StructureSection load='3dp2' size='340' side='right'caption='[[3dp2]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3dp2]] 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=3DP2 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3DP2 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3dp2]] 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=3DP2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3DP2 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=4BE:4-BROMO-N-[(1E)-(3,5-DIBROMO-2,4-DIHYDROXYPHENYL)METHYLIDENE]BENZOHYDRAZIDE'>4BE</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=4BE:4-BROMO-N-[(1E)-(3,5-DIBROMO-2,4-DIHYDROXYPHENYL)METHYLIDENE]BENZOHYDRAZIDE'>4BE</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]], [[3doy\|3doy]], [[3doz\|3doz]], [[3dp0\|3dp0]], [[3dp1\|3dp1]], [[3dp3\|3dp3]]</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]], [[3doy\|3doy]], [[3doz\|3doz]], [[3dp0\|3dp0]], [[3dp1\|3dp1]], [[3dp3\|3dp3]]</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=3dp2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dp2 OCA], [~~http~~://pdbe.org/3dp2 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3dp2 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3dp2 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3dp2 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=3dp2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dp2 OCA], [https://pdbe.org/3dp2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3dp2 RCSB], [https://www.ebi.ac.uk/pdbsum/3dp2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3dp2 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: He, L]]		[[Category: He, L]]
	[[Category: Jiang, H]]		[[Category: Jiang, H]]

OCA at 09:39, 14 November 2018

2018-11-14T09:39:16Z

←Older revision		Revision as of 09:39, 14 November 2018
Line 1:		Line 1:
		+
	==Crystal structure of (3R)-Hydroxyacyl-Acyl Carrier Protein Dehydratase (FabZ) from Helicobacter pylori in complex with compound 3j==		==Crystal structure of (3R)-Hydroxyacyl-Acyl Carrier Protein Dehydratase (FabZ) from Helicobacter pylori in complex with compound 3j==
	<StructureSection load='3dp2' size='340' side='right' caption='[[3dp2]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='3dp2' size='340' side='right' caption='[[3dp2]], [[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]], [[3doy\|3doy]], [[3doz\|3doz]], [[3dp0\|3dp0]], [[3dp1\|3dp1]], [[3dp3\|3dp3]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2gll\|2gll]], [[3doy\|3doy]], [[3doz\|3doz]], [[3dp0\|3dp0]], [[3dp1\|3dp1]], [[3dp3\|3dp3]]</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=3dp2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dp2 OCA], [http://pdbe.org/3dp2 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3dp2 RCSB], [http://www.ebi.ac.uk/pdbsum/3dp2 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=3dp2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dp2 OCA], [http://pdbe.org/3dp2 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3dp2 RCSB], [http://www.ebi.ac.uk/pdbsum/3dp2 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3dp2 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/dp/3dp2_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/dp/3dp2_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>

OCA at 16:51, 8 February 2016

2016-02-08T16:51:48Z

←Older revision		Revision as of 16:51, 8 February 2016
Line 2:		Line 2:
	<StructureSection load='3dp2' size='340' side='right' caption='[[3dp2]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='3dp2' size='340' side='right' caption='[[3dp2]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3dp2]] 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=3DP2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3DP2 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3dp2]] 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=3DP2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3DP2 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=4BE:4-BROMO-N-[(1E)-(3,5-DIBROMO-2,4-DIHYDROXYPHENYL)METHYLIDENE]BENZOHYDRAZIDE'>4BE</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=4BE:4-BROMO-N-[(1E)-(3,5-DIBROMO-2,4-DIHYDROXYPHENYL)METHYLIDENE]BENZOHYDRAZIDE'>4BE</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]], [[3doy\|3doy]], [[3doz\|3doz]], [[3dp0\|3dp0]], [[3dp1\|3dp1]], [[3dp3\|3dp3]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2gll\|2gll]], [[3doy\|3doy]], [[3doz\|3doz]], [[3dp0\|3dp0]], [[3dp1\|3dp1]], [[3dp3\|3dp3]]</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=3dp2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dp2 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3dp2 RCSB], [http://www.ebi.ac.uk/pdbsum/3dp2 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=3dp2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dp2 OCA], [http://pdbe.org/3dp2 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3dp2 RCSB], [http://www.ebi.ac.uk/pdbsum/3dp2 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=3dp2 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 3dp2" style="background-color:#fffaf0;"></div>

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

OCA at 00:48, 25 December 2014

2014-12-25T00:48:03Z

←Older revision		Revision as of 00:48, 25 December 2014
Line 8:		Line 8:
	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3dp2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dp2 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3dp2 RCSB], [http://www.ebi.ac.uk/pdbsum/3dp2 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=3dp2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dp2 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3dp2 RCSB], [http://www.ebi.ac.uk/pdbsum/3dp2 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]]

OCA at 07:52, 12 November 2014

2014-11-12T07:52:52Z

←Older revision		Revision as of 07:52, 12 November 2014
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-	[[~~Image:~~3dp2.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of (3R)-Hydroxyacyl-Acyl Carrier Protein Dehydratase (FabZ) from Helicobacter pylori in complex with compound 3j==
		+	<StructureSection load='3dp2' size='340' side='right' caption='[[3dp2]], [[Resolution\|resolution]] 2.40Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3dp2]] 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=3DP2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3DP2 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=4BE:4-BROMO-N-[(1E)-(3,5-DIBROMO-2,4-DIHYDROXYPHENYL)METHYLIDENE]BENZOHYDRAZIDE'>4BE</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]], [[3doy\|3doy]], [[3doz\|3doz]], [[3dp0\|3dp0]], [[3dp1\|3dp1]], [[3dp3\|3dp3]]</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='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=3dp2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dp2 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3dp2 RCSB], [http://www.ebi.ac.uk/pdbsum/3dp2 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/dp/3dp2_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 ==
		+	The discovery of HpFabZ inhibitors is now of special interest in the treatment of various gastric diseases. In this work, three series of derivatives (compounds 3, 4, and 5) were designed, synthesized, and their biological activities were investigated as potential HpFabZ inhibitors in a two phased manner. First, we designed and synthesized two series of derivatives (3a-r and 4a-u) and evaluated the enzyme-based assay against HpFabZ. Five compounds (3i-k, 3m, and 3q) showed potential inhibitory activity, with IC(50) values less than 2 muM. Second, a focused combinatorial library containing 280 molecules was designed employing the LD1.0 program. Twelve compounds (5a-l) were selected and synthesized. The activity of the most potent compound 5h (IC(50) = 0.86 muM) was 46 times higher than that of the hit 1. The high hit rate and the potency of the new HpFabZ inhibitors demonstrated the efficiency of the strategy for the focused library design and virtual screening.

-	~~{{STRUCTURE_3dp2\| PDB=3dp2 \| SCENE= }}~~	+	Discovering potent inhibitors against the beta-hydroxyacyl-acyl carrier protein dehydratase (FabZ) of Helicobacter pylori: structure-based design, synthesis, bioassay, and crystal structure determination.,He L, Zhang L, Liu X, Li X, Zheng M, Li H, Yu K, Chen K, Shen X, Jiang H, Liu H J Med Chem. 2009 Apr 23;52(8):2465-81. PMID:19309082<ref>PMID:19309082</ref>

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

-	~~{{ABSTRACT_PUBMED_19309082}}~~	+	==See Also==
-		+	*[[Beta-hydroxyacyl-acyl carrier protein dehydratase\|Beta-hydroxyacyl-acyl carrier protein dehydratase]]
-	==~~About this Structure~~==	+	== References ==
-	[[~~3dp2~~]] 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=3DP2 OCA].	+	<references/>
-		+	__TOC__
-	==~~Reference~~==	+	</StructureSection>
-	<~~ref group="xtra">PMID:019309082<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Helicobacter pylori]]		[[Category: Helicobacter pylori]]
-	[[Category: He, L.]]	+	[[Category: He, L]]
-	[[Category: Jiang, H.]]	+	[[Category: Jiang, H]]
-	[[Category: Liu, H.]]	+	[[Category: Liu, H]]
-	[[Category: Liu, X.]]	+	[[Category: Liu, X]]
-	[[Category: Shen, X.]]	+	[[Category: Shen, X]]
-	[[Category: Zhang, L.]]	+	[[Category: Zhang, L]]
	[[Category: Fabz complex]]		[[Category: Fabz complex]]
	[[Category: Lyase]]		[[Category: Lyase]]

OCA: Protected "3dp2" [edit=sysop:move=sysop]

2013-01-07T20:53:40Z

Protected "3dp2" [edit=sysop:move=sysop]

←Older revision

Revision as of 20:53, 7 January 2013

OCA at 20:53, 7 January 2013

2013-01-07T20:53:38Z

←Older revision		Revision as of 20:53, 7 January 2013
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-	{{Seed}}
	[[Image:3dp2.png\|left\|200px]]		[[Image:3dp2.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3dp2", 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_3dp2\| PDB=3dp2 \| SCENE= }}		{{STRUCTURE_3dp2\| PDB=3dp2 \| SCENE= }}

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

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_19309082}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 19309082 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_19309082}}		{{ABSTRACT_PUBMED_19309082}}

	==About this Structure==		==About this Structure==
-	~~3DP2~~ 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=3DP2 OCA].	+	[[3dp2]] 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=3DP2 OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~19309082~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:019309082</ref><references group="xtra"/>
	[[Category: Helicobacter pylori]]		[[Category: Helicobacter pylori]]
	[[Category: He, L.]]		[[Category: He, L.]]
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	[[Category: Fabz complex]]		[[Category: Fabz complex]]
	[[Category: Lyase]]		[[Category: Lyase]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul 1 09:52:33 2009''

OCA at 06:52, 1 July 2009

2009-07-01T06:52:35Z

←Older revision		Revision as of 06:52, 1 July 2009
Line 1:		Line 1:
	{{Seed}}		{{Seed}}
-	[[Image:3dp2.~~jpg~~\|left\|200px]]	+	[[Image:3dp2.png\|left\|200px]]

	<!--		<!--
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	[[Category: Lyase]]		[[Category: Lyase]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~May~~ ~~6 10~~:27:12 2009''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul 1 09:52:33 2009''

OCA at 07:27, 6 May 2009

2009-05-06T07:27:14Z

←Older revision		Revision as of 07:27, 6 May 2009
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-	~~'''Unreleased structure'''~~	+	{{Seed}}
		+	[[Image:3dp2.jpg\|left\|200px]]

-	The ~~entry 3dp2~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3dp2", 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_3dp2\| PDB=3dp2 \| SCENE= }}

-	~~Authors: Zhang, L., He, L., Liu, X., Liu, H., Shen, X., Jiang, H.~~	+	===Crystal structure of (3R)-Hydroxyacyl-Acyl Carrier Protein Dehydratase (FabZ) from Helicobacter pylori in complex with compound 3j===

-	Description: Crystal structure of (3R)-Hydroxyacyl-Acyl Carrier Protein Dehydratase (FabZ) from Helicobacter pylori in complex with compound 3j

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Aug~~ 6 12:28:~~47 2008~~''	+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_19309082}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 19309082 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_19309082}}
		+
		+	==About this Structure==
		+	3DP2 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=3DP2 OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:19309082</ref><references group="xtra"/>
		+	[[Category: Helicobacter pylori]]
		+	[[Category: He, L.]]
		+	[[Category: Jiang, H.]]
		+	[[Category: Liu, H.]]
		+	[[Category: Liu, X.]]
		+	[[Category: Shen, X.]]
		+	[[Category: Zhang, L.]]
		+	[[Category: Fabz complex]]
		+	[[Category: Lyase]]
		+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed May 6 10:27:12 2009''