2ztm - Revision history

OCA at 13:54, 1 November 2023

OCA — Wed, 01 Nov 2023 13:54:12 GMT

←Older revision		Revision as of 13:54, 1 November 2023
Line 3:		Line 3:
	<StructureSection load='2ztm' size='340' side='right'caption='[[2ztm]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='2ztm' size='340' side='right'caption='[[2ztm]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2ztm]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"bacterium_fragi"_eichholz_1902 "bacterium~~ fragi~~" eichholz 1902~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZTM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2ZTM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2ztm]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_fragi Pseudomonas fragi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZTM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2ZTM FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=3HL:(3S)~~-3~~-HYDROXYBUTANOIC+ACID'>3HL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</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]] 2.3Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max~~-~~height: 3em;~~'>~~[[1wmb\|1wmb]], [[1x1t\|1x1t]], [[2ztl\|2ztl]]~~</~~div~~><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=3HL:(3S)-3-HYDROXYBUTANOIC+ACID'>3HL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene></td></tr>
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks'>[https~~:~~//en.wikipedia.org/wiki/3~~-~~hydroxybutyrate_dehydrogenase 3~~-~~hydroxybutyrate dehydrogenase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.30 1.1.1.30]~~ </~~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=2ztm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ztm OCA], [https://pdbe.org/2ztm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ztm RCSB], [https://www.ebi.ac.uk/pdbsum/2ztm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ztm 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=2ztm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ztm OCA], [https://pdbe.org/2ztm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ztm RCSB], [https://www.ebi.ac.uk/pdbsum/2ztm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ztm ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q5KST5_PSEFR Q5KST5_PSEFR]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 32:		Line 33:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Bacterium fragi eichholz 1902]]
-	[[Category: 3-hydroxybutyrate dehydrogenase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Ito, K]]	+	[[Category: Pseudomonas fragi]]
-	[[Category: Nakajima, Y]]	+	[[Category: Ito K]]
-	[[Category: Nakashima, K]]	+	[[Category: Nakajima Y]]
-	[[Category: Yoshimoto, T]]	+	[[Category: Nakashima K]]
-	~~[[Category: Hbdh]]~~	+	[[Category: Yoshimoto T]]
-	~~[[Category: Nad]]~~	+
-	~~[[Category: Nadh]]~~	+
-	~~[[Category: Oxidoreductase]]~~	+
-	~~[[Category: Sdr family]]~~	+
-	~~[[Category: Short chain dehydrogenase redactase~~]]	+

OCA at 07:20, 10 November 2021

OCA — Wed, 10 Nov 2021 07:20:07 GMT

←Older revision		Revision as of 07:20, 10 November 2021
Line 3:		Line 3:
	<StructureSection load='2ztm' size='340' side='right'caption='[[2ztm]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='2ztm' size='340' side='right'caption='[[2ztm]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2ztm]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"bacterium_fragi"_eichholz_1902 "bacterium fragi" eichholz 1902]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZTM OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=2ZTM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2ztm]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/"bacterium_fragi"_eichholz_1902 "bacterium fragi" eichholz 1902]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZTM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2ZTM FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=3HL:(3S)-3-HYDROXYBUTANOIC+ACID'>3HL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=3HL:(3S)-3-HYDROXYBUTANOIC+ACID'>3HL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1wmb\|1wmb]], [[1x1t\|1x1t]], [[2ztl\|2ztl]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1wmb\|1wmb]], [[1x1t\|1x1t]], [[2ztl\|2ztl]]</div></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/3-hydroxybutyrate_dehydrogenase 3-hydroxybutyrate dehydrogenase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.30 1.1.1.30] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/3-hydroxybutyrate_dehydrogenase 3-hydroxybutyrate dehydrogenase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.30 1.1.1.30] </span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=2ztm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ztm OCA], [~~http~~://pdbe.org/2ztm PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2ztm RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2ztm PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2ztm 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=2ztm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ztm OCA], [https://pdbe.org/2ztm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ztm RCSB], [https://www.ebi.ac.uk/pdbsum/2ztm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ztm ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==

OCA at 12:09, 29 July 2020

OCA — Wed, 29 Jul 2020 12:09:35 GMT

←Older revision		Revision as of 12:09, 29 July 2020
Line 1:		Line 1:

	==T190S mutant of D-3-hydroxybutyrate dehydrogenase==		==T190S mutant of D-3-hydroxybutyrate dehydrogenase==
-	<StructureSection load='2ztm' size='340' side='right' caption='[[2ztm]], [[Resolution\|resolution]] 2.30Å' scene=''>	+	<StructureSection load='2ztm' size='340' side='right'caption='[[2ztm]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2ztm]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacterium_fragi"_eichholz_1902 "bacterium fragi" eichholz 1902]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZTM OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2ZTM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2ztm]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacterium_fragi"_eichholz_1902 "bacterium fragi" eichholz 1902]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZTM OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2ZTM FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=3HL:(3S)-3-HYDROXYBUTANOIC+ACID'>3HL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=3HL:(3S)-3-HYDROXYBUTANOIC+ACID'>3HL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1wmb\|1wmb]], [[1x1t\|1x1t]], [[2ztl\|2ztl]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1wmb\|1wmb]], [[1x1t\|1x1t]], [[2ztl\|2ztl]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/3-hydroxybutyrate_dehydrogenase 3-hydroxybutyrate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.30 1.1.1.30] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/3-hydroxybutyrate_dehydrogenase 3-hydroxybutyrate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.30 1.1.1.30] </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=2ztm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ztm OCA], [http://pdbe.org/2ztm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2ztm RCSB], [http://www.ebi.ac.uk/pdbsum/2ztm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2ztm ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=2ztm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ztm OCA], [http://pdbe.org/2ztm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2ztm RCSB], [http://www.ebi.ac.uk/pdbsum/2ztm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2ztm ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 34:		Line 34:
	[[Category: Bacterium fragi eichholz 1902]]		[[Category: Bacterium fragi eichholz 1902]]
	[[Category: 3-hydroxybutyrate dehydrogenase]]		[[Category: 3-hydroxybutyrate dehydrogenase]]
		+	[[Category: Large Structures]]
	[[Category: Ito, K]]		[[Category: Ito, K]]
	[[Category: Nakajima, Y]]		[[Category: Nakajima, Y]]

OCA at 07:20, 18 October 2018

OCA — Thu, 18 Oct 2018 07:20:18 GMT

←Older revision		Revision as of 07:20, 18 October 2018
Line 3:		Line 3:
	<StructureSection load='2ztm' size='340' side='right' caption='[[2ztm]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='2ztm' size='340' side='right' caption='[[2ztm]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2ztm]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Atcc_4973 Atcc 4973~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZTM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZTM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2ztm]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacterium_fragi"_eichholz_1902 "bacterium fragi" eichholz 1902]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZTM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZTM FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=3HL:(3S)-3-HYDROXYBUTANOIC+ACID'>3HL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=3HL:(3S)-3-HYDROXYBUTANOIC+ACID'>3HL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1wmb\|1wmb]], [[1x1t\|1x1t]], [[2ztl\|2ztl]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1wmb\|1wmb]], [[1x1t\|1x1t]], [[2ztl\|2ztl]]</td></tr>
Line 13:		Line 13:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/zt/2ztm_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/zt/2ztm_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 32:		Line 32:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bacterium fragi eichholz 1902]]
	[[Category: 3-hydroxybutyrate dehydrogenase]]		[[Category: 3-hydroxybutyrate dehydrogenase]]
-	[[Category: Atcc 4973]]
	[[Category: Ito, K]]		[[Category: Ito, K]]
	[[Category: Nakajima, Y]]		[[Category: Nakajima, Y]]

OCA at 10:22, 11 August 2016

OCA — Thu, 11 Aug 2016 10:22:36 GMT

←Older revision		Revision as of 10:22, 11 August 2016
Line 1:		Line 1:
		+
	==T190S mutant of D-3-hydroxybutyrate dehydrogenase==		==T190S mutant of D-3-hydroxybutyrate dehydrogenase==
	<StructureSection load='2ztm' size='340' side='right' caption='[[2ztm]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='2ztm' size='340' side='right' caption='[[2ztm]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2ztm]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Pseudomonas_fragi Pseudomonas fragi~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZTM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZTM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2ztm]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_4973 Atcc 4973]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZTM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZTM FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=3HL:(3S)-3-HYDROXYBUTANOIC+ACID'>3HL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=3HL:(3S)-3-HYDROXYBUTANOIC+ACID'>3HL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1wmb\|1wmb]], [[1x1t\|1x1t]], [[2ztl\|2ztl]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1wmb\|1wmb]], [[1x1t\|1x1t]], [[2ztl\|2ztl]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/3-hydroxybutyrate_dehydrogenase 3-hydroxybutyrate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.30 1.1.1.30] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/3-hydroxybutyrate_dehydrogenase 3-hydroxybutyrate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.30 1.1.1.30] </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=2ztm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ztm OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ztm RCSB], [http://www.ebi.ac.uk/pdbsum/2ztm 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=2ztm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ztm OCA], [http://pdbe.org/2ztm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2ztm RCSB], [http://www.ebi.ac.uk/pdbsum/2ztm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2ztm ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 16:		Line 17:
	<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=2ztm ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 26:		Line 27:
	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 2ztm" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
Line 31:		Line 33:
	</StructureSection>		</StructureSection>
	[[Category: 3-hydroxybutyrate dehydrogenase]]		[[Category: 3-hydroxybutyrate dehydrogenase]]
-	[[Category: ~~Pseudomonas fragi~~]]	+	[[Category: Atcc 4973]]
	[[Category: Ito, K]]		[[Category: Ito, K]]
	[[Category: Nakajima, Y]]		[[Category: Nakajima, Y]]

OCA at 11:35, 20 January 2015

OCA — Tue, 20 Jan 2015 11:35:36 GMT

←Older revision		Revision as of 11:35, 20 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2ztm]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_fragi Pseudomonas fragi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZTM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZTM FirstGlance]. <br>		<table><tr><td colspan='2'>[[2ztm]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_fragi Pseudomonas fragi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZTM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZTM FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=3HL:(3S)-3-HYDROXYBUTANOIC+ACID'>3HL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=3HL:(3S)-3-HYDROXYBUTANOIC+ACID'>3HL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1wmb\|1wmb]], [[1x1t\|1x1t]], [[2ztl\|2ztl]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1wmb\|1wmb]], [[1x1t\|1x1t]], [[2ztl\|2ztl]]</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/3-hydroxybutyrate_dehydrogenase 3-hydroxybutyrate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.30 1.1.1.30] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/3-hydroxybutyrate_dehydrogenase 3-hydroxybutyrate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.30 1.1.1.30] </span></td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ztm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ztm OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ztm RCSB], [http://www.ebi.ac.uk/pdbsum/2ztm 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=2ztm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ztm OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ztm RCSB], [http://www.ebi.ac.uk/pdbsum/2ztm PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 32:		Line 32:
	[[Category: 3-hydroxybutyrate dehydrogenase]]		[[Category: 3-hydroxybutyrate dehydrogenase]]
	[[Category: Pseudomonas fragi]]		[[Category: Pseudomonas fragi]]
-	[[Category: Ito, K.]]	+	[[Category: Ito, K]]
-	[[Category: Nakajima, Y.]]	+	[[Category: Nakajima, Y]]
-	[[Category: Nakashima, K.]]	+	[[Category: Nakashima, K]]
-	[[Category: Yoshimoto, T.]]	+	[[Category: Yoshimoto, T]]
	[[Category: Hbdh]]		[[Category: Hbdh]]
	[[Category: Nad]]		[[Category: Nad]]

OCA at 05:32, 2 October 2014

OCA — Thu, 02 Oct 2014 05:32:46 GMT

←Older revision		Revision as of 05:32, 2 October 2014
Line 1:		Line 1:
-	[[~~Image:~~2ztm.~~png~~\|~~left~~\|200px]]	+	==T190S mutant of D-3-hydroxybutyrate dehydrogenase==
		+	<StructureSection load='2ztm' size='340' side='right' caption='[[2ztm]], [[Resolution\|resolution]] 2.30Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2ztm]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_fragi Pseudomonas fragi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZTM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZTM FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=3HL:(3S)-3-HYDROXYBUTANOIC+ACID'>3HL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1wmb\|1wmb]], [[1x1t\|1x1t]], [[2ztl\|2ztl]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/3-hydroxybutyrate_dehydrogenase 3-hydroxybutyrate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.30 1.1.1.30] </span></td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ztm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ztm OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ztm RCSB], [http://www.ebi.ac.uk/pdbsum/2ztm 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/zt/2ztm_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 ==
		+	D-3-Hydroxybutyrate dehydrogenase (HBDH) from Pseudomonas fragi showed a strict stereospecificity to the d-enantiomer of 3-hydroxybutyrate (d-3-HB) as a substrate. The l-enantiomer acts as a competitive inhibitor, with a K(i) value comparable to the K(m) value for d-3-HB. We have determined the crystal structures of the ternary complex of HBDH-NAD(+)-l-3-HB and the binary complex of HBDH-NAD(+). The former structure showed a so-called closed-form conformation, which is considered an active form for catalysis, while the latter stayed mostly in a open-form conformation. The determined structures along with the site-directed mutagenesis confirmed the substrate recognition mechanism that we proposed previously. The hydrogen bonding interaction between Gln196, located in the moving helix, and the carboxyl group of the substrate/inhibitor is important for the stable ternary complex formation. Finally, the crystal structures of the Thr190 mutants, T190S and T190A, indicate that the Thr190 is a key residue for the open-closed conformational change. T190S retained 37% of the activity. In T190A, however, the activity decreased to 0.1% that of the wild-type enzyme. Fixing the position of the hydroxyl group of Thr190 to form hydrogen bonds to the pyrophosphate moiety and the carboxamide of NAD(+) seems to be a significant factor for the open-closed conformational change.

-	~~{{STRUCTURE_2ztm\| PDB=2ztm \| SCENE= }}~~	+	Closed complex of the D-3-hydroxybutyrate dehydrogenase induced by an enantiomeric competitive inhibitor.,Nakashima K, Ito K, Nakajima Y, Yamazawa R, Miyakawa S, Yoshimoto T J Biochem. 2009 Apr;145(4):467-79. Epub 2009 Jan 3. PMID:19122202<ref>PMID:19122202</ref>

-	~~===T190S mutant~~ of ~~D-3-hydroxybutyrate dehydrogenase===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_19122202}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[2ztm]] is a 4 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Pseudomonas_fragi Pseudomonas fragi]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2ZTM OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:019122202<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: 3-hydroxybutyrate dehydrogenase]]		[[Category: 3-hydroxybutyrate dehydrogenase]]
	[[Category: Pseudomonas fragi]]		[[Category: Pseudomonas fragi]]

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

OCA — Mon, 07 Jan 2013 20:17:55 GMT

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

←Older revision

Revision as of 20:17, 7 January 2013

OCA at 20:17, 7 January 2013

OCA — Mon, 07 Jan 2013 20:17:53 GMT

←Older revision		Revision as of 20:17, 7 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2ztm.png\|left\|200px]]		[[Image:2ztm.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2ztm", 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_2ztm\| PDB=2ztm \| SCENE= }}		{{STRUCTURE_2ztm\| PDB=2ztm \| SCENE= }}

	===T190S mutant of D-3-hydroxybutyrate dehydrogenase===		===T190S mutant of D-3-hydroxybutyrate dehydrogenase===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_19122202}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 19122202 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_19122202}}		{{ABSTRACT_PUBMED_19122202}}

	==About this Structure==		==About this Structure==
-	~~2ZTM~~ is a 4 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Pseudomonas_fragi Pseudomonas fragi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZTM OCA].	+	[[2ztm]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_fragi Pseudomonas fragi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZTM OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~19122202~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:019122202</ref><references group="xtra"/>
	[[Category: 3-hydroxybutyrate dehydrogenase]]		[[Category: 3-hydroxybutyrate dehydrogenase]]
	[[Category: Pseudomonas fragi]]		[[Category: Pseudomonas fragi]]
Line 36:		Line 24:
	[[Category: Sdr family]]		[[Category: Sdr family]]
	[[Category: Short chain dehydrogenase redactase]]		[[Category: Short chain dehydrogenase redactase]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Sep 21 19:22:37 2009''

OCA at 16:22, 21 September 2009

OCA — Mon, 21 Sep 2009 16:22:38 GMT

←Older revision		Revision as of 16:22, 21 September 2009
Line 12:		Line 12:
	===T190S mutant of D-3-hydroxybutyrate dehydrogenase===		===T190S mutant of D-3-hydroxybutyrate dehydrogenase===

		+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_19122202}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 19122202 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_19122202}}

	==About this Structure==		==About this Structure==
Line 31:		Line 37:
	[[Category: Short chain dehydrogenase redactase]]		[[Category: Short chain dehydrogenase redactase]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Sep 21 16:42:25 2009''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Sep 21 19:22:37 2009''